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Conserved domains on  [gi|111305406|gb|AAI20921|]
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Splicing factor 4 [Mus musculus]

Protein Classification

Surp and G-patch domain-containing protein( domain architecture ID 10485244)

protein containing domains Surp, kgd, and G-patch

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Surp pfam01805
Surp module; This domain is also known as the SWAP domain. SWAP stands for ...
 186-237 4.79e-18

Surp module; This domain is also known as the SWAP domain. SWAP stands for Suppressor-of-White-APricot. It has been suggested that these domains may be RNA binding.


:

Pssm-ID: 460339 [Multi-domain]  Cd Length: 52  Bit Score: 77.94  E-value: 4.79e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 111305406  186 RVIEKLARFVAEGGPELEKVAMEDYKDNPAFTFLHDKNSREFLYYRRKVAEI 237
Cdd:pfam01805   1 DIIKKTAQFVARNGPEFEALLMEREERNPQFDFLFDPDDPLHAYYRWKLEEY 52
Surp pfam01805
Surp module; This domain is also known as the SWAP domain. SWAP stands for ...
 261-312 1.32e-14

Surp module; This domain is also known as the SWAP domain. SWAP stands for Suppressor-of-White-APricot. It has been suggested that these domains may be RNA binding.


:

Pssm-ID: 460339 [Multi-domain]  Cd Length: 52  Bit Score: 68.31  E-value: 1.32e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 111305406  261 NLAEKLARFIADGGPEVETIALQNNRENQAFSFLYDPNSQGYRYYRQKLDEF 312
Cdd:pfam01805   1 DIIKKTAQFVARNGPEFEALLMEREERNPQFDFLFDPDDPLHAYYRWKLEEY 52
G-patch pfam01585
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in ...
 561-605 8.64e-14

G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains. This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines.


:

Pssm-ID: 396249 [Multi-domain]  Cd Length: 45  Bit Score: 65.61  E-value: 8.64e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 111305406  561 ENIGYQMLMKMGWKEGEGLGTEGQGIKNPVNKGATTiDGAGFGID 605
Cdd:pfam01585   2 SNIGFKLLQKMGWKEGQGLGKNEQGIAEPIEAKIKK-DRRGLGAE 45
kgd super family cl39092
multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine ...
 293-416 1.07e-03

multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit;


The actual alignment was detected with superfamily member PRK12270:

Pssm-ID: 476867 [Multi-domain]  Cd Length: 1228  Bit Score: 42.18  E-value: 1.07e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 111305406  293 FLYDPNSqgyryyrqkLDE-----FRKAKAGSTGSFPALAPNPSLRRKSAPEALSGAVPPITACPTPVAPAPAVNPTPSI 367
Cdd:PRK12270   18 YLADPNS---------VDPswrefFADYGPGSTAAPTAAAAAAAAAASAPAAAPAAKAPAAPAPAPPAAAAPAAPPKPAA 88

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 111305406  368 PGKPTATAAVKRKRKSRWGPEEDKVEL-------PPAELAqRDIDAS---PSPLSVQDL 416
Cdd:PRK12270   89 AAAAAAAPAAPPAAAAAAAPAAAAVEDevtplrgAAAAVA-KNMDASlevPTATSVRAV 146
 
Name Accession Description Interval E-value
Surp pfam01805
Surp module; This domain is also known as the SWAP domain. SWAP stands for ...
 186-237 4.79e-18

Surp module; This domain is also known as the SWAP domain. SWAP stands for Suppressor-of-White-APricot. It has been suggested that these domains may be RNA binding.


Pssm-ID: 460339 [Multi-domain]  Cd Length: 52  Bit Score: 77.94  E-value: 4.79e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 111305406  186 RVIEKLARFVAEGGPELEKVAMEDYKDNPAFTFLHDKNSREFLYYRRKVAEI 237
Cdd:pfam01805   1 DIIKKTAQFVARNGPEFEALLMEREERNPQFDFLFDPDDPLHAYYRWKLEEY 52
SWAP smart00648
Suppressor-of-White-APricot splicing regulator; domain present in regulators which are ...
 185-239 2.71e-15

Suppressor-of-White-APricot splicing regulator; domain present in regulators which are responsible for pre-mRNA splicing processes


Pssm-ID: 197818 [Multi-domain]  Cd Length: 54  Bit Score: 70.31  E-value: 2.71e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 111305406   185 RRVIEKLARFVAEGGPELEKVAMEDYKDNPAFTFLHDKNSReFLYYRRKVAEIRK 239
Cdd:smart00648   1 LDIIDKTAQFVARNGPEFEAKLMERERNNPQFDFLKPNDPY-HAYYRKKLAEYRQ 54
Surp pfam01805
Surp module; This domain is also known as the SWAP domain. SWAP stands for ...
 261-312 1.32e-14

Surp module; This domain is also known as the SWAP domain. SWAP stands for Suppressor-of-White-APricot. It has been suggested that these domains may be RNA binding.


Pssm-ID: 460339 [Multi-domain]  Cd Length: 52  Bit Score: 68.31  E-value: 1.32e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 111305406  261 NLAEKLARFIADGGPEVETIALQNNRENQAFSFLYDPNSQGYRYYRQKLDEF 312
Cdd:pfam01805   1 DIIKKTAQFVARNGPEFEALLMEREERNPQFDFLFDPDDPLHAYYRWKLEEY 52
G-patch pfam01585
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in ...
 561-605 8.64e-14

G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains. This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines.


Pssm-ID: 396249 [Multi-domain]  Cd Length: 45  Bit Score: 65.61  E-value: 8.64e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 111305406  561 ENIGYQMLMKMGWKEGEGLGTEGQGIKNPVNKGATTiDGAGFGID 605
Cdd:pfam01585   2 SNIGFKLLQKMGWKEGQGLGKNEQGIAEPIEAKIKK-DRRGLGAE 45
G_patch smart00443
glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in ...
 558-604 2.60e-13

glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.


Pssm-ID: 197727 [Multi-domain]  Cd Length: 47  Bit Score: 64.49  E-value: 2.60e-13
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 111305406   558 LTVENIGYQMLMKMGWKEGEGLGTEGQGIKNPVnKGATTIDGAGFGI 604
Cdd:smart00443   1 ISTSNIGAKLLRKMGWKEGQGLGKNEQGIVEPI-SAEIKKDRKGLGA 46
SWAP smart00648
Suppressor-of-White-APricot splicing regulator; domain present in regulators which are ...
 260-314 4.93e-13

Suppressor-of-White-APricot splicing regulator; domain present in regulators which are responsible for pre-mRNA splicing processes


Pssm-ID: 197818 [Multi-domain]  Cd Length: 54  Bit Score: 63.76  E-value: 4.93e-13
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 111305406   260 KNLAEKLARFIADGGPEVETIALQNNRENQAFSFLYdPNSQGYRYYRQKLDEFRK 314
Cdd:smart00648   1 LDIIDKTAQFVARNGPEFEAKLMERERNNPQFDFLK-PNDPYHAYYRKKLAEYRQ 54
kgd PRK12270
multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine ...
 293-416 1.07e-03

multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit;


Pssm-ID: 237030 [Multi-domain]  Cd Length: 1228  Bit Score: 42.18  E-value: 1.07e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 111305406  293 FLYDPNSqgyryyrqkLDE-----FRKAKAGSTGSFPALAPNPSLRRKSAPEALSGAVPPITACPTPVAPAPAVNPTPSI 367
Cdd:PRK12270   18 YLADPNS---------VDPswrefFADYGPGSTAAPTAAAAAAAAAASAPAAAPAAKAPAAPAPAPPAAAAPAAPPKPAA 88

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 111305406  368 PGKPTATAAVKRKRKSRWGPEEDKVEL-------PPAELAqRDIDAS---PSPLSVQDL 416
Cdd:PRK12270   89 AAAAAAAPAAPPAAAAAAAPAAAAVEDevtplrgAAAAVA-KNMDASlevPTATSVRAV 146
 
Name Accession Description Interval E-value
Surp pfam01805
Surp module; This domain is also known as the SWAP domain. SWAP stands for ...
 186-237 4.79e-18

Surp module; This domain is also known as the SWAP domain. SWAP stands for Suppressor-of-White-APricot. It has been suggested that these domains may be RNA binding.


Pssm-ID: 460339 [Multi-domain]  Cd Length: 52  Bit Score: 77.94  E-value: 4.79e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 111305406  186 RVIEKLARFVAEGGPELEKVAMEDYKDNPAFTFLHDKNSREFLYYRRKVAEI 237
Cdd:pfam01805   1 DIIKKTAQFVARNGPEFEALLMEREERNPQFDFLFDPDDPLHAYYRWKLEEY 52
SWAP smart00648
Suppressor-of-White-APricot splicing regulator; domain present in regulators which are ...
 185-239 2.71e-15

Suppressor-of-White-APricot splicing regulator; domain present in regulators which are responsible for pre-mRNA splicing processes


Pssm-ID: 197818 [Multi-domain]  Cd Length: 54  Bit Score: 70.31  E-value: 2.71e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 111305406   185 RRVIEKLARFVAEGGPELEKVAMEDYKDNPAFTFLHDKNSReFLYYRRKVAEIRK 239
Cdd:smart00648   1 LDIIDKTAQFVARNGPEFEAKLMERERNNPQFDFLKPNDPY-HAYYRKKLAEYRQ 54
Surp pfam01805
Surp module; This domain is also known as the SWAP domain. SWAP stands for ...
 261-312 1.32e-14

Surp module; This domain is also known as the SWAP domain. SWAP stands for Suppressor-of-White-APricot. It has been suggested that these domains may be RNA binding.


Pssm-ID: 460339 [Multi-domain]  Cd Length: 52  Bit Score: 68.31  E-value: 1.32e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 111305406  261 NLAEKLARFIADGGPEVETIALQNNRENQAFSFLYDPNSQGYRYYRQKLDEF 312
Cdd:pfam01805   1 DIIKKTAQFVARNGPEFEALLMEREERNPQFDFLFDPDDPLHAYYRWKLEEY 52
G-patch pfam01585
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in ...
 561-605 8.64e-14

G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains. This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines.


Pssm-ID: 396249 [Multi-domain]  Cd Length: 45  Bit Score: 65.61  E-value: 8.64e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 111305406  561 ENIGYQMLMKMGWKEGEGLGTEGQGIKNPVNKGATTiDGAGFGID 605
Cdd:pfam01585   2 SNIGFKLLQKMGWKEGQGLGKNEQGIAEPIEAKIKK-DRRGLGAE 45
G_patch smart00443
glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in ...
 558-604 2.60e-13

glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.


Pssm-ID: 197727 [Multi-domain]  Cd Length: 47  Bit Score: 64.49  E-value: 2.60e-13
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 111305406   558 LTVENIGYQMLMKMGWKEGEGLGTEGQGIKNPVnKGATTIDGAGFGI 604
Cdd:smart00443   1 ISTSNIGAKLLRKMGWKEGQGLGKNEQGIVEPI-SAEIKKDRKGLGA 46
SWAP smart00648
Suppressor-of-White-APricot splicing regulator; domain present in regulators which are ...
 260-314 4.93e-13

Suppressor-of-White-APricot splicing regulator; domain present in regulators which are responsible for pre-mRNA splicing processes


Pssm-ID: 197818 [Multi-domain]  Cd Length: 54  Bit Score: 63.76  E-value: 4.93e-13
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 111305406   260 KNLAEKLARFIADGGPEVETIALQNNRENQAFSFLYdPNSQGYRYYRQKLDEFRK 314
Cdd:smart00648   1 LDIIDKTAQFVARNGPEFEAKLMERERNNPQFDFLK-PNDPYHAYYRKKLAEYRQ 54
G-patch_2 pfam12656
G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ...
 560-590 2.50e-04

G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ATP-dependent DExH-box splicing factor Prp2. As this interaction involves the G-patch sequence in Spp2 and is required for the recruitment of Prp2 to the spliceosome before the first catalytic step of splicing, it is proposed that Spp2 might be an accessory factor that confers spliceosome specificity on Prp2.


Pssm-ID: 432700 [Multi-domain]  Cd Length: 61  Bit Score: 39.57  E-value: 2.50e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 111305406  560 VENIGYQMLMKMGWKEGEGLGTEGQGIKNPV 590
Cdd:pfam12656  14 VEEFGAAMLRGMGWKPGQGIGKNKKGDVKPK 44
kgd PRK12270
multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine ...
 293-416 1.07e-03

multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit;


Pssm-ID: 237030 [Multi-domain]  Cd Length: 1228  Bit Score: 42.18  E-value: 1.07e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 111305406  293 FLYDPNSqgyryyrqkLDE-----FRKAKAGSTGSFPALAPNPSLRRKSAPEALSGAVPPITACPTPVAPAPAVNPTPSI 367
Cdd:PRK12270   18 YLADPNS---------VDPswrefFADYGPGSTAAPTAAAAAAAAAASAPAAAPAAKAPAAPAPAPPAAAAPAAPPKPAA 88

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 111305406  368 PGKPTATAAVKRKRKSRWGPEEDKVEL-------PPAELAqRDIDAS---PSPLSVQDL 416
Cdd:PRK12270   89 AAAAAAAPAAPPAAAAAAAPAAAAVEDevtplrgAAAAVA-KNMDASlevPTATSVRAV 146
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
313-410 3.40e-03

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 40.63  E-value: 3.40e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 111305406 313 RKAKAGSTGSFPALAPNPSLRRKSAPEALSGAVPPITACPTPVAPAPAVNPTPSIPGKPTATAAVKRKRKSRWGPEEDKV 392
Cdd:PRK12323 417 RAVAAAPARRSPAPEALAAARQASARGPGGAPAPAPAPAAAPAAAARPAAAGPRPVAAAAAAAPARAAPAAAPAPADDDP 496

                         90       100
                 ....*....|....*....|....
gi 111305406 393 ----ELPP--AELAQRDIDASPSP 410
Cdd:PRK12323 497 ppweELPPefASPAPAQPDAAPAG 520
 
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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