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Conserved domains on  [gi|339895832|ref|NP_001229950|]
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zinc finger protein 939 [Mus musculus]

Protein Classification

KRAB domain-containing zinc finger protein( domain architecture ID 12204268)

KRAB (Kruppel-associated box) domain-containing zinc finger protein (KRAB-ZFP) plays important roles in cell differentiation and organ development and in regulating viral replication and transcription

CATH:  3.30.160.60|1.10.287.1360
Gene Ontology:  GO:0003677|GO:0008270|GO:0005515|GO:0001217|GO:0003700
PubMed:  8183940|22803940|2023909|8183939|8183940|10748030|27867147|28765213|11361095|30718982|10940247
SCOP:  4003583|4002243

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
KRAB smart00349
krueppel associated box;
4-63 1.00e-30

krueppel associated box;


:

Pssm-ID: 214630 [Multi-domain]  Cd Length: 61  Bit Score: 113.84  E-value: 1.00e-30
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832     4 VSFEDIAVDFSWDEWQHLDVAQRTLYRDVMLENYSSLLFLGHCMTKPEVIFQLEHGFGPW 63
Cdd:smart00349   1 VTFEDVAVYFTQEEWEQLDPAQKNLYRDVMLENYSNLVSLGFQVPKPDLISQLEQGEEPW 60
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
219-380 9.44e-08

FOG: Zn-finger [General function prediction only];


:

Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 54.70  E-value: 9.44e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832 219 KPYKCLECGKYFYYKSQVIEHQRS--HTGE--KPYECTE--CGKSFSYKSHLTIHHRSHTGEKRHECTECR-------KV 285
Cdd:COG5048  288 LPIKSKQCNISFSRSSPLTRHLRSvnHSGEslKPFSCPYslCGKLFSRNDALKRHILLHTSISPAKEKLLNssskfspLL 367

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832 286 FYYKSQLTRHQRSHTGEKPYECMKCGKSFYCNT--HLSLHQRIHVNVKPYACT--ECGKTFSFSACLTRHQRIHTNEKPY 361
Cdd:COG5048  368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRdsNLSLHIITHLSFRPYNCKnpPCSKSFNRHYNLIPHKKIHTNHAPL 447

                        170
                 ....*....|....*....
gi 339895832 362 KCSHCPKAFYFKKQLTHHE 380
Cdd:COG5048  448 LCSILKSFRRDLDLSNHGK 466
SFP1 super family cl25788
Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division ...
 469-524 2.45e-03

Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning];


The actual alignment was detected with superfamily member COG5189:

Pssm-ID: 227516 [Multi-domain]  Cd Length: 423  Bit Score: 40.47  E-value: 2.45e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 339895832 469 DEKPYGCK--QCDKTFYSKSGLTAH-------QKTH------------TGEKPYECKECGKAFYNKYLLiEHHRVHT 524
Cdd:COG5189  346 DGKPYKCPveGCNKKYKNQNGLKYHmlhghqnQKLHenpspekmnifsAKDKPYRCEVCDKRYKNLNGL-KYHRKHS 421
 
Name Accession Description Interval E-value
KRAB smart00349
krueppel associated box;
4-63 1.00e-30

krueppel associated box;


Pssm-ID: 214630 [Multi-domain]  Cd Length: 61  Bit Score: 113.84  E-value: 1.00e-30
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832     4 VSFEDIAVDFSWDEWQHLDVAQRTLYRDVMLENYSSLLFLGHCMTKPEVIFQLEHGFGPW 63
Cdd:smart00349   1 VTFEDVAVYFTQEEWEQLDPAQKNLYRDVMLENYSNLVSLGFQVPKPDLISQLEQGEEPW 60
KRAB pfam01352
KRAB box; The KRAB domain (or Kruppel-associated box) is present in about a third of zinc ...
 3-44 9.57e-21

KRAB box; The KRAB domain (or Kruppel-associated box) is present in about a third of zinc finger proteins containing C2H2 fingers. The KRAB domain is found to be involved in protein-protein interactions. The KRAB domain is generally encoded by two exons. The regions coded by the two exons are known as KRAB-A and KRAB-B. The A box plays an important role in repression by binding to corepressors, while the B box is thought to enhance this repression brought about by the A box. KRAB-containing proteins are thought to have critical functions in cell proliferation and differentiation, apoptosis and neoplastic transformation.


Pssm-ID: 460171  Cd Length: 42  Bit Score: 85.21  E-value: 9.57e-21
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 339895832    3 SVSFEDIAVDFSWDEWQHLDVAQRTLYRDVMLENYSSLLFLG 44
Cdd:pfam01352   1 SVTFEDVAVDFTQEEWALLDPAQRNLYRDVMLENYRNLVSLG 42
KRAB_A-box cd07765
KRAB (Kruppel-associated box) domain -A box; The KRAB domain is a transcription repression ...
 4-43 9.56e-19

KRAB (Kruppel-associated box) domain -A box; The KRAB domain is a transcription repression module, found in a subgroup of the zinc finger proteins (ZFPs) of the C2H2 family, KRAB-ZFPs. KRAB-ZFPs comprise the largest group of transcriptional regulators in mammals, and are only found in tetrapods. These proteins have been shown to play important roles in cell differentiation and organ development, and in regulating viral replication and transcription. A KRAB domain may consist of an A-box, or of an A-box plus either a B-box, a divergent B-box (b), or a C-box. Only the A-box is included in this model. The A-box is needed for repression, the B- and C- boxes are not. KRAB-ZFPs have one or two KRAB domains at their amino-terminal end, and multiple C2H2 zinc finger motifs at their C-termini. Some KRAB-ZFPs also contain a SCAN domain which mediates homo- and hetero-oligomerization. The KRAB domain is a protein-protein interaction module which represses transcription through recruiting corepressors. A key mechanism appears to be the following: KRAB-AFPs tethered to DNA recruit, via their KRAB domain, the repressor KAP1 (KRAB-associated protein-1, also known as transcription intermediary factor 1 beta , KRAB-A interacting protein , and tripartite motif protein 28). The KAP1/ KRAB-AFP complex in turn recruits the heterochromatin protein 1 (HP1) family, and other chromatin modulating proteins, leading to transcriptional repression through heterochromatin formation.


Pssm-ID: 143639  Cd Length: 40  Bit Score: 79.52  E-value: 9.56e-19
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 339895832   4 VSFEDIAVDFSWDEWQHLDVAQRTLYRDVMLENYSSLLFL 43
Cdd:cd07765    1 VTFEDVAVYFSQEEWELLDPAQRDLYRDVMLENYENLVSL 40
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
219-380 9.44e-08

FOG: Zn-finger [General function prediction only];


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 54.70  E-value: 9.44e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832 219 KPYKCLECGKYFYYKSQVIEHQRS--HTGE--KPYECTE--CGKSFSYKSHLTIHHRSHTGEKRHECTECR-------KV 285
Cdd:COG5048  288 LPIKSKQCNISFSRSSPLTRHLRSvnHSGEslKPFSCPYslCGKLFSRNDALKRHILLHTSISPAKEKLLNssskfspLL 367

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832 286 FYYKSQLTRHQRSHTGEKPYECMKCGKSFYCNT--HLSLHQRIHVNVKPYACT--ECGKTFSFSACLTRHQRIHTNEKPY 361
Cdd:COG5048  368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRdsNLSLHIITHLSFRPYNCKnpPCSKSFNRHYNLIPHKKIHTNHAPL 447

                        170
                 ....*....|....*....
gi 339895832 362 KCSHCPKAFYFKKQLTHHE 380
Cdd:COG5048  448 LCSILKSFRRDLDLSNHGK 466
zf-H2C2_2 pfam13465
Zinc-finger double domain;
292-316 2.41e-03

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 35.81  E-value: 2.41e-03
                          10        20
                  ....*....|....*....|....*
gi 339895832  292 LTRHQRSHTGEKPYECMKCGKSFYC 316
Cdd:pfam13465   2 LKRHMRTHTGEKPYKCPECGKSFKS 26
SFP1 COG5189
Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division ...
 469-524 2.45e-03

Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning];


Pssm-ID: 227516 [Multi-domain]  Cd Length: 423  Bit Score: 40.47  E-value: 2.45e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 339895832 469 DEKPYGCK--QCDKTFYSKSGLTAH-------QKTH------------TGEKPYECKECGKAFYNKYLLiEHHRVHT 524
Cdd:COG5189  346 DGKPYKCPveGCNKKYKNQNGLKYHmlhghqnQKLHenpspekmnifsAKDKPYRCEVCDKRYKNLNGL-KYHRKHS 421
 
Name Accession Description Interval E-value
KRAB smart00349
krueppel associated box;
4-63 1.00e-30

krueppel associated box;


Pssm-ID: 214630 [Multi-domain]  Cd Length: 61  Bit Score: 113.84  E-value: 1.00e-30
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832     4 VSFEDIAVDFSWDEWQHLDVAQRTLYRDVMLENYSSLLFLGHCMTKPEVIFQLEHGFGPW 63
Cdd:smart00349   1 VTFEDVAVYFTQEEWEQLDPAQKNLYRDVMLENYSNLVSLGFQVPKPDLISQLEQGEEPW 60
KRAB pfam01352
KRAB box; The KRAB domain (or Kruppel-associated box) is present in about a third of zinc ...
 3-44 9.57e-21

KRAB box; The KRAB domain (or Kruppel-associated box) is present in about a third of zinc finger proteins containing C2H2 fingers. The KRAB domain is found to be involved in protein-protein interactions. The KRAB domain is generally encoded by two exons. The regions coded by the two exons are known as KRAB-A and KRAB-B. The A box plays an important role in repression by binding to corepressors, while the B box is thought to enhance this repression brought about by the A box. KRAB-containing proteins are thought to have critical functions in cell proliferation and differentiation, apoptosis and neoplastic transformation.


Pssm-ID: 460171  Cd Length: 42  Bit Score: 85.21  E-value: 9.57e-21
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 339895832    3 SVSFEDIAVDFSWDEWQHLDVAQRTLYRDVMLENYSSLLFLG 44
Cdd:pfam01352   1 SVTFEDVAVDFTQEEWALLDPAQRNLYRDVMLENYRNLVSLG 42
KRAB_A-box cd07765
KRAB (Kruppel-associated box) domain -A box; The KRAB domain is a transcription repression ...
 4-43 9.56e-19

KRAB (Kruppel-associated box) domain -A box; The KRAB domain is a transcription repression module, found in a subgroup of the zinc finger proteins (ZFPs) of the C2H2 family, KRAB-ZFPs. KRAB-ZFPs comprise the largest group of transcriptional regulators in mammals, and are only found in tetrapods. These proteins have been shown to play important roles in cell differentiation and organ development, and in regulating viral replication and transcription. A KRAB domain may consist of an A-box, or of an A-box plus either a B-box, a divergent B-box (b), or a C-box. Only the A-box is included in this model. The A-box is needed for repression, the B- and C- boxes are not. KRAB-ZFPs have one or two KRAB domains at their amino-terminal end, and multiple C2H2 zinc finger motifs at their C-termini. Some KRAB-ZFPs also contain a SCAN domain which mediates homo- and hetero-oligomerization. The KRAB domain is a protein-protein interaction module which represses transcription through recruiting corepressors. A key mechanism appears to be the following: KRAB-AFPs tethered to DNA recruit, via their KRAB domain, the repressor KAP1 (KRAB-associated protein-1, also known as transcription intermediary factor 1 beta , KRAB-A interacting protein , and tripartite motif protein 28). The KAP1/ KRAB-AFP complex in turn recruits the heterochromatin protein 1 (HP1) family, and other chromatin modulating proteins, leading to transcriptional repression through heterochromatin formation.


Pssm-ID: 143639  Cd Length: 40  Bit Score: 79.52  E-value: 9.56e-19
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 339895832   4 VSFEDIAVDFSWDEWQHLDVAQRTLYRDVMLENYSSLLFL 43
Cdd:cd07765    1 VTFEDVAVYFSQEEWELLDPAQRDLYRDVMLENYENLVSL 40
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
219-380 9.44e-08

FOG: Zn-finger [General function prediction only];


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 54.70  E-value: 9.44e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832 219 KPYKCLECGKYFYYKSQVIEHQRS--HTGE--KPYECTE--CGKSFSYKSHLTIHHRSHTGEKRHECTECR-------KV 285
Cdd:COG5048  288 LPIKSKQCNISFSRSSPLTRHLRSvnHSGEslKPFSCPYslCGKLFSRNDALKRHILLHTSISPAKEKLLNssskfspLL 367

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832 286 FYYKSQLTRHQRSHTGEKPYECMKCGKSFYCNT--HLSLHQRIHVNVKPYACT--ECGKTFSFSACLTRHQRIHTNEKPY 361
Cdd:COG5048  368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRdsNLSLHIITHLSFRPYNCKnpPCSKSFNRHYNLIPHKKIHTNHAPL 447

                        170
                 ....*....|....*....
gi 339895832 362 KCSHCPKAFYFKKQLTHHE 380
Cdd:COG5048  448 LCSILKSFRRDLDLSNHGK 466
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
247-581 5.07e-07

FOG: Zn-finger [General function prediction only];


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 52.39  E-value: 5.07e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832 247 KPYECTECGKSFSYKSHLTIHHRSHTGEKRHECT--ECRKVFYYKSQLTRHQRSHTGEKPYEC-MKCGKSFYCNTHLSLH 323
Cdd:COG5048   32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSysGCDKSFSRPLELSRHLRTHHNNPSDLNsKSLPLSNSKASSSSLS 111

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832 324 QRIHVNVKPYACTECGKTFSfsaclTRHQrihTNEKPYKCSHCPKAFYFKKQLTHHEKTHATEKRFECKQ---CGKAFYW 400
Cdd:COG5048  112 SSSSNSNDNNLLSSHSLPPS-----SRDP---QLPDLLSISNLRNNPLPGNNSSSVNTPQSNSLHPPLPAnslSKDPSSN 183

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832 401 RANLTVHQKTHGGEKPFECKQCGKAFYCKSHLTVHQRTHISEKL-----YQCSQCRKAFYSQTQLTVHQRIHTDEKPYGC 475
Cdd:COG5048  184 LSLLISSNVSTSIPSSSENSPLSSSYSIPSSSSDQNLENSSSSLplttnSQLSPKSLLSQSPSSLSSSDSSSSASESPRS 263

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832 476 KQCDKTFYSKSGLTAHQKTHTG-EKPYECKECGKAFYNKYLLIEH--HRVHTGE--KPYQCTECKkafyckkylslhqkt 550
Cdd:COG5048  264 SLPTASSQSSSPNESDSSSEKGfSLPIKSKQCNISFSRSSPLTRHlrSVNHSGEslKPFSCPYSL--------------- 328

                        330       340       350
                 ....*....|....*....|....*....|.
gi 339895832 551 haseksfhcaeCGKAFSWMSHLTQHQRIHTG 581
Cdd:COG5048  329 -----------CGKLFSRNDALKRHILLHTS 348
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
208-559 3.18e-06

FOG: Zn-finger [General function prediction only];


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 49.69  E-value: 3.18e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832 208 KPQRQATHSDEKPYKCLECGKYFYYKSQVIEHQRSHTGEKPYECT--ECGKSFSYKSHLTIHHRSHTGEKRHECTecrkv 285
Cdd:COG5048   21 KSTLKSLSNAPRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSysGCDKSFSRPLELSRHLRTHHNNPSDLNS----- 95

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832 286 fyYKSQLTRHQRSHTgEKPYECMKCGKSFYCNTHLSLHQRIHVNVKPyactECGKTFSFSACLTRHQRIHTNekpykcsh 365
Cdd:COG5048   96 --KSLPLSNSKASSS-SLSSSSSNSNDNNLLSSHSLPPSSRDPQLPD----LLSISNLRNNPLPGNNSSSVN-------- 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832 366 CPKAFYFKKQLTHHEkthatekrfeckQCGKAFYWRANLTVHQKTHGGEKPFECKQCGKAFYCKSHLTVHQRTHISEKL- 444
Cdd:COG5048  161 TPQSNSLHPPLPANS------------LSKDPSSNLSLLISSNVSTSIPSSSENSPLSSSYSIPSSSSDQNLENSSSSLp 228

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339895832 445 ----YQCSQCRKAFYSQTQLTVHQRIHTDEKPYGCKQCDKTFYSKSGLTAHQKTHTG-EKPYECKECGKAFYNKYLLIEH 519
Cdd:COG5048  229 lttnSQLSPKSLLSQSPSSLSSSDSSSSASESPRSSLPTASSQSSSPNESDSSSEKGfSLPIKSKQCNISFSRSSPLTRH 308

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*.
gi 339895832 520 --HRVHTGE--KPYQCTE--CKKAFYCKKYLSLHQKTHASEKSFHC 559
Cdd:COG5048  309 lrSVNHSGEslKPFSCPYslCGKLFSRNDALKRHILLHTSISPAKE 354
zf-H2C2_2 pfam13465
Zinc-finger double domain;
292-316 2.41e-03

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 35.81  E-value: 2.41e-03
                          10        20
                  ....*....|....*....|....*
gi 339895832  292 LTRHQRSHTGEKPYECMKCGKSFYC 316
Cdd:pfam13465   2 LKRHMRTHTGEKPYKCPECGKSFKS 26
SFP1 COG5189
Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division ...
 469-524 2.45e-03

Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning];


Pssm-ID: 227516 [Multi-domain]  Cd Length: 423  Bit Score: 40.47  E-value: 2.45e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 339895832 469 DEKPYGCK--QCDKTFYSKSGLTAH-------QKTH------------TGEKPYECKECGKAFYNKYLLiEHHRVHT 524
Cdd:COG5189  346 DGKPYKCPveGCNKKYKNQNGLKYHmlhghqnQKLHenpspekmnifsAKDKPYRCEVCDKRYKNLNGL-KYHRKHS 421
zf-H2C2_2 pfam13465
Zinc-finger double domain;
238-260 5.09e-03

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 34.65  E-value: 5.09e-03
                          10        20
                  ....*....|....*....|...
gi 339895832  238 EHQRSHTGEKPYECTECGKSFSY 260
Cdd:pfam13465   4 RHMRTHTGEKPYKCPECGKSFKS 26
zf-H2C2_2 pfam13465
Zinc-finger double domain;
348-370 5.67e-03

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 34.65  E-value: 5.67e-03
                          10        20
                  ....*....|....*....|...
gi 339895832  348 LTRHQRIHTNEKPYKCSHCPKAF 370
Cdd:pfam13465   2 LKRHMRTHTGEKPYKCPECGKSF 24
 
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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