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Conserved domains on  [gi|1450419625|emb|SYV90481|]
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exonuclease V subunit alpha, partial [Metamycoplasma alkalescens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AAA_19 pfam13245
AAA domain;
170-244 2.32e-20

AAA domain;


:

Pssm-ID: 433059 [Multi-domain]  Cd Length: 136  Bit Score: 83.81  E-value: 2.32e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1450419625 170 QELAIKEALAKKLLLITGNPGTGKTLITNEIIHHLLK-KYDKENIAILTPTGRATININTKqNDVKAQTIHSFLQW 244
Cdd:pfam13245   1 QREAVRTALPSKVVLLTGGPGTGKTTTIRHIVALLVAlGGVSFPILLAAPTGRAAKRLSER-TGLPASTIHRLLGF 75
McrB super family cl34253
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 25-217 1.36e-03

5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];


The actual alignment was detected with superfamily member COG1401:

Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 39.37  E-value: 1.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1450419625  25 DNFYQYYFDADEDKKVRLTDLDKIVKNYHPEAFAYKNATYLYHYLQEYFFLSGNTRIK---KELLYKILFQNNYGQELFK 101
Cdd:COG1401    62 RATELVEELSAALEVVVLLLDLEKVELNEKLALSEAAVAIEELYELEADSEIEAVGLLlelAERSDALEALERARLLLEL 141

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1450419625 102 EINKFNAAKEELIQKVYLIELAYDDGIYYTTRDIIYMEKYVINKLIHINNLNVNFDILFEPTMNFDQTQELAIKEAL-AK 180
Cdd:COG1401   142 ADLEERAALETEVLEALEAELEELLAAPEDLSADALAAELSAAEELYSEDLESEDDYLKDLLREKFEETLEAFLAALkTK 221

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1450419625 181 KLLLITGNPGTGKTLITNEIIHHLLkKYDKENIAILT 217
Cdd:COG1401   222 KNVILAGPPGTGKTYLARRLAEALG-GEDNGRIEFVQ 257
 
Name Accession Description Interval E-value
AAA_19 pfam13245
AAA domain;
170-244 2.32e-20

AAA domain;


Pssm-ID: 433059 [Multi-domain]  Cd Length: 136  Bit Score: 83.81  E-value: 2.32e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1450419625 170 QELAIKEALAKKLLLITGNPGTGKTLITNEIIHHLLK-KYDKENIAILTPTGRATININTKqNDVKAQTIHSFLQW 244
Cdd:pfam13245   1 QREAVRTALPSKVVLLTGGPGTGKTTTIRHIVALLVAlGGVSFPILLAAPTGRAAKRLSER-TGLPASTIHRLLGF 75
RecD COG0507
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ...
 98-244 3.49e-18

ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];


Pssm-ID: 440273 [Multi-domain]  Cd Length: 514  Bit Score: 83.10  E-value: 3.49e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1450419625  98 ELFKEINKFNAAKEELIQKVYLIElaydDGIYYTTRdIIYMEKYVINKLIHINNLNVNFDILFE--------PTMNFDQT 169
Cdd:COG0507    54 RLLGVAEDIEAALAALVESGPLVL----DGRRYLTR-LLEAEQRLARRLRRLARPALDEADVEAalaaleprAGITLSDE 128

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1450419625 170 QELAIKEALAK-KLLLITGNPGTGKTLITNEIIHHLLKKYDKenIAILTPTGRATINInTKQNDVKAQTIHSFLQW 244
Cdd:COG0507   129 QREAVALALTTrRVSVLTGGAGTGKTTTLRALLAALEALGLR--VALAAPTGKAAKRL-SESTGIEARTIHRLLGL 201
DEXSc_RecD-like cd17933
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ...
 170-244 5.86e-15

DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350691 [Multi-domain]  Cd Length: 155  Bit Score: 69.89  E-value: 5.86e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1450419625 170 QELAIKEALAKKLLLITGNPGTGKTLITNEIIHHLLKKydKENIAILTPTGRATINInTKQNDVKAQTIHSFLQW 244
Cdd:cd17933     2 QKAAVRLVLRNRVSVLTGGAGTGKTTTLKALLAALEAE--GKRVVLAAPTGKAAKRL-SESTGIEASTIHRLLGI 73
recD_rel TIGR01448
helicase, putative, RecD/TraA family; This model describes a family similar to RecD, the ...
 165-244 1.96e-10

helicase, putative, RecD/TraA family; This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 273632 [Multi-domain]  Cd Length: 720  Bit Score: 60.18  E-value: 1.96e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1450419625 165 NFDQTQELAIKEALAKKLLLITGNPGTGKTLITNEIIHHLLKKYDKENIAILTPTGRATININTKQNDVkAQTIHSFLQW 244
Cdd:TIGR01448 323 GLSEEQKQALDTAIQHKVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTGLT-ASTIHRLLGY 401
McrB COG1401
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 25-217 1.36e-03

5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];


Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 39.37  E-value: 1.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1450419625  25 DNFYQYYFDADEDKKVRLTDLDKIVKNYHPEAFAYKNATYLYHYLQEYFFLSGNTRIK---KELLYKILFQNNYGQELFK 101
Cdd:COG1401    62 RATELVEELSAALEVVVLLLDLEKVELNEKLALSEAAVAIEELYELEADSEIEAVGLLlelAERSDALEALERARLLLEL 141

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1450419625 102 EINKFNAAKEELIQKVYLIELAYDDGIYYTTRDIIYMEKYVINKLIHINNLNVNFDILFEPTMNFDQTQELAIKEAL-AK 180
Cdd:COG1401   142 ADLEERAALETEVLEALEAELEELLAAPEDLSADALAAELSAAEELYSEDLESEDDYLKDLLREKFEETLEAFLAALkTK 221

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1450419625 181 KLLLITGNPGTGKTLITNEIIHHLLkKYDKENIAILT 217
Cdd:COG1401   222 KNVILAGPPGTGKTYLARRLAEALG-GEDNGRIEFVQ 257
 
Name Accession Description Interval E-value
AAA_19 pfam13245
AAA domain;
170-244 2.32e-20

AAA domain;


Pssm-ID: 433059 [Multi-domain]  Cd Length: 136  Bit Score: 83.81  E-value: 2.32e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1450419625 170 QELAIKEALAKKLLLITGNPGTGKTLITNEIIHHLLK-KYDKENIAILTPTGRATININTKqNDVKAQTIHSFLQW 244
Cdd:pfam13245   1 QREAVRTALPSKVVLLTGGPGTGKTTTIRHIVALLVAlGGVSFPILLAAPTGRAAKRLSER-TGLPASTIHRLLGF 75
RecD COG0507
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ...
 98-244 3.49e-18

ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];


Pssm-ID: 440273 [Multi-domain]  Cd Length: 514  Bit Score: 83.10  E-value: 3.49e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1450419625  98 ELFKEINKFNAAKEELIQKVYLIElaydDGIYYTTRdIIYMEKYVINKLIHINNLNVNFDILFE--------PTMNFDQT 169
Cdd:COG0507    54 RLLGVAEDIEAALAALVESGPLVL----DGRRYLTR-LLEAEQRLARRLRRLARPALDEADVEAalaaleprAGITLSDE 128

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1450419625 170 QELAIKEALAK-KLLLITGNPGTGKTLITNEIIHHLLKKYDKenIAILTPTGRATINInTKQNDVKAQTIHSFLQW 244
Cdd:COG0507   129 QREAVALALTTrRVSVLTGGAGTGKTTTLRALLAALEALGLR--VALAAPTGKAAKRL-SESTGIEARTIHRLLGL 201
DEXSc_RecD-like cd17933
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ...
 170-244 5.86e-15

DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350691 [Multi-domain]  Cd Length: 155  Bit Score: 69.89  E-value: 5.86e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1450419625 170 QELAIKEALAKKLLLITGNPGTGKTLITNEIIHHLLKKydKENIAILTPTGRATINInTKQNDVKAQTIHSFLQW 244
Cdd:cd17933     2 QKAAVRLVLRNRVSVLTGGAGTGKTTTLKALLAALEAE--GKRVVLAAPTGKAAKRL-SESTGIEASTIHRLLGI 73
recD_rel TIGR01448
helicase, putative, RecD/TraA family; This model describes a family similar to RecD, the ...
 165-244 1.96e-10

helicase, putative, RecD/TraA family; This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 273632 [Multi-domain]  Cd Length: 720  Bit Score: 60.18  E-value: 1.96e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1450419625 165 NFDQTQELAIKEALAKKLLLITGNPGTGKTLITNEIIHHLLKKYDKENIAILTPTGRATININTKQNDVkAQTIHSFLQW 244
Cdd:TIGR01448 323 GLSEEQKQALDTAIQHKVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTGLT-ASTIHRLLGY 401
DEXSc_Pif1_like cd18037
DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like ...
 170-241 3.51e-09

DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like helicases involved in maintaining genome stability through unwinding double-stranded DNAs (dsDNAs), DNA/RNA hybrids, and G quadruplex (G4) structures. The members of Pif1 helicase subfamily studied so far all appear to contribute to telomere maintenance. Pif1 is a member of the DEAD-like helicases superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350795 [Multi-domain]  Cd Length: 183  Bit Score: 54.56  E-value: 3.51e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1450419625 170 QELAIKEALAKKLLLITGNPGTGKTLITNEIIHHLlkKYDKENIAILTPTGRATININtkqndvkAQTIHSF 241
Cdd:cd18037     2 QRRVLDLVLDGKNVFFTGSAGTGKSYLLRRIIRAL--PSRPKRVAVTASTGIAACNIG-------GTTLHSF 64
recD TIGR01447
exodeoxyribonuclease V, alpha subunit; This family describes the exodeoxyribonuclease V alpha ...
 122-243 5.42e-08

exodeoxyribonuclease V, alpha subunit; This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273631 [Multi-domain]  Cd Length: 582  Bit Score: 52.84  E-value: 5.42e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1450419625 122 LAYDDGIYYTTRDIIYmEKYVINKLI-----HINNLNVNFDILFEPTMNFDQTQELAIKEALAKKLLLITGNPGTGKTLI 196
Cdd:TIGR01447  97 LVLCDGRLYLRRYWRE-EEKLAAKLRtlleaRKRTAPSAILENLFPLLNEQNWRKTAVALALKSNFSLITGGPGTGKTTT 175

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1450419625 197 TNEIIHHLLK---KYDKENIAILTPTGRATININT---KQND-------------VKAQTIHSFLQ 243
Cdd:TIGR01447 176 VARLLLALVKqspKQGKLRIALAAPTGKAAARLAEslrKAVKnlaaaealiaalpSEAVTIHRLLG 241
DEXXQc_UPF1 cd18039
DEXXQ-box helicase domain of UPF1; UPF1 (also called RNA Helicase And ATPase, Regulator Of ...
 168-208 8.31e-08

DEXXQ-box helicase domain of UPF1; UPF1 (also called RNA Helicase And ATPase, Regulator Of Nonsense Transcripts, or ATP-Dependent Helicase RENT1) is an RNA-dependent helicase and ATPase required for nonsense-mediated decay (NMD) of mRNAs containing premature stop codons. It is recruited to mRNAs upon translation termination and undergoes a cycle of phosphorylation and dephosphorylation; its phosphorylation appears to be a key step in NMD. It is recruited by release factors to stalled ribosomes together with the SMG1C protein kinase complex to form the transient SURF (SMG1-UPF1-eRF1-eRF3) complex. In EJC-dependent NMD, the SURF complex associates with the exon junction complex (EJC) located downstream from the termination codon through UPF2 and allows the formation of an UPF1-UPF2-UPF3 surveillance complex which is believed to activate NMD. Diseases associated with UPF1 include juvenile amyotrophic lateral sclerosis and epidermolysis bullosa, junctional, non-Herlitz type. UPF1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350797 [Multi-domain]  Cd Length: 234  Bit Score: 51.48  E-value: 8.31e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1450419625 168 QTQELAIKEALAKKLLLITGNPGTGKTLITNEIIHHLLKKY 208
Cdd:cd18039     4 HSQVDAVKTALQRPLSLIQGPPGTGKTVTSATIVYHLVKQG 44
EEXXEc_NFX1 cd17936
EEXXE-box helicase domain of NFX1; Human NFX1 protein was identified as a protein that ...
 167-212 2.91e-07

EEXXE-box helicase domain of NFX1; Human NFX1 protein was identified as a protein that represses class II MHC (major histocompatibility complex) gene expression. NFX1 binds a conserved cis-acting element, termed the X-box, in promoters of human class II MHC genes. The Cys-rich region contains several NFX1-type zinc finger domains. Frequently, a R3H domain is present in the C-terminus, and a RING finger domain and a PAM2 motif are present in the N-terminus. The lack of R3H and PAM2 motifs in the plant proteins indicates functional differences. Plant NFX1-like proteins are proposed to modulate growth and survival by coordinating reactive oxygen species, salicylic acid, further biotic stress and abscisic acid responses. A common feature of all members may be E3 ubiquitin ligase, due to the presence of a RING finger domain, as well as DNA binding. NFX1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350694 [Multi-domain]  Cd Length: 178  Bit Score: 49.08  E-value: 2.91e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1450419625 167 DQTQELAIKEALAKKLLLITGNPGTGKTLITNEIIHHLLKKYDKEN 212
Cdd:cd17936     3 DPSQLEALKHALTSELALIQGPPGTGKTFLGVKLVRALLQNQDLSI 48
DEXXQc_SF1 cd18043
DEXXQ-box helicase domain of Superfamily 1 helicases; Superfamily 1 (SF1) helicases are ...
 167-204 2.07e-06

DEXXQ-box helicase domain of Superfamily 1 helicases; Superfamily 1 (SF1) helicases are nucleic acid motor proteins that couple ATP hydrolysis to translocation along with the concomitant unwinding of DNA or RNA. This is central to many aspects of cellular DNA and RNA metabolism and accordingly, they are implicated in a wide range of nucleic acid processing events including DNA replication, recombination, and repair as well as many aspects of RNA metabolism. Superfamily 1 helicases are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350801 [Multi-domain]  Cd Length: 127  Bit Score: 45.65  E-value: 2.07e-06
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1450419625 167 DQTQELAIKEALAKKLLLITGNPGTGKT-LITNEIIHHL 204
Cdd:cd18043     1 DSSQEAAIISARNGKNVVIQGPPGTGKSqTIANIIANAL 39
DEXXc_HELZ2-C cd18040
C-terminal DEXX-box helicase domain of HELZ2; Helicase with zinc finger 2 (HELZ2, also known ...
 165-206 1.14e-05

C-terminal DEXX-box helicase domain of HELZ2; Helicase with zinc finger 2 (HELZ2, also known as PPAR-alpha-interacting complex protein 285 or PRIC285 and PPAR-gamma DBD-interacting protein 1 or PDIP1) acts as a transcriptional coactivator for a number of nuclear receptors including PPARA, PPARG, THRA, THRB and RXRA. It belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350798 [Multi-domain]  Cd Length: 271  Bit Score: 45.21  E-value: 1.14e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1450419625 165 NFDQTQELAIKEALAKKLLLITGNPGTGKTLITNEIIHHLLK 206
Cdd:cd18040     1 KLNPSQNHAVRTALTKPFTLIQGPPGTGKTVTGVHIAYWFAK 42
DEXXQc_Upf1-like cd17934
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, ...
 182-226 6.46e-05

DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), coronavirus Nsp13, and similar proteins. They belong to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438708 [Multi-domain]  Cd Length: 121  Bit Score: 41.45  E-value: 6.46e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1450419625 182 LLLITGNPGTGKTLITNEIIHHLLKKYDKENIAILTPTGRATINI 226
Cdd:cd17934     1 ISLIQGPPGTGKTTTIAAIVLQLLKGLRGKRVLVTAQSNVAVDNV 45
DEXXQc_SMUBP2 cd18044
DEXXQ-box helicase domain of SMUBP2; SMUBP2 (also called immunoglobulin mu-binding protein 2, ...
 165-207 9.06e-05

DEXXQ-box helicase domain of SMUBP2; SMUBP2 (also called immunoglobulin mu-binding protein 2, or IGHMBP2) is a 5' to 3' helicase that unwinds RNA and DNA duplexes in an ATP-dependent reaction. It is a DNA-binding protein specific to 5'-phosphorylated single-stranded guanine-rich sequence (5'-GGGCT-3') related to the immunoglobulin mu chain switch region. The IGHMBP2 gene is responsible for Charcot-Marie-Tooth disease (CMT) type 2S and spinal muscular atrophy with respiratory distress type 1 (SMARD1). It is also thought to play a role in frontotemporal dementia (FTD) with amyotrophic lateral sclerosis (ALS) and major depressive disorder (MDD). SMUBP2 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350802 [Multi-domain]  Cd Length: 191  Bit Score: 42.21  E-value: 9.06e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1450419625 165 NFDQTQELAIKEAL-AKKLLLITGNPGTGKTLITNEIIHHLLKK 207
Cdd:cd18044     1 NLNDSQKEAVKFALsQKDVALIHGPPGTGKTTTVVEIILQAVKR 44
AAA_30 pfam13604
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 163-244 1.69e-04

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. There is a Walker A and Walker B.


Pssm-ID: 433343 [Multi-domain]  Cd Length: 191  Bit Score: 41.40  E-value: 1.69e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1450419625 163 TMNFDQTQelAIKEALAK--KLLLITGNPGTGKTlitnEIIHHLLKKYDKENIAI--LTPTGRATININtKQNDVKAQTI 238
Cdd:pfam13604   1 TLNAEQAA--AVRALLTSgdRVAVLVGPAGTGKT----TALKALREAWEAAGYRVigLAPTGRAAKVLG-EELGIPADTI 73


                  ....*.
gi 1450419625 239 HSFLQW 244
Cdd:pfam13604  74 AKLLHR 79
DEXXQc_Helz-like cd18038
DEXXQ/H-box helicase domain of Helz-like helicase; This subfamily contains HELZ, Mov10L1, and ...
 170-219 7.00e-04

DEXXQ/H-box helicase domain of Helz-like helicase; This subfamily contains HELZ, Mov10L1, and similar proteins. Helicase with zinc finger (HELZ) acts as a helicase that plays a role in RNA metabolism during development. Moloney leukemia virus 10-like protein 1 (Mov10L1) binds Piwi-interacting RNA (piRNA) precursors to initiate piRNA processing. All are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350796 [Multi-domain]  Cd Length: 229  Bit Score: 39.91  E-value: 7.00e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1450419625 170 QELAIKEALAKKL----LLITGNPGTGKTLITNEIIHHLLKKYDKENIAILTPT 219
Cdd:cd18038     6 QKLAVRNIVTGTSrpppYIIFGPPGTGKTVTLVEAILQVLRQPPEARILVCAPS 59
DEXXQc_SETX cd18042
DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in ...
 166-230 7.03e-04

DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in transcription, neurogenesis, and antiviral response. SEXT is an R-loop-associated protein that is thought to function as an RNA/DNA helicase. R-loops consist of RNA/DNA hybrids, formed during transcription when nascent RNA hybridizes to the DNA template strand, displacing the non-template DNA strand. Mutations in SETX are linked to two neurodegenerative disorders: ataxia with oculomotor apraxia type 2 (AOA2) and amyotrophic lateral sclerosis type 4 (ALS4). S. cerevisiae homolog splicing endonuclease 1 (Sen1) is an exclusively nuclear protein, important for nucleolar organization. S. cerevisiae Sen1 and its ortholog, the Schizosaccharomyces pombe Sen1, share conserved domains and belong to the family I class of helicases. Both proteins translocate 5' to 3' and unwind both DNA and RNA duplexes and also RNA/DNA hybrids in vitro. SETX is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438712 [Multi-domain]  Cd Length: 218  Bit Score: 39.50  E-value: 7.03e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1450419625 166 FDQTQELAIKEALAK--KLLLITGNPGTGKTL----ITNEIIHHLLKKYDKENIAILTPTGRATININTKQ 230
Cdd:cd18042     1 LNESQLEAIASALQNspGITLIQGPPGTGKTKtivgILSVLLAGKYRKYYEKVKKKLRKLQRNLNNKKKKN 71
McrB COG1401
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 25-217 1.36e-03

5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];


Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 39.37  E-value: 1.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1450419625  25 DNFYQYYFDADEDKKVRLTDLDKIVKNYHPEAFAYKNATYLYHYLQEYFFLSGNTRIK---KELLYKILFQNNYGQELFK 101
Cdd:COG1401    62 RATELVEELSAALEVVVLLLDLEKVELNEKLALSEAAVAIEELYELEADSEIEAVGLLlelAERSDALEALERARLLLEL 141

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1450419625 102 EINKFNAAKEELIQKVYLIELAYDDGIYYTTRDIIYMEKYVINKLIHINNLNVNFDILFEPTMNFDQTQELAIKEAL-AK 180
Cdd:COG1401   142 ADLEERAALETEVLEALEAELEELLAAPEDLSADALAAELSAAEELYSEDLESEDDYLKDLLREKFEETLEAFLAALkTK 221

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1450419625 181 KLLLITGNPGTGKTLITNEIIHHLLkKYDKENIAILT 217
Cdd:COG1401   222 KNVILAGPPGTGKTYLARRLAEALG-GEDNGRIEFVQ 257
DExxQc_SF1-N cd17914
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ...
 182-222 2.04e-03

DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Like SF2, they do not form toroidal, predominantly hexameric structures like SF3-6. Their helicase core is surrounded by C and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains or domains engaged in protein-protein interactions. SF1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438706 [Multi-domain]  Cd Length: 121  Bit Score: 37.08  E-value: 2.04e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1450419625 182 LLLITGNPGTGKTLITNEIIHHLLKKYDKE--NIAILTPTGRA 222
Cdd:cd17914     1 LSLIQGPPGTGKTRVLVKIVAALMQNKNGEpgRILLVTPTNKA 43
AAA_11 pfam13086
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 169-226 3.11e-03

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.


Pssm-ID: 404072 [Multi-domain]  Cd Length: 248  Bit Score: 37.71  E-value: 3.11e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1450419625 169 TQELAIKEALAKKLL-LITGNPGTGKTLITNEIIHHLLK-----KYDKENIAILTPTGRATINI 226
Cdd:pfam13086   1 SQREAIRSALSSSHFtLIQGPPGTGKTTTIVELIRQLLSypatsAAAGPRILVCAPSNAAVDNI 64
UvrD-helicase pfam00580
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ...
 164-244 3.60e-03

UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyze ATP dependent unwinding of double stranded DNA to single stranded DNA. Swiss:P23478, Swiss:P08394 have large insertions near to the carboxy-terminus relative to other members of the family.


Pssm-ID: 395462 [Multi-domain]  Cd Length: 267  Bit Score: 37.61  E-value: 3.60e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1450419625 164 MNFDQtqeLAIKEALAKKLLLITGnPGTGKT-LITNEIIHHLLKK-YDKENIAILTPTGRATINI---------NTKQND 232
Cdd:pfam00580   1 LNPEQ---RKAVTHLGGPLLVLAG-AGSGKTrVLTERIAYLILEGgIDPEEILAVTFTNKAAREMkerilkllgKAELSE 76

                          90
                  ....*....|..
gi 1450419625 233 VKAQTIHSFLQW 244
Cdd:pfam00580  77 LNISTFHSFCLR 88
DEXQc_UvrD cd17932
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ...
 183-241 6.42e-03

DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch repair, nucleotide excision repair, and recombinational repair. It plays a critical role in maintaining genomic stability and facilitating DNA lesion repair in many prokaryotic species including Helicobacter pylori and Escherichia coli. UvrD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350690 [Multi-domain]  Cd Length: 189  Bit Score: 36.72  E-value: 6.42e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1450419625 183 LLITGNPGTGKTL-ITNEIIHHLLKK-YDKENIAILTPTGRATINI---------NTKQNDVKAQTIHSF 241
Cdd:cd17932    15 LLVLAGAGSGKTRvLTHRIAYLILEGgVPPERILAVTFTNKAAKEMrerlrkllgEQLASGVWIGTFHSF 84
EEXXQc_AQR cd17935
EEXXQ-box helicase domain of AQR; Aquarius (AQR) is a multifunctional RNA helicase that binds ...
 162-222 7.09e-03

EEXXQ-box helicase domain of AQR; Aquarius (AQR) is a multifunctional RNA helicase that binds precursor-mRNA introns at a defined position and is part of a pentameric intron-binding complex (IBC). It is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350693 [Multi-domain]  Cd Length: 207  Bit Score: 36.64  E-value: 7.09e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1450419625 162 PTMNFDQTQELAIKEALAKKLLLITGNPGTGKTLITNEIIHHLLKKYDKENIAILTPTGRA 222
Cdd:cd17935     2 NTVKFTPTQIEAIRSGMQPGLTMVVGPPGTGKTDVAVQIISNLYHNFPNQRTLIVTHSNQA 62
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 170-219 9.83e-03

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 35.68  E-value: 9.83e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1450419625 170 QELAIKEALAKKLLLITGNPGTGKTLITNE-IIHHLLKKYDKENIAILTPT 219
Cdd:pfam00270   4 QAEAIPAILEGRDVLVQAPTGSGKTLAFLLpALEALDKLDNGPQALVLAPT 54
 
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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