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Conserved domains on  [gi|755562186|ref|XP_011245398|]
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RNA polymerase II subunit A C-terminal domain phosphatase isoform X2 [Mus musculus]

Protein Classification

HAD_FCP1-like and FCP1_C domain-containing protein( domain architecture ID 12856693)

protein containing domains HAD_FCP1-like, BRCT_CTDP1, and FCP1_C

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
FCP1_C pfam09309
FCP1, C-terminal; The C-terminal domain of FCP-1 is required for interaction with the carboxy ...
 587-841 4.25e-162

FCP1, C-terminal; The C-terminal domain of FCP-1 is required for interaction with the carboxy terminal domain of RAP74. Interaction relies extensively on van der Waals contacts between hydrophobic residues situated within alpha-helices in both domains.


:

Pssm-ID: 462751  Cd Length: 254  Bit Score: 471.22  E-value: 4.25e-162
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  587 ERWDKVEEQLFPLIDDDTRTHRDNSPAVFPDRHSVLPTALFHPTPIHSKAHPGPEVRIYDSNTGKLIRMGPQGSAPAPSS 666
Cdd:pfam09309   1 ERWDRVEEQLFPLKDDYTKTQRENSPAAFPDRQGALPTALFHPTPIHPKAQPGPEVRIYDPNTGKLIRKGPQGSSPGPPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  667 APLNHGEPSSFRAVQPHQQQMFGEELPESQDGEQPGPARRKRQPSMSEAMPLYTLCKEDLESMDKEVDDILGEGSDDSDI 746
Cdd:pfam09309  81 SLPVHGEHSSFRAVQPHQQQMFGEELPDSQDGEQPGPSRRKRQPSMSETMPLYTLCKEDLESMDKEVDDILGEGSDDSDS 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  747 EKKKPEDQDNEQERAPKPRKPRAPGIRREQPVGLPSSGERSTPGMRgPRGHKRKLNEEDAASESSGESSNDDEEGSSSEA 826
Cdd:pfam09309 161 EKKKPEEQEEEKEEEPQPREPKALGARRERPLGSTSSSERSAAGSR-PRGHKRKLNEEDAASESSKESSNEDEEGSSSEA 239

                         250
                  ....*....|....*
gi 755562186  827 DEMAAALEAELNDLM 841
Cdd:pfam09309 240 DEMAAALEAELNDFM 254
FCP1_euk TIGR02250
FCP1-like phosphatase, phosphatase domain; This model represents the phosphatase domain of the ...
 58-204 9.74e-71

FCP1-like phosphatase, phosphatase domain; This model represents the phosphatase domain of the humanRNA polymerase II subunit A C-terminal domain phosphatase (FCP1) and closely related phosphatases from eukaryotes including plants, fungi, and slime mold. This domain is a member of the haloacid dehalogenase (HAD) superfamily by virtue of a conserved set of three catalytic motifs and a conserved fold as predicted by PSIPRED. The third motif in this family is distinctive (hhhhDDppphW). This domain is classified as a "Class III" HAD, since there is no large "cap" domain found between motifs 1 and 2 or motifs 2 and 3. This domain is related to domains found in the human NLI interacting factor-like phosphatases, and together both are detected by the pfam03031.


:

Pssm-ID: 131304  Cd Length: 156  Bit Score: 229.47  E-value: 9.74e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186   58 LHRNRKLVLMVDLDQTLIHTTEQHCPQMSNK------------GIFHFQLGRgePMLHTRLRPHCKDFLEKIAKLYELHV 125
Cdd:TIGR02250   1 LLREKKLHLVLDLDQTLIHTTKDPTLSEWEKydieepnsetrrDLRKFNLGT--MWYLTKLRPFLHEFLKEASKLYEMHV 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  126 FTFGSRLYAHTIAGFLDPEKKLFSHRILSRDECIDPFSKTgnLRNLFPCGDSMVCIIDDREDVWKFAP-NLITVKKYVYF 204
Cdd:TIGR02250  79 YTMGTRAYAQAIAKLIDPDGKYFGDRIISRDESGSPHTKS--LLRLFPADESMVVIIDDREDVWPWHKrNLIQIEPYNYF 156
BRCT_CTDP1 cd17729
BRCT domain of RNA polymerase II subunit A C-terminal domain phosphatase (CTDP1) and similar ...
 492-594 7.84e-45

BRCT domain of RNA polymerase II subunit A C-terminal domain phosphatase (CTDP1) and similar proteins; CTDP1 (EC 3.1.3.16), also termed TFIIF-associating CTD phosphatase, or TFIIF- associating RNA polymerase C-terminal domain phosphatase (FCP1), promotes the activity of RNA polymerase II through processively dephosphorylating 'Ser-2' and 'Ser-5' of the heptad repeats YSPTSPS in the C-terminal domain of the largest RNA polymerase II subunit. It plays a role in the exit from mitosis by dephosphorylating crucial mitotic substrates (USP44, CDC20 and WEE1) that are required for M-phase-promoting factor (MPF)/CDK1 inactivation.


:

Pssm-ID: 349361 [Multi-domain]  Cd Length: 97  Bit Score: 156.15  E-value: 7.84e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186 492 DIRKIVPELKSKVLADVAVIFSGLHPTNFPVEKTREHYHATALGAKVLTQLVlspdapDRATHLIAARAGTEKVRQAQEC 571
Cdd:cd17729    1 DVKDILPELRSKVLKGCVIVFSGVIPTGIDPERSRLWKLAESLGAKVVTDLS------PRTTHLVAAKLGTEKVKQALKM 74

                         90       100
                 ....*....|....*....|...
gi 755562186 572 KHLHVVSPDWLWSCLERWDKVEE 594
Cdd:cd17729   75 PGIHVVHPDWLWACAERWERVDE 97
 
Name Accession Description Interval E-value
FCP1_C pfam09309
FCP1, C-terminal; The C-terminal domain of FCP-1 is required for interaction with the carboxy ...
 587-841 4.25e-162

FCP1, C-terminal; The C-terminal domain of FCP-1 is required for interaction with the carboxy terminal domain of RAP74. Interaction relies extensively on van der Waals contacts between hydrophobic residues situated within alpha-helices in both domains.


Pssm-ID: 462751  Cd Length: 254  Bit Score: 471.22  E-value: 4.25e-162
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  587 ERWDKVEEQLFPLIDDDTRTHRDNSPAVFPDRHSVLPTALFHPTPIHSKAHPGPEVRIYDSNTGKLIRMGPQGSAPAPSS 666
Cdd:pfam09309   1 ERWDRVEEQLFPLKDDYTKTQRENSPAAFPDRQGALPTALFHPTPIHPKAQPGPEVRIYDPNTGKLIRKGPQGSSPGPPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  667 APLNHGEPSSFRAVQPHQQQMFGEELPESQDGEQPGPARRKRQPSMSEAMPLYTLCKEDLESMDKEVDDILGEGSDDSDI 746
Cdd:pfam09309  81 SLPVHGEHSSFRAVQPHQQQMFGEELPDSQDGEQPGPSRRKRQPSMSETMPLYTLCKEDLESMDKEVDDILGEGSDDSDS 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  747 EKKKPEDQDNEQERAPKPRKPRAPGIRREQPVGLPSSGERSTPGMRgPRGHKRKLNEEDAASESSGESSNDDEEGSSSEA 826
Cdd:pfam09309 161 EKKKPEEQEEEKEEEPQPREPKALGARRERPLGSTSSSERSAAGSR-PRGHKRKLNEEDAASESSKESSNEDEEGSSSEA 239

                         250
                  ....*....|....*
gi 755562186  827 DEMAAALEAELNDLM 841
Cdd:pfam09309 240 DEMAAALEAELNDFM 254
FCP1_euk TIGR02250
FCP1-like phosphatase, phosphatase domain; This model represents the phosphatase domain of the ...
 58-204 9.74e-71

FCP1-like phosphatase, phosphatase domain; This model represents the phosphatase domain of the humanRNA polymerase II subunit A C-terminal domain phosphatase (FCP1) and closely related phosphatases from eukaryotes including plants, fungi, and slime mold. This domain is a member of the haloacid dehalogenase (HAD) superfamily by virtue of a conserved set of three catalytic motifs and a conserved fold as predicted by PSIPRED. The third motif in this family is distinctive (hhhhDDppphW). This domain is classified as a "Class III" HAD, since there is no large "cap" domain found between motifs 1 and 2 or motifs 2 and 3. This domain is related to domains found in the human NLI interacting factor-like phosphatases, and together both are detected by the pfam03031.


Pssm-ID: 131304  Cd Length: 156  Bit Score: 229.47  E-value: 9.74e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186   58 LHRNRKLVLMVDLDQTLIHTTEQHCPQMSNK------------GIFHFQLGRgePMLHTRLRPHCKDFLEKIAKLYELHV 125
Cdd:TIGR02250   1 LLREKKLHLVLDLDQTLIHTTKDPTLSEWEKydieepnsetrrDLRKFNLGT--MWYLTKLRPFLHEFLKEASKLYEMHV 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  126 FTFGSRLYAHTIAGFLDPEKKLFSHRILSRDECIDPFSKTgnLRNLFPCGDSMVCIIDDREDVWKFAP-NLITVKKYVYF 204
Cdd:TIGR02250  79 YTMGTRAYAQAIAKLIDPDGKYFGDRIISRDESGSPHTKS--LLRLFPADESMVVIIDDREDVWPWHKrNLIQIEPYNYF 156
CPDc smart00577
catalytic domain of ctd-like phosphatases;
62-208 4.61e-55

catalytic domain of ctd-like phosphatases;


Pssm-ID: 214729  Cd Length: 148  Bit Score: 186.66  E-value: 4.61e-55
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186    62 RKLVLMVDLDQTLIHTTEQHCPQMSNKGIFHFQLGRGEPML-HTRLRPHCKDFLEKIAKLYELHVFTFGSRLYAHTIAGF 140
Cdd:smart00577   1 KKKTLVLDLDETLVHSTHRSFKEWTNRDFIVPVLIDGHPHGvYVKKRPGVDEFLKRASELFELVVFTAGLRMYADPVLDL 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 755562186   141 LDPeKKLFSHRILSRDECIDPFSKTGNLRNLFPCGDSMVCIIDDREDVWKFAP-NLITVKKYVYFPGTG 208
Cdd:smart00577  81 LDP-KKYFGYRRLFRDECVFVKGKYVKDLSLLNRDLSKVIIIDDSPDSWPFHPeNLIPIKPWFGDPDDT 148
BRCT_CTDP1 cd17729
BRCT domain of RNA polymerase II subunit A C-terminal domain phosphatase (CTDP1) and similar ...
 492-594 7.84e-45

BRCT domain of RNA polymerase II subunit A C-terminal domain phosphatase (CTDP1) and similar proteins; CTDP1 (EC 3.1.3.16), also termed TFIIF-associating CTD phosphatase, or TFIIF- associating RNA polymerase C-terminal domain phosphatase (FCP1), promotes the activity of RNA polymerase II through processively dephosphorylating 'Ser-2' and 'Ser-5' of the heptad repeats YSPTSPS in the C-terminal domain of the largest RNA polymerase II subunit. It plays a role in the exit from mitosis by dephosphorylating crucial mitotic substrates (USP44, CDC20 and WEE1) that are required for M-phase-promoting factor (MPF)/CDK1 inactivation.


Pssm-ID: 349361 [Multi-domain]  Cd Length: 97  Bit Score: 156.15  E-value: 7.84e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186 492 DIRKIVPELKSKVLADVAVIFSGLHPTNFPVEKTREHYHATALGAKVLTQLVlspdapDRATHLIAARAGTEKVRQAQEC 571
Cdd:cd17729    1 DVKDILPELRSKVLKGCVIVFSGVIPTGIDPERSRLWKLAESLGAKVVTDLS------PRTTHLVAAKLGTEKVKQALKM 74

                         90       100
                 ....*....|....*....|...
gi 755562186 572 KHLHVVSPDWLWSCLERWDKVEE 594
Cdd:cd17729   75 PGIHVVHPDWLWACAERWERVDE 97
HAD_FCP1-like cd07521
human CTD phosphatase subunit 1 (CTDP1/FCP1) and related proteins; belongs to the haloacid ...
 63-198 6.19e-44

human CTD phosphatase subunit 1 (CTDP1/FCP1) and related proteins; belongs to the haloacid dehalogenase-like superfamily; Human CTDP1/FCP1 is a protein phosphatase which dephosphorylates the phosphorylated C terminus (CTD) of RNA polymerase II. CTD phosphorylation is a key mechanism of regulation of gene expression in eukaryotes. CTDP1/FCP1 may have other roles in in transcription regulation independent of its phosphatase activity. This family also includes human translocase of inner mitochondrial membrane 50 (TIMM50), CTD small phosphatase like (CTDSPL) and CTD small phosphatase like 2 (CTDSPL2), Saccharomyces cerevisiae (nuclear envelope morphology protein 1) Nem1p, and Xenopus Dullard. Yeast Nem1p in complex with Spo7p dephosphorylates the nuclear membrane-associated phosphatidic acid phosphatase, Smp2p, which may be part of a signaling cascade playing a role in nuclear membrane biogenesis. Xenopus Dullard is a potential regulator of neural tube development. Members of this family belong to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.


Pssm-ID: 319823  Cd Length: 134  Bit Score: 155.06  E-value: 6.19e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  63 KLVLMVDLDQTLIHTTEQHCPQMSNKgiFHFQLGRGEPMLHTRLRPHCKDFLEKIAKLYELHVFTFGSRLYAHTIAGFLD 142
Cdd:cd07521    1 KLTLVLDLDETLVHSTWKPVLSEDFK--IPVLPDGREHGYYVKKRPGVDEFLERLSKLYEIVIFTAGTRAYADPVADKLD 78

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 755562186 143 PEKKLFSHRiLSRDECIDPFSK-TGNLRNLFPCgDSMVCIIDD-REDVWKFAPNLITV 198
Cdd:cd07521   79 PNGLFIDRR-LFRDSCVYVDGNyVKDLSKLFRD-LSKVVIIDDsPGSYWLQPENAIPI 134
NIF pfam03031
NLI interacting factor-like phosphatase; This family contains a number of NLI interacting ...
 64-201 1.80e-26

NLI interacting factor-like phosphatase; This family contains a number of NLI interacting factor isoforms and also an N-terminal regions of RNA polymerase II CTC phosphatase and FCP1 serine phosphatase. This region has been identified as the minimal phosphatase domain.


Pssm-ID: 397254  Cd Length: 160  Bit Score: 106.17  E-value: 1.80e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186   64 LVLmvDLDQTLIHTTEQhcpqMSNKGIFHFQLGRGEPMLHTRLRPHCKDFLEKIAKLYELHVFTFGSRLYAHTIAGFLDP 143
Cdd:pfam03031   3 LVL--DLDETLVHSSFE----PPLKSDFILPVPGETHGGYVKKRPGLDEFLKELSKYYEIVIFTASSKEYADPVLDILDP 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 755562186  144 EKKLFSHRiLSRDECID---PFSKtgNLRNLFPcgD-SMVCIIDDREDVWKFAP-NLITVKKY 201
Cdd:pfam03031  77 NGKLFSHR-LYRESCKFedgVYVK--DLSLLGR--DlSRVVIVDNSPDSFLLQPdNGIPIPPF 134
BRCT smart00292
breast cancer carboxy-terminal domain;
502-586 5.99e-07

breast cancer carboxy-terminal domain;


Pssm-ID: 214602 [Multi-domain]  Cd Length: 78  Bit Score: 47.76  E-value: 5.99e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186   502 SKVLADVAVIFSGlhptNFPVEKTREHYH-ATALGAKVLTQLVlspdaPDRATHLIAARAGTEKVRQAQECKH-LHVVSP 579
Cdd:smart00292   1 PKLFKGKTFYITG----SFDKEERDELKElIEALGGKVTSSLS-----SKTTTHVIVGSPEGGKLELLKAIALgIPIVKE 71


                   ....*..
gi 755562186   580 DWLWSCL 586
Cdd:smart00292  72 EWLLDCL 78
BRCT pfam00533
BRCA1 C Terminus (BRCT) domain; The BRCT domain is found predominantly in proteins involved in ...
 501-586 2.89e-05

BRCA1 C Terminus (BRCT) domain; The BRCT domain is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage. The BRCT domain of XRCC1 forms a homodimer in the crystal structure. This suggests that pairs of BRCT domains associate as homo- or heterodimers. BRCT domains are often found as tandem-repeat pairs. Structures of the BRCA1 BRCT domains revealed a basis for a widely utilized head-to-tail BRCT-BRCT oligomerization mode. This conserved tandem BRCT architecture facilitates formation of the canonical BRCT phospho-peptide interaction cleft at a groove between the BRCT domains. Disease associated missense and nonsense mutations in the BRCA1 BRCT domains disrupt peptide binding by directly occluding this peptide binding groove, or by disrupting key conserved BRCT core folding determinants.


Pssm-ID: 425736 [Multi-domain]  Cd Length: 75  Bit Score: 42.67  E-value: 2.89e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  501 KSKVLADVAVIFSGLhptnfpVEKTREHYH--ATALGAKVltqlvlSPDAPDRATHLIAArAGTEKVRQAQECKhLHVVS 578
Cdd:pfam00533   2 KEKLFSGKTFVITGL------DGLERDELKelIEKLGGKV------TDSLSKKTTHVIVE-ARTKKYLKAKELG-IPIVT 67


                  ....*...
gi 755562186  579 PDWLWSCL 586
Cdd:pfam00533  68 EEWLLDCI 75
 
Name Accession Description Interval E-value
FCP1_C pfam09309
FCP1, C-terminal; The C-terminal domain of FCP-1 is required for interaction with the carboxy ...
 587-841 4.25e-162

FCP1, C-terminal; The C-terminal domain of FCP-1 is required for interaction with the carboxy terminal domain of RAP74. Interaction relies extensively on van der Waals contacts between hydrophobic residues situated within alpha-helices in both domains.


Pssm-ID: 462751  Cd Length: 254  Bit Score: 471.22  E-value: 4.25e-162
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  587 ERWDKVEEQLFPLIDDDTRTHRDNSPAVFPDRHSVLPTALFHPTPIHSKAHPGPEVRIYDSNTGKLIRMGPQGSAPAPSS 666
Cdd:pfam09309   1 ERWDRVEEQLFPLKDDYTKTQRENSPAAFPDRQGALPTALFHPTPIHPKAQPGPEVRIYDPNTGKLIRKGPQGSSPGPPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  667 APLNHGEPSSFRAVQPHQQQMFGEELPESQDGEQPGPARRKRQPSMSEAMPLYTLCKEDLESMDKEVDDILGEGSDDSDI 746
Cdd:pfam09309  81 SLPVHGEHSSFRAVQPHQQQMFGEELPDSQDGEQPGPSRRKRQPSMSETMPLYTLCKEDLESMDKEVDDILGEGSDDSDS 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  747 EKKKPEDQDNEQERAPKPRKPRAPGIRREQPVGLPSSGERSTPGMRgPRGHKRKLNEEDAASESSGESSNDDEEGSSSEA 826
Cdd:pfam09309 161 EKKKPEEQEEEKEEEPQPREPKALGARRERPLGSTSSSERSAAGSR-PRGHKRKLNEEDAASESSKESSNEDEEGSSSEA 239

                         250
                  ....*....|....*
gi 755562186  827 DEMAAALEAELNDLM 841
Cdd:pfam09309 240 DEMAAALEAELNDFM 254
FCP1_euk TIGR02250
FCP1-like phosphatase, phosphatase domain; This model represents the phosphatase domain of the ...
 58-204 9.74e-71

FCP1-like phosphatase, phosphatase domain; This model represents the phosphatase domain of the humanRNA polymerase II subunit A C-terminal domain phosphatase (FCP1) and closely related phosphatases from eukaryotes including plants, fungi, and slime mold. This domain is a member of the haloacid dehalogenase (HAD) superfamily by virtue of a conserved set of three catalytic motifs and a conserved fold as predicted by PSIPRED. The third motif in this family is distinctive (hhhhDDppphW). This domain is classified as a "Class III" HAD, since there is no large "cap" domain found between motifs 1 and 2 or motifs 2 and 3. This domain is related to domains found in the human NLI interacting factor-like phosphatases, and together both are detected by the pfam03031.


Pssm-ID: 131304  Cd Length: 156  Bit Score: 229.47  E-value: 9.74e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186   58 LHRNRKLVLMVDLDQTLIHTTEQHCPQMSNK------------GIFHFQLGRgePMLHTRLRPHCKDFLEKIAKLYELHV 125
Cdd:TIGR02250   1 LLREKKLHLVLDLDQTLIHTTKDPTLSEWEKydieepnsetrrDLRKFNLGT--MWYLTKLRPFLHEFLKEASKLYEMHV 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  126 FTFGSRLYAHTIAGFLDPEKKLFSHRILSRDECIDPFSKTgnLRNLFPCGDSMVCIIDDREDVWKFAP-NLITVKKYVYF 204
Cdd:TIGR02250  79 YTMGTRAYAQAIAKLIDPDGKYFGDRIISRDESGSPHTKS--LLRLFPADESMVVIIDDREDVWPWHKrNLIQIEPYNYF 156
CPDc smart00577
catalytic domain of ctd-like phosphatases;
62-208 4.61e-55

catalytic domain of ctd-like phosphatases;


Pssm-ID: 214729  Cd Length: 148  Bit Score: 186.66  E-value: 4.61e-55
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186    62 RKLVLMVDLDQTLIHTTEQHCPQMSNKGIFHFQLGRGEPML-HTRLRPHCKDFLEKIAKLYELHVFTFGSRLYAHTIAGF 140
Cdd:smart00577   1 KKKTLVLDLDETLVHSTHRSFKEWTNRDFIVPVLIDGHPHGvYVKKRPGVDEFLKRASELFELVVFTAGLRMYADPVLDL 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 755562186   141 LDPeKKLFSHRILSRDECIDPFSKTGNLRNLFPCGDSMVCIIDDREDVWKFAP-NLITVKKYVYFPGTG 208
Cdd:smart00577  81 LDP-KKYFGYRRLFRDECVFVKGKYVKDLSLLNRDLSKVIIIDDSPDSWPFHPeNLIPIKPWFGDPDDT 148
BRCT_CTDP1 cd17729
BRCT domain of RNA polymerase II subunit A C-terminal domain phosphatase (CTDP1) and similar ...
 492-594 7.84e-45

BRCT domain of RNA polymerase II subunit A C-terminal domain phosphatase (CTDP1) and similar proteins; CTDP1 (EC 3.1.3.16), also termed TFIIF-associating CTD phosphatase, or TFIIF- associating RNA polymerase C-terminal domain phosphatase (FCP1), promotes the activity of RNA polymerase II through processively dephosphorylating 'Ser-2' and 'Ser-5' of the heptad repeats YSPTSPS in the C-terminal domain of the largest RNA polymerase II subunit. It plays a role in the exit from mitosis by dephosphorylating crucial mitotic substrates (USP44, CDC20 and WEE1) that are required for M-phase-promoting factor (MPF)/CDK1 inactivation.


Pssm-ID: 349361 [Multi-domain]  Cd Length: 97  Bit Score: 156.15  E-value: 7.84e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186 492 DIRKIVPELKSKVLADVAVIFSGLHPTNFPVEKTREHYHATALGAKVLTQLVlspdapDRATHLIAARAGTEKVRQAQEC 571
Cdd:cd17729    1 DVKDILPELRSKVLKGCVIVFSGVIPTGIDPERSRLWKLAESLGAKVVTDLS------PRTTHLVAAKLGTEKVKQALKM 74

                         90       100
                 ....*....|....*....|...
gi 755562186 572 KHLHVVSPDWLWSCLERWDKVEE 594
Cdd:cd17729   75 PGIHVVHPDWLWACAERWERVDE 97
HAD_FCP1-like cd07521
human CTD phosphatase subunit 1 (CTDP1/FCP1) and related proteins; belongs to the haloacid ...
 63-198 6.19e-44

human CTD phosphatase subunit 1 (CTDP1/FCP1) and related proteins; belongs to the haloacid dehalogenase-like superfamily; Human CTDP1/FCP1 is a protein phosphatase which dephosphorylates the phosphorylated C terminus (CTD) of RNA polymerase II. CTD phosphorylation is a key mechanism of regulation of gene expression in eukaryotes. CTDP1/FCP1 may have other roles in in transcription regulation independent of its phosphatase activity. This family also includes human translocase of inner mitochondrial membrane 50 (TIMM50), CTD small phosphatase like (CTDSPL) and CTD small phosphatase like 2 (CTDSPL2), Saccharomyces cerevisiae (nuclear envelope morphology protein 1) Nem1p, and Xenopus Dullard. Yeast Nem1p in complex with Spo7p dephosphorylates the nuclear membrane-associated phosphatidic acid phosphatase, Smp2p, which may be part of a signaling cascade playing a role in nuclear membrane biogenesis. Xenopus Dullard is a potential regulator of neural tube development. Members of this family belong to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.


Pssm-ID: 319823  Cd Length: 134  Bit Score: 155.06  E-value: 6.19e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  63 KLVLMVDLDQTLIHTTEQHCPQMSNKgiFHFQLGRGEPMLHTRLRPHCKDFLEKIAKLYELHVFTFGSRLYAHTIAGFLD 142
Cdd:cd07521    1 KLTLVLDLDETLVHSTWKPVLSEDFK--IPVLPDGREHGYYVKKRPGVDEFLERLSKLYEIVIFTAGTRAYADPVADKLD 78

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 755562186 143 PEKKLFSHRiLSRDECIDPFSK-TGNLRNLFPCgDSMVCIIDD-REDVWKFAPNLITV 198
Cdd:cd07521   79 PNGLFIDRR-LFRDSCVYVDGNyVKDLSKLFRD-LSKVVIIDDsPGSYWLQPENAIPI 134
NIF pfam03031
NLI interacting factor-like phosphatase; This family contains a number of NLI interacting ...
 64-201 1.80e-26

NLI interacting factor-like phosphatase; This family contains a number of NLI interacting factor isoforms and also an N-terminal regions of RNA polymerase II CTC phosphatase and FCP1 serine phosphatase. This region has been identified as the minimal phosphatase domain.


Pssm-ID: 397254  Cd Length: 160  Bit Score: 106.17  E-value: 1.80e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186   64 LVLmvDLDQTLIHTTEQhcpqMSNKGIFHFQLGRGEPMLHTRLRPHCKDFLEKIAKLYELHVFTFGSRLYAHTIAGFLDP 143
Cdd:pfam03031   3 LVL--DLDETLVHSSFE----PPLKSDFILPVPGETHGGYVKKRPGLDEFLKELSKYYEIVIFTASSKEYADPVLDILDP 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 755562186  144 EKKLFSHRiLSRDECID---PFSKtgNLRNLFPcgD-SMVCIIDDREDVWKFAP-NLITVKKY 201
Cdd:pfam03031  77 NGKLFSHR-LYRESCKFedgVYVK--DLSLLGR--DlSRVVIVDNSPDSFLLQPdNGIPIPPF 134
HIF-SF_euk TIGR02251
Dullard-like phosphatase domain; This model represents the putative phosphatase domain of a ...
 63-205 3.28e-19

Dullard-like phosphatase domain; This model represents the putative phosphatase domain of a family of eukaryotic proteins including "Dullard", and the NLI interacting factor (NIF)-like phosphatases. This domain is a member of the haloacid dehalogenase (HAD) superfamily by virtue of a conserved set of three catalytic motifs and a conserved fold as predicted by PSIPRED. The third motif in this family is distinctive (hhhhDNxPxxa) and aparrently lacking the last aspartate. This domain is classified as a "Class III" HAD, since there is no large "cap" domain found between motifs 1 and 2 or motifs 2 and 3. This domain is related to domains found in FCP1-like phosphatases (TIGR02250), and together both are detected by the pfam03031.


Pssm-ID: 274055  Cd Length: 162  Bit Score: 85.42  E-value: 3.28e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186   63 KLVLMVDLDQTLIHTTeQHCPQMSNKGIFHFQLGRGEPMLHTRLRPHCKDFLEKIAKLYELHVFTFGSRLYAHTIAGFLD 142
Cdd:TIGR02251   1 KKTLVLDLDETLVHST-FKMPKVDADFKVPVLIDGKIIQVYVFKRPHVDEFLERVSKWYELVIFTASLEEYADPVLDILD 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 755562186  143 PEKKLFSHRiLSRDECIDPFSK-TGNLRNLfpCGD-SMVCIIDDREDVWKFAP-NLITVKKYVYFP 205
Cdd:TIGR02251  80 RGGKVISRR-LYRESCVFTNGKyVKDLSLV--GKDlSKVIIIDNSPYSYSLQPdNAIPIKSWFSDP 142
BRCT cd00027
C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains; The ...
 510-585 8.57e-09

C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains; The BRCT (BRCA1 C-terminus) domain is found within many DNA damage repair and cell cycle checkpoint proteins. BRCT domains interact with each other forming homo/hetero BRCT multimers, but are also involved in BRCT-non-BRCT interactions and interactions within DNA strand breaks. BRCT tandem repeats bind to phosphopeptides; it has been shown that the repeats in human BRCA1 bind specifically to pS-X-X-F motifs, mediating the interaction between BRCA1 and the DNA helicase BACH1, or BRCA1 and CtIP, a transcriptional corepressor. It is assumed that BRCT repeats play similar roles in many signaling pathways associated with the response to DNA damage.


Pssm-ID: 349339 [Multi-domain]  Cd Length: 68  Bit Score: 52.75  E-value: 8.57e-09
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 755562186 510 VIFSGLHPTnfpvEKTREHYHATALGAKVltqlvlSPDAPDRATHLIAARAGTEKVRQAQECKHLHVVSPDWLWSC 585
Cdd:cd00027    3 ICFSGLDDE----EREELKKLIEALGGKV------SESLSSKVTHLIAKSPSGEKYYLAALAWGIPIVSPEWLLDC 68
BRCT_TopBP1_rpt2_like cd17731
second BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; ...
 553-589 3.72e-08

second BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; TopBP1, also termed DNA topoisomerase II-beta-binding protein 1, or DNA topoisomerase II-binding protein 1, functions in DNA replication and damage response. It binds double-stranded DNA breaks and nicks as well as single-stranded DNA. TopBP1 contains six copies of BRCT domain. The family corresponds to the second BRCT domain.


Pssm-ID: 349363 [Multi-domain]  Cd Length: 77  Bit Score: 51.00  E-value: 3.72e-08
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 755562186 553 THLIAARAGTEKVRQAQECKHLHVVSPDWLWSCLERW 589
Cdd:cd17731   41 THLIAGSPSGQKYEFARKWNSIHIVTPEWLYDSIEAG 77
BRCT smart00292
breast cancer carboxy-terminal domain;
502-586 5.99e-07

breast cancer carboxy-terminal domain;


Pssm-ID: 214602 [Multi-domain]  Cd Length: 78  Bit Score: 47.76  E-value: 5.99e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186   502 SKVLADVAVIFSGlhptNFPVEKTREHYH-ATALGAKVLTQLVlspdaPDRATHLIAARAGTEKVRQAQECKH-LHVVSP 579
Cdd:smart00292   1 PKLFKGKTFYITG----SFDKEERDELKElIEALGGKVTSSLS-----SKTTTHVIVGSPEGGKLELLKAIALgIPIVKE 71


                   ....*..
gi 755562186   580 DWLWSCL 586
Cdd:smart00292  72 EWLLDCL 78
BRCT pfam00533
BRCA1 C Terminus (BRCT) domain; The BRCT domain is found predominantly in proteins involved in ...
 501-586 2.89e-05

BRCA1 C Terminus (BRCT) domain; The BRCT domain is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage. The BRCT domain of XRCC1 forms a homodimer in the crystal structure. This suggests that pairs of BRCT domains associate as homo- or heterodimers. BRCT domains are often found as tandem-repeat pairs. Structures of the BRCA1 BRCT domains revealed a basis for a widely utilized head-to-tail BRCT-BRCT oligomerization mode. This conserved tandem BRCT architecture facilitates formation of the canonical BRCT phospho-peptide interaction cleft at a groove between the BRCT domains. Disease associated missense and nonsense mutations in the BRCA1 BRCT domains disrupt peptide binding by directly occluding this peptide binding groove, or by disrupting key conserved BRCT core folding determinants.


Pssm-ID: 425736 [Multi-domain]  Cd Length: 75  Bit Score: 42.67  E-value: 2.89e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186  501 KSKVLADVAVIFSGLhptnfpVEKTREHYH--ATALGAKVltqlvlSPDAPDRATHLIAArAGTEKVRQAQECKhLHVVS 578
Cdd:pfam00533   2 KEKLFSGKTFVITGL------DGLERDELKelIEKLGGKV------TDSLSKKTTHVIVE-ARTKKYLKAKELG-IPIVT 67


                  ....*...
gi 755562186  579 PDWLWSCL 586
Cdd:pfam00533  68 EEWLLDCI 75
BRCT_XRCC1_rpt1 cd17725
First (central) BRCT domain in X-ray repair cross-complementing protein 1 (XRCC1) and similar ...
 531-585 3.49e-05

First (central) BRCT domain in X-ray repair cross-complementing protein 1 (XRCC1) and similar proteins; XRCC1 is a DNA repair protein that corrects defective DNA strand-break repair and sister chromatid exchange following treatment with ionizing radiation and alkylating agents. It forms homodimers and interacts with polynucleotide kinase (PNK), DNA polymerase-beta (POLB), DNA ligase III (LIG3), APTX, APLF, and APEX1. XRCC1 contains an N-terminal XRCC1-specific domain and two BRCT domains. This family corresponds to the first one.


Pssm-ID: 349357 [Multi-domain]  Cd Length: 80  Bit Score: 42.65  E-value: 3.49e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 755562186 531 ATALGAKvltqlvLSPDAPDRATHLIAARAGTEKVRQAQECKHLhVVSPDWLWSC 585
Cdd:cd17725   21 ALEMGAK------YRPDWTADCTHLICAFANTPKYKQVKGAGGI-IVSKEWILDC 68
BRCT_Rad4_rpt2 cd17746
second BRCT domain of Schizosaccharomyces pombe S-M checkpoint control protein Rad4 and ...
 518-599 4.56e-05

second BRCT domain of Schizosaccharomyces pombe S-M checkpoint control protein Rad4 and similar proteins; Rad4, also termed P74, or protein cut5, is an essential component for DNA replication and the checkpoint control system which couples S and M phases. It may directly or indirectly interact with chromatin proteins to form the complex required for the initiation and/or progression of DNA synthesis. Rad4 contains four BRCT repeats. The family corresponds to the second one.


Pssm-ID: 349377 [Multi-domain]  Cd Length: 91  Bit Score: 42.99  E-value: 4.56e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755562186 518 TNFPV-EKTREHYHATALGAKvltqlvLSPDAPDRATHLIAARAGTEKVRQAQECKhLHVVSPDWLWSCLERWDKVEEQL 596
Cdd:cd17746   15 TNIGQpERSRIENYVLKHGGT------FCPDLTRDVTHLIAGTSSGRKYEYALKWK-INVVCVEWLWQSIQRNAVLEPQY 87


                 ...
gi 755562186 597 FPL 599
Cdd:cd17746   88 FQL 90
BRCT_PAXIP1_rpt2 cd17710
second BRCT domain of PAX-interacting protein 1 (PAXIP1) and similar proteins; PAXIP1, also ...
 532-594 1.59e-04

second BRCT domain of PAX-interacting protein 1 (PAXIP1) and similar proteins; PAXIP1, also termed PAX transactivation activation domain-interacting protein (PTIP), is involved in DNA damage response and in transcriptional regulation through histone methyltransferase (HMT) complexes. It also facilitates ATM-mediated activation of p53 and promotes cellular resistance to ionizing radiation. PAXIP1 contains six BRCT repeats. This family corresponds to the second BRCT domain.


Pssm-ID: 349342 [Multi-domain]  Cd Length: 81  Bit Score: 41.06  E-value: 1.59e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 755562186 532 TALGAKVltQLVLSPdapdRATHLIAARAGTEKVRQAQECKHLHVVSPDWLWSCLERWDKVEE 594
Cdd:cd17710   25 TFHGGKC--QLNLDK----KCTHLVTGKASGAKYECALKHEGIKIVTPDWVTDCIKAKTLLDE 81
PTCB-BRCT pfam12738
twin BRCT domain; This is a BRCT domain that appears in duplicate in most member sequences. ...
 532-581 4.91e-03

twin BRCT domain; This is a BRCT domain that appears in duplicate in most member sequences. BRCT domains are peptide- and phosphopeptide-binding modules. BRCT domains are present in a number of proteins involved in DNA checkpoint controls and DNA repair.


Pssm-ID: 463687 [Multi-domain]  Cd Length: 63  Bit Score: 36.03  E-value: 4.91e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 755562186  532 TALGAKVLTQLVLSpdapdrATHLIAARAGTEKVRQAQECKhLHVVSPDW 581
Cdd:pfam12738  21 EAMGAEYTKDLTKS------VTHLICKSGEGEKYEKAKEWG-IPVVSPLW 63
BRCT_DNA_ligase_III cd18431
BRCT domain of DNA ligase 3 (LIG3) and similar proteins; LIG3 (EC 6.5.1.1), also termed DNA ...
 511-585 8.08e-03

BRCT domain of DNA ligase 3 (LIG3) and similar proteins; LIG3 (EC 6.5.1.1), also termed DNA ligase III, or polydeoxyribonucleotide synthase [ATP] 3, functions as heterodimer with DNA-repair protein XRCC1 in the nucleus and can correct defective DNA strand-break repair and sister chromatid exchange following treatment with ionizing radiation and alkylating agents.


Pssm-ID: 349384 [Multi-domain]  Cd Length: 78  Bit Score: 36.14  E-value: 8.08e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 755562186 511 IFSG----LHPTNFPVEKTREHYhATALGAKVLTqlvlsPDAPDRATHLIAARAGTEKVRQAQeckhlhVVSPDWLWSC 585
Cdd:cd18431    4 IFTGvkvyLPGSVEDDYKKLKRY-FIAYDGDVVE-----EYDEEDATHVVVDRDDKLGNPSAK------VVSPEWLWDC 70
BRCT_TopBP1_rpt6 cd17727
sixth BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; ...
 522-587 9.44e-03

sixth BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; TopBP1, also termed DNA topoisomerase II-beta-binding protein 1, or DNA topoisomerase II-binding protein 1, functions in DNA replication and damage response. It binds double-stranded DNA breaks and nicks as well as single-stranded DNA. TopBP1 contains six copies of BRCT domain. The family corresponds to the sixth BRCT domain.


Pssm-ID: 349359 [Multi-domain]  Cd Length: 75  Bit Score: 35.65  E-value: 9.44e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 755562186 522 VEKTREHYH--ATALGAKVLTQLvlspdaPDRATHLIA--ARAGTEK-VRQAQEcKHLHVVSPDWLWSCLE 587
Cdd:cd17727   12 LSKRQGELNkiAASLGAEYRWTY------DESCTHFIYqgKANDTNReYKSAKE-QGKFIVSPHWLYACKE 75
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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