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Conserved domains on  [gi|1207175443|ref|XP_021331844|]
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transcription initiation factor TFIID subunit 1 isoform X1 [Danio rerio]

Protein Classification

transcription initiation factor TFIID subunit 1( domain architecture ID 10557979)

transcription initiation factor TFIID subunit 1 (TAF1) is part of the TFIID complex that plays a major role in the initiation of RNA polymerase II (Pol II)-dependent transcription

CATH:  1.20.920.10
Gene Symbol:  TAF1
Gene Ontology:  GO:0005669|GO:0017025|GO:0006366|GO:0001091|GO:0004402|GO:0008270|GO:0070577
PubMed:  11686293|16205117|33787465|11179890|12665246|11911891|15382140
SCOP:  4000871

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DUF3591 pfam12157
Protein of unknown function (DUF3591); This domain is found in eukaryotes and is typically ...
 617-1080 0e+00

Protein of unknown function (DUF3591); This domain is found in eukaryotes and is typically between 445 to 462 amino acids in length. Most members are annotated as being transcription initiation factor TFIID subunit 1, and this region is the conserved central portion of these proteins.


:

Pssm-ID: 463476 [Multi-domain]  Cd Length: 456  Bit Score: 688.90  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  617 WNLSNDEFYYPK----QQGLRGSFGGNIIQHSIPTVELRQPFFPTHMGPMKLRQFHRPSLKKYSFGalsqpGPHAVQPLL 692
Cdd:pfam12157    1 FNISNDEAYEILkenhQSKVRSTLGNLAIEHSLPALKLQLPFYKTKLSKRELRSFHRPRLQFPPNG-----GPEIVFSKL 75

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  693 KHIKKKakmreqerQASGGGDMFFMRTAQDLTGKD-GDLVLAEYSEEYPPLHMQVGMASKIKNYYKRKPGKDPGAPDCKY 771
Cdd:pfam12157   76 KHRKKK--------KDKGKDISELFKTTKDLSLRDtSNLVLLEYSEEYPPLLSNFGMGSKLINYYRKKDAKDTSRPKLEI 147

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  772 GETVYC---HTSPF--LGSLHPGQLLQAFENNLFRAPIYLHKMPETDFLIIRTRQG----YFIRELVDIFVVGQECPLYE 842
Cdd:pfam12157  148 GETHVLdpqDKSPFwnFGSVEPGETVPTLYNNMFRAPIFKHKPKSTDFLLIRSTTGgeskYYLRNIDNLFVVGQTFPVVE 227

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  843 VPGPNSKRANTHIRDFLQVFIYRLFWKSKDRprRIRMEDIKKAFPSHSESSIRKRLKLCADFKRTGMDSNWWVLKPDFRL 922
Cdd:pfam12157  228 VPGPHSRKVTNFSKNRLKMIAYRLFRKSKDG--RIKIEDITKHFPDQNEMQNRQRLKEFMDYQRTGDDQGFWKLKPGDRL 305

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  923 PTEEEIRAMVSPEQCCAYYSMLVAEQRLKDAGYGEKSffAPEEENEEEFQMKIDDEVRTAPWNTTRAFIAAMKGKCLLEV 1002
Cdd:pfam12157  306 PDEEEIRKMVTPEDVCLYESMQVGQQRLKDAGYGEKD--APEEEDEDDDESKIELEQQLAPWNTTKNFINATQGKAMLQL 383

                          410       420       430       440       450       460       470
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1207175443 1003 TGVADPTGCGEGFSYVKVPNKPTQQKDDrepqPVKKTVTGTDADlRRLSLKNAKQLLRKFGVPEEEIKKLSRWEVIDV 1080
Cdd:pfam12157  384 HGEGDPTGRGEGFSFLRTSMKGGFLKAG----ETKKDVTGTDAD-RKLSGGHSYNVARQQGVYEEEIKRIWRWQKISL 456
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1575-1686 1.21e-58

Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to acetylated histone H4. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


:

Pssm-ID: 99943 [Multi-domain]  Cd Length: 112  Bit Score: 197.49  E-value: 1.21e-58
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1575 FSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPD 1654
Cdd:cd05511      1 LSFILDEIVNELKNL-PDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPD 79

                           90       100       110
                   ....*....|....*....|....*....|..
gi 1207175443 1655 SPYTKTALEIVNVCKQTLAEYDEHLTQLEKDI 1686
Cdd:cd05511     80 SVYTKKAKEMLELAEELLAEREEKLTQLEKNI 111
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1453-1564 2.61e-56

Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to acetylated histone H4. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


:

Pssm-ID: 99943 [Multi-domain]  Cd Length: 112  Bit Score: 190.94  E-value: 2.61e-56
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1453 LSSVLESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1532
Cdd:cd05511      1 LSFILDEIVNELKNLPDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDS 80

                           90       100       110
                   ....*....|....*....|....*....|..
gi 1207175443 1533 PLTVVAQAMLSLCVEKIKEKEERLVRLEKAIN 1564
Cdd:cd05511     81 VYTKKAKEMLELAEELLAEREEKLTQLEKNIN 112
TBP-binding pfam09247
TATA box-binding protein binding; Members of this family adopt a structure consisting of three ...
 13-64 1.76e-15

TATA box-binding protein binding; Members of this family adopt a structure consisting of three alpha helices and a beta-hairpin. They bind to TATA box-binding protein (TBP), inhibiting TBP interaction with the TATA element, thereby resulting in shutting down of gene transcription.


:

Pssm-ID: 462723  Cd Length: 59  Bit Score: 72.29  E-value: 1.76e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 1207175443   13 PFHLTGFLFGNINENGQLEDDSVLDTESKKHLAGLGTLGLGSLITEITASEE 64
Cdd:pfam09247    8 GLDLTGFLFGNIDEHGQLEDDDILDEESKRHLSSLSKLGLGSFLSEIIDDEE 59
zf-CCHC_6 pfam15288
Zinc knuckle; This Zinc knuckle is found in FAM90A mammalian proteins.
 1327-1362 3.90e-13

Zinc knuckle; This Zinc knuckle is found in FAM90A mammalian proteins.


:

Pssm-ID: 464616 [Multi-domain]  Cd Length: 42  Bit Score: 65.10  E-value: 3.90e-13
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1207175443 1327 KLKCGACGAIGHMRTNKFCPLYYQTNAPPSNPVAMT 1362
Cdd:pfam15288    1 RVKCKNCGAFGHTARSKRCPIKCWNGALVPQPLGSK 36
 
Name Accession Description Interval E-value
DUF3591 pfam12157
Protein of unknown function (DUF3591); This domain is found in eukaryotes and is typically ...
 617-1080 0e+00

Protein of unknown function (DUF3591); This domain is found in eukaryotes and is typically between 445 to 462 amino acids in length. Most members are annotated as being transcription initiation factor TFIID subunit 1, and this region is the conserved central portion of these proteins.


Pssm-ID: 463476 [Multi-domain]  Cd Length: 456  Bit Score: 688.90  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  617 WNLSNDEFYYPK----QQGLRGSFGGNIIQHSIPTVELRQPFFPTHMGPMKLRQFHRPSLKKYSFGalsqpGPHAVQPLL 692
Cdd:pfam12157    1 FNISNDEAYEILkenhQSKVRSTLGNLAIEHSLPALKLQLPFYKTKLSKRELRSFHRPRLQFPPNG-----GPEIVFSKL 75

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  693 KHIKKKakmreqerQASGGGDMFFMRTAQDLTGKD-GDLVLAEYSEEYPPLHMQVGMASKIKNYYKRKPGKDPGAPDCKY 771
Cdd:pfam12157   76 KHRKKK--------KDKGKDISELFKTTKDLSLRDtSNLVLLEYSEEYPPLLSNFGMGSKLINYYRKKDAKDTSRPKLEI 147

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  772 GETVYC---HTSPF--LGSLHPGQLLQAFENNLFRAPIYLHKMPETDFLIIRTRQG----YFIRELVDIFVVGQECPLYE 842
Cdd:pfam12157  148 GETHVLdpqDKSPFwnFGSVEPGETVPTLYNNMFRAPIFKHKPKSTDFLLIRSTTGgeskYYLRNIDNLFVVGQTFPVVE 227

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  843 VPGPNSKRANTHIRDFLQVFIYRLFWKSKDRprRIRMEDIKKAFPSHSESSIRKRLKLCADFKRTGMDSNWWVLKPDFRL 922
Cdd:pfam12157  228 VPGPHSRKVTNFSKNRLKMIAYRLFRKSKDG--RIKIEDITKHFPDQNEMQNRQRLKEFMDYQRTGDDQGFWKLKPGDRL 305

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  923 PTEEEIRAMVSPEQCCAYYSMLVAEQRLKDAGYGEKSffAPEEENEEEFQMKIDDEVRTAPWNTTRAFIAAMKGKCLLEV 1002
Cdd:pfam12157  306 PDEEEIRKMVTPEDVCLYESMQVGQQRLKDAGYGEKD--APEEEDEDDDESKIELEQQLAPWNTTKNFINATQGKAMLQL 383

                          410       420       430       440       450       460       470
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1207175443 1003 TGVADPTGCGEGFSYVKVPNKPTQQKDDrepqPVKKTVTGTDADlRRLSLKNAKQLLRKFGVPEEEIKKLSRWEVIDV 1080
Cdd:pfam12157  384 HGEGDPTGRGEGFSFLRTSMKGGFLKAG----ETKKDVTGTDAD-RKLSGGHSYNVARQQGVYEEEIKRIWRWQKISL 456
TAF1 COG5179
Transcription initiation factor TFIID, subunit TAF1 [Transcription];
493-1356 1.56e-97

Transcription initiation factor TFIID, subunit TAF1 [Transcription];


Pssm-ID: 227506 [Multi-domain]  Cd Length: 968  Bit Score: 339.34  E-value: 1.56e-97
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  493 SITGSKRDKHNHDHQVSHEDdtpwfsifpidnEELVYGRWEDNIIWDDQNMDCIPSPPVLTLNPndeniILEIPDEKEER 572
Cdd:COG5179    249 RAGGRMKRDTVTTEFVDSID------------LLIATDDWERYVIVDEADDMKTPRKSFYKLKS-----LTDVDWLYDED 311

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  573 TSHSPSKENKKETALKKSRILL--GKTGVIKDEPQQNMSQP--EIKDPWNLSNDEFY----YPKQQGLRGSFGGNIIQHS 644
Cdd:COG5179    312 IIDAKLKESKAPLNLNDEKLLLkrQAKPKKKQQEVFSDDKPlnELKGKFNISNDKYYgilkKTHQSKVRNTLSTLGIQHS 391

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  645 IPTVELRQPFFPTHMGPMKLRQFHRPslkKYSFgalsQPGPHAVQPLLKHIKKKAKMREQERQAsgggdmffMRTAQDLT 724
Cdd:COG5179    392 LPALRLDPPFYKNNHTKEELRNFHRP---RFMV----RPGSNIVFSTLEARKRNKDKGKDVQEI--------IKTAGELT 456

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  725 GKDGD-LVLAEYSEEYPPLHMQVGMASKIKNYYKRKPGKDPGAPDCKYGETVYCHT---SPF--LGSLHPGQLLQAFENN 798
Cdd:COG5179    457 VGDTSpFSLFEYSEEEPFFLSNPGMASLLNNYYRKSNEQDEYRPKLDVGEYHVLDVqdpSPFwnFGDVEPGTIIPTLYNN 536

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  799 LFRAPIYLHKMPETDFLIIRTRQG-----YFIRELVDIFVVGQECPLYEVPGPNSKRANTHIRDFLQVFIYRLFWKSKDR 873
Cdd:COG5179    537 MIRAPVFKHSSGGTDFLLIVESSNsgemsLYLRNINHLFCVGQTFPVEEVPGPHSRKVTVFCKNRLKMAAFRLFNSKEGG 616

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  874 PRRIRmeDIKKAFPSHSESSIRKRLKLCADFKRTGMDsNWWVLKPDFRLPTEEEIRAMVSPEQCCAYYSMLVAEQRLKDA 953
Cdd:COG5179    617 SLRIS--QLDKHFPDQSEGQKRQWLKEFMDYVKDGPD-GVWVLKPSEALLDEEDLRSLVTPENICQYESMLAGERKLEDS 693

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  954 GYGEKSFfapeeeneeEFQMKIDDEVRTAPWNTTRAFIAAMKGKCLLEVTGVADPTGCGEGFSYVKVP----NKPTQQKD 1029
Cdd:COG5179    694 GYKTVNE---------DDDEENEEEMLLPPWCLTRNFINATQGRAMLELSGPGDPTGIGEGFSFRKTSmkggFEKSGSPV 764

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1030 DREPQPVKKTVTGtdadlrrlslknakqllrkfgvpeeeikklsrwevidvvrtmsteqarsgegpmskfargsrFSVAE 1109
Cdd:COG5179    765 ENRKSSNKKNTHI--------------------------------------------------------------YNVAQ 782

                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1110 HQERYKEECQRIFDLQNKVLESTEvlstdtdsssaedsdFEEMGKNIENMLQNKKtssqlsrereeqerkelqrmlmged 1189
Cdd:COG5179    783 QQSAYKEEIDRIWSKQLASLSIVN---------------FEEPFDESFINRRHRE------------------------- 822

                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1190 nerergrkerrkgssalstsSHKDDDASSVTSLNSSATgrrLKIYRTFCDEDGKEYVRCETVRKPAVIDAYLRIRtTKDD 1269
Cdd:COG5179    823 --------------------EVKNADLLRETTMLSEKT---LLIVRRTRDENGTSYREVERISDPRVIKAYLKAR-KQDK 878

                          810       820       830       840       850       860       870       880
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1270 EFIRKFALFDEQHREEMRKERRRIQEQLRRLKRNQEKDRFKGPPEKKTKKAKE-RPDLKLKCGACGAIGHMRTNKFCPLY 1348
Cdd:COG5179    879 EDVNKLDTSKINNKEISEKQKKLLQLELANLEKSQQRRAARQNSKNGSDLAGKgRKNTTRTCGNCGQVGHMKTNKACPKF 958


                   ....*...
gi 1207175443 1349 YQTNAPPS 1356
Cdd:COG5179    959 SSKDNPAS 966
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1575-1686 1.21e-58

Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to acetylated histone H4. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99943 [Multi-domain]  Cd Length: 112  Bit Score: 197.49  E-value: 1.21e-58
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1575 FSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPD 1654
Cdd:cd05511      1 LSFILDEIVNELKNL-PDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPD 79

                           90       100       110
                   ....*....|....*....|....*....|..
gi 1207175443 1655 SPYTKTALEIVNVCKQTLAEYDEHLTQLEKDI 1686
Cdd:cd05511     80 SVYTKKAKEMLELAEELLAEREEKLTQLEKNI 111
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1453-1564 2.61e-56

Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to acetylated histone H4. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99943 [Multi-domain]  Cd Length: 112  Bit Score: 190.94  E-value: 2.61e-56
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1453 LSSVLESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1532
Cdd:cd05511      1 LSFILDEIVNELKNLPDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDS 80

                           90       100       110
                   ....*....|....*....|....*....|..
gi 1207175443 1533 PLTVVAQAMLSLCVEKIKEKEERLVRLEKAIN 1564
Cdd:cd05511     81 VYTKKAKEMLELAEELLAEREEKLTQLEKNIN 112
BROMO smart00297
bromo domain;
1568-1675 1.57e-28

bromo domain;


Pssm-ID: 197636 [Multi-domain]  Cd Length: 107  Bit Score: 111.22  E-value: 1.57e-28
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  1568 DDDDQVAFSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNS 1647
Cdd:smart00297    1 DPKLQKKLQELLKAVLDKLDSH-PLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSNA 79

                            90       100
                    ....*....|....*....|....*...
gi 1207175443  1648 VKYNGPDSPYTKTALEIVNVCKQTLAEY 1675
Cdd:smart00297   80 RTYNGPDSEVYKDAKKLEKFFEKKLREL 107
BROMO smart00297
bromo domain;
1446-1551 3.51e-24

bromo domain;


Pssm-ID: 197636 [Multi-domain]  Cd Length: 107  Bit Score: 98.89  E-value: 3.51e-24
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  1446 RTDPMVTLSSVLESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSA 1525
Cdd:smart00297    1 DPKLQKKLQELLKAVLDKLDSHPLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSNAR 80

                            90       100
                    ....*....|....*....|....*.
gi 1207175443  1526 TYNGAKHPLTVVAQAMLSLCVEKIKE 1551
Cdd:smart00297   81 TYNGPDSEVYKDAKKLEKFFEKKLRE 106
COG5076 COG5076
Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin ...
 1472-1679 6.33e-22

Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227408 [Multi-domain]  Cd Length: 371  Bit Score: 99.88  E-value: 6.33e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1472 PFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTVVAQAMLSLCVEKIKE 1551
Cdd:COG5076    168 IFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFLKLIEE 247

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1552 KEERLVRLEKAINPLLDDDDQVAfsfILDNivtqkMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQ 1631
Cdd:COG5076    248 IPEEMLELSIKPGREEREERESV---LITN-----SQAHVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTKELKLRNNYYR 319

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*...
gi 1207175443 1632 NREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVCKQTLAEYDEHL 1679
Cdd:COG5076    320 PEETFVRDAKLFFDNCVMYNGEVTDYYKNANVLEDFVIKKTRLIREYP 367
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 1583-1663 6.74e-20

Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 425683 [Multi-domain]  Cd Length: 84  Bit Score: 85.83  E-value: 6.74e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1583 VTQKMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTAL 1662
Cdd:pfam00439    4 ILDKLMEHPIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLENGEYKSLAEFLADVKLIFSNARTYNGPGSVIYKAAE 83


                   .
gi 1207175443 1663 E 1663
Cdd:pfam00439   84 K 84
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 1457-1539 4.89e-18

Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 425683 [Multi-domain]  Cd Length: 84  Bit Score: 80.44  E-value: 4.89e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1457 LESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTV 1536
Cdd:pfam00439    1 CLEILDKLMEHPIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLENGEYKSLAEFLADVKLIFSNARTYNGPGSVIYK 80


                   ...
gi 1207175443 1537 VAQ 1539
Cdd:pfam00439   81 AAE 83
TBP-binding pfam09247
TATA box-binding protein binding; Members of this family adopt a structure consisting of three ...
 13-64 1.76e-15

TATA box-binding protein binding; Members of this family adopt a structure consisting of three alpha helices and a beta-hairpin. They bind to TATA box-binding protein (TBP), inhibiting TBP interaction with the TATA element, thereby resulting in shutting down of gene transcription.


Pssm-ID: 462723  Cd Length: 59  Bit Score: 72.29  E-value: 1.76e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 1207175443   13 PFHLTGFLFGNINENGQLEDDSVLDTESKKHLAGLGTLGLGSLITEITASEE 64
Cdd:pfam09247    8 GLDLTGFLFGNIDEHGQLEDDDILDEESKRHLSSLSKLGLGSFLSEIIDDEE 59
zf-CCHC_6 pfam15288
Zinc knuckle; This Zinc knuckle is found in FAM90A mammalian proteins.
 1327-1362 3.90e-13

Zinc knuckle; This Zinc knuckle is found in FAM90A mammalian proteins.


Pssm-ID: 464616 [Multi-domain]  Cd Length: 42  Bit Score: 65.10  E-value: 3.90e-13
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1207175443 1327 KLKCGACGAIGHMRTNKFCPLYYQTNAPPSNPVAMT 1362
Cdd:pfam15288    1 RVKCKNCGAFGHTARSKRCPIKCWNGALVPQPLGSK 36
 
Name Accession Description Interval E-value
DUF3591 pfam12157
Protein of unknown function (DUF3591); This domain is found in eukaryotes and is typically ...
 617-1080 0e+00

Protein of unknown function (DUF3591); This domain is found in eukaryotes and is typically between 445 to 462 amino acids in length. Most members are annotated as being transcription initiation factor TFIID subunit 1, and this region is the conserved central portion of these proteins.


Pssm-ID: 463476 [Multi-domain]  Cd Length: 456  Bit Score: 688.90  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  617 WNLSNDEFYYPK----QQGLRGSFGGNIIQHSIPTVELRQPFFPTHMGPMKLRQFHRPSLKKYSFGalsqpGPHAVQPLL 692
Cdd:pfam12157    1 FNISNDEAYEILkenhQSKVRSTLGNLAIEHSLPALKLQLPFYKTKLSKRELRSFHRPRLQFPPNG-----GPEIVFSKL 75

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  693 KHIKKKakmreqerQASGGGDMFFMRTAQDLTGKD-GDLVLAEYSEEYPPLHMQVGMASKIKNYYKRKPGKDPGAPDCKY 771
Cdd:pfam12157   76 KHRKKK--------KDKGKDISELFKTTKDLSLRDtSNLVLLEYSEEYPPLLSNFGMGSKLINYYRKKDAKDTSRPKLEI 147

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  772 GETVYC---HTSPF--LGSLHPGQLLQAFENNLFRAPIYLHKMPETDFLIIRTRQG----YFIRELVDIFVVGQECPLYE 842
Cdd:pfam12157  148 GETHVLdpqDKSPFwnFGSVEPGETVPTLYNNMFRAPIFKHKPKSTDFLLIRSTTGgeskYYLRNIDNLFVVGQTFPVVE 227

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  843 VPGPNSKRANTHIRDFLQVFIYRLFWKSKDRprRIRMEDIKKAFPSHSESSIRKRLKLCADFKRTGMDSNWWVLKPDFRL 922
Cdd:pfam12157  228 VPGPHSRKVTNFSKNRLKMIAYRLFRKSKDG--RIKIEDITKHFPDQNEMQNRQRLKEFMDYQRTGDDQGFWKLKPGDRL 305

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  923 PTEEEIRAMVSPEQCCAYYSMLVAEQRLKDAGYGEKSffAPEEENEEEFQMKIDDEVRTAPWNTTRAFIAAMKGKCLLEV 1002
Cdd:pfam12157  306 PDEEEIRKMVTPEDVCLYESMQVGQQRLKDAGYGEKD--APEEEDEDDDESKIELEQQLAPWNTTKNFINATQGKAMLQL 383

                          410       420       430       440       450       460       470
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1207175443 1003 TGVADPTGCGEGFSYVKVPNKPTQQKDDrepqPVKKTVTGTDADlRRLSLKNAKQLLRKFGVPEEEIKKLSRWEVIDV 1080
Cdd:pfam12157  384 HGEGDPTGRGEGFSFLRTSMKGGFLKAG----ETKKDVTGTDAD-RKLSGGHSYNVARQQGVYEEEIKRIWRWQKISL 456
TAF1 COG5179
Transcription initiation factor TFIID, subunit TAF1 [Transcription];
493-1356 1.56e-97

Transcription initiation factor TFIID, subunit TAF1 [Transcription];


Pssm-ID: 227506 [Multi-domain]  Cd Length: 968  Bit Score: 339.34  E-value: 1.56e-97
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  493 SITGSKRDKHNHDHQVSHEDdtpwfsifpidnEELVYGRWEDNIIWDDQNMDCIPSPPVLTLNPndeniILEIPDEKEER 572
Cdd:COG5179    249 RAGGRMKRDTVTTEFVDSID------------LLIATDDWERYVIVDEADDMKTPRKSFYKLKS-----LTDVDWLYDED 311

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  573 TSHSPSKENKKETALKKSRILL--GKTGVIKDEPQQNMSQP--EIKDPWNLSNDEFY----YPKQQGLRGSFGGNIIQHS 644
Cdd:COG5179    312 IIDAKLKESKAPLNLNDEKLLLkrQAKPKKKQQEVFSDDKPlnELKGKFNISNDKYYgilkKTHQSKVRNTLSTLGIQHS 391

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  645 IPTVELRQPFFPTHMGPMKLRQFHRPslkKYSFgalsQPGPHAVQPLLKHIKKKAKMREQERQAsgggdmffMRTAQDLT 724
Cdd:COG5179    392 LPALRLDPPFYKNNHTKEELRNFHRP---RFMV----RPGSNIVFSTLEARKRNKDKGKDVQEI--------IKTAGELT 456

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  725 GKDGD-LVLAEYSEEYPPLHMQVGMASKIKNYYKRKPGKDPGAPDCKYGETVYCHT---SPF--LGSLHPGQLLQAFENN 798
Cdd:COG5179    457 VGDTSpFSLFEYSEEEPFFLSNPGMASLLNNYYRKSNEQDEYRPKLDVGEYHVLDVqdpSPFwnFGDVEPGTIIPTLYNN 536

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  799 LFRAPIYLHKMPETDFLIIRTRQG-----YFIRELVDIFVVGQECPLYEVPGPNSKRANTHIRDFLQVFIYRLFWKSKDR 873
Cdd:COG5179    537 MIRAPVFKHSSGGTDFLLIVESSNsgemsLYLRNINHLFCVGQTFPVEEVPGPHSRKVTVFCKNRLKMAAFRLFNSKEGG 616

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  874 PRRIRmeDIKKAFPSHSESSIRKRLKLCADFKRTGMDsNWWVLKPDFRLPTEEEIRAMVSPEQCCAYYSMLVAEQRLKDA 953
Cdd:COG5179    617 SLRIS--QLDKHFPDQSEGQKRQWLKEFMDYVKDGPD-GVWVLKPSEALLDEEDLRSLVTPENICQYESMLAGERKLEDS 693

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  954 GYGEKSFfapeeeneeEFQMKIDDEVRTAPWNTTRAFIAAMKGKCLLEVTGVADPTGCGEGFSYVKVP----NKPTQQKD 1029
Cdd:COG5179    694 GYKTVNE---------DDDEENEEEMLLPPWCLTRNFINATQGRAMLELSGPGDPTGIGEGFSFRKTSmkggFEKSGSPV 764

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1030 DREPQPVKKTVTGtdadlrrlslknakqllrkfgvpeeeikklsrwevidvvrtmsteqarsgegpmskfargsrFSVAE 1109
Cdd:COG5179    765 ENRKSSNKKNTHI--------------------------------------------------------------YNVAQ 782

                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1110 HQERYKEECQRIFDLQNKVLESTEvlstdtdsssaedsdFEEMGKNIENMLQNKKtssqlsrereeqerkelqrmlmged 1189
Cdd:COG5179    783 QQSAYKEEIDRIWSKQLASLSIVN---------------FEEPFDESFINRRHRE------------------------- 822

                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1190 nerergrkerrkgssalstsSHKDDDASSVTSLNSSATgrrLKIYRTFCDEDGKEYVRCETVRKPAVIDAYLRIRtTKDD 1269
Cdd:COG5179    823 --------------------EVKNADLLRETTMLSEKT---LLIVRRTRDENGTSYREVERISDPRVIKAYLKAR-KQDK 878

                          810       820       830       840       850       860       870       880
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1270 EFIRKFALFDEQHREEMRKERRRIQEQLRRLKRNQEKDRFKGPPEKKTKKAKE-RPDLKLKCGACGAIGHMRTNKFCPLY 1348
Cdd:COG5179    879 EDVNKLDTSKINNKEISEKQKKLLQLELANLEKSQQRRAARQNSKNGSDLAGKgRKNTTRTCGNCGQVGHMKTNKACPKF 958


                   ....*...
gi 1207175443 1349 YQTNAPPS 1356
Cdd:COG5179    959 SSKDNPAS 966
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1575-1686 1.21e-58

Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to acetylated histone H4. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99943 [Multi-domain]  Cd Length: 112  Bit Score: 197.49  E-value: 1.21e-58
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1575 FSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPD 1654
Cdd:cd05511      1 LSFILDEIVNELKNL-PDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPD 79

                           90       100       110
                   ....*....|....*....|....*....|..
gi 1207175443 1655 SPYTKTALEIVNVCKQTLAEYDEHLTQLEKDI 1686
Cdd:cd05511     80 SVYTKKAKEMLELAEELLAEREEKLTQLEKNI 111
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1453-1564 2.61e-56

Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to acetylated histone H4. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99943 [Multi-domain]  Cd Length: 112  Bit Score: 190.94  E-value: 2.61e-56
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1453 LSSVLESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1532
Cdd:cd05511      1 LSFILDEIVNELKNLPDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDS 80

                           90       100       110
                   ....*....|....*....|....*....|..
gi 1207175443 1533 PLTVVAQAMLSLCVEKIKEKEERLVRLEKAIN 1564
Cdd:cd05511     81 VYTKKAKEMLELAEELLAEREEKLTQLEKNIN 112
BROMO smart00297
bromo domain;
1568-1675 1.57e-28

bromo domain;


Pssm-ID: 197636 [Multi-domain]  Cd Length: 107  Bit Score: 111.22  E-value: 1.57e-28
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  1568 DDDDQVAFSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNS 1647
Cdd:smart00297    1 DPKLQKKLQELLKAVLDKLDSH-PLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSNA 79

                            90       100
                    ....*....|....*....|....*...
gi 1207175443  1648 VKYNGPDSPYTKTALEIVNVCKQTLAEY 1675
Cdd:smart00297   80 RTYNGPDSEVYKDAKKLEKFFEKKLREL 107
Bromodomain cd04369
Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear ...
 1571-1672 2.35e-25

Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.


Pssm-ID: 99922 [Multi-domain]  Cd Length: 99  Bit Score: 102.07  E-value: 2.35e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1571 DQVAFSFILDNIVTQKMmavPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKY 1650
Cdd:cd04369      1 LKKKLRSLLDALKKLKR---DLSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEADVRLIFSNAKTY 77

                           90       100
                   ....*....|....*....|..
gi 1207175443 1651 NGPDSPYTKTALEIVNVCKQTL 1672
Cdd:cd04369     78 NGPGSPIYKDAKKLEKLFEKLL 99
BROMO smart00297
bromo domain;
1446-1551 3.51e-24

bromo domain;


Pssm-ID: 197636 [Multi-domain]  Cd Length: 107  Bit Score: 98.89  E-value: 3.51e-24
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443  1446 RTDPMVTLSSVLESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSA 1525
Cdd:smart00297    1 DPKLQKKLQELLKAVLDKLDSHPLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSNAR 80

                            90       100
                    ....*....|....*....|....*.
gi 1207175443  1526 TYNGAKHPLTVVAQAMLSLCVEKIKE 1551
Cdd:smart00297   81 TYNGPDSEVYKDAKKLEKFFEKKLRE 106
Bromo_gcn5_like cd05509
Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates ...
 1591-1675 1.09e-22

Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates acetylation of histones at lysine residues; such acetylation is generally correlated with the activation of transcription. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99941 [Multi-domain]  Cd Length: 101  Bit Score: 94.54  E-value: 1.09e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1591 PDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVCKQ 1670
Cdd:cd05509     17 KSAWPFLEPVDKEEAPDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDTEYYKCANKLEKFFWK 96


                   ....*
gi 1207175443 1671 TLAEY 1675
Cdd:cd05509     97 KLKEL 101
Bromodomain cd04369
Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear ...
 1453-1549 1.38e-22

Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.


Pssm-ID: 99922 [Multi-domain]  Cd Length: 99  Bit Score: 93.98  E-value: 1.38e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1453 LSSVLESIINDMRDLpnTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1532
Cdd:cd04369      5 LRSLLDALKKLKRDL--SEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEADVRLIFSNAKTYNGPGS 82

                           90
                   ....*....|....*..
gi 1207175443 1533 PLTVVAQAMLSLCVEKI 1549
Cdd:cd04369     83 PIYKDAKKLEKLFEKLL 99
COG5076 COG5076
Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin ...
 1472-1679 6.33e-22

Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227408 [Multi-domain]  Cd Length: 371  Bit Score: 99.88  E-value: 6.33e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1472 PFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTVVAQAMLSLCVEKIKE 1551
Cdd:COG5076    168 IFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFLKLIEE 247

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1552 KEERLVRLEKAINPLLDDDDQVAfsfILDNivtqkMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQ 1631
Cdd:COG5076    248 IPEEMLELSIKPGREEREERESV---LITN-----SQAHVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTKELKLRNNYYR 319

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*...
gi 1207175443 1632 NREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVCKQTLAEYDEHL 1679
Cdd:COG5076    320 PEETFVRDAKLFFDNCVMYNGEVTDYYKNANVLEDFVIKKTRLIREYP 367
Bromo_gcn5_like cd05509
Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates ...
 1453-1551 1.11e-20

Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates acetylation of histones at lysine residues; such acetylation is generally correlated with the activation of transcription. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99941 [Multi-domain]  Cd Length: 101  Bit Score: 88.77  E-value: 1.11e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1453 LSSVLESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1532
Cdd:cd05509      2 LYTQLKKVLDSLKNHKSAWPFLEPVDKEEAPDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDT 81

                           90
                   ....*....|....*....
gi 1207175443 1533 PLTVVAQAMLSLCVEKIKE 1551
Cdd:cd05509     82 EYYKCANKLEKFFWKKLKE 100
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 1583-1663 6.74e-20

Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 425683 [Multi-domain]  Cd Length: 84  Bit Score: 85.83  E-value: 6.74e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1583 VTQKMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTAL 1662
Cdd:pfam00439    4 ILDKLMEHPIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLENGEYKSLAEFLADVKLIFSNARTYNGPGSVIYKAAE 83


                   .
gi 1207175443 1663 E 1663
Cdd:pfam00439   84 K 84
Bromo_RACK7 cd05508
Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) ...
 1584-1670 3.14e-19

Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) was identified as a potential tumor suppressor genes, it shares domain architecture with BS69/ZMYND11; both have been implicated in the regulation of cellular proliferation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99940  Cd Length: 99  Bit Score: 84.36  E-value: 3.14e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1584 TQKMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALE 1663
Cdd:cd05508     11 ALERMKQPGAEPFLKPVDLEQFPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNAIIYNGGDHKLTQAAKA 90


                   ....*..
gi 1207175443 1664 IVNVCKQ 1670
Cdd:cd05508     91 IVKICEQ 97
Bromo_BAZ2A_B_like cd05503
Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B ...
 1575-1656 1.73e-18

Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B (BAZ2B) were identified as a novel human bromodomain gene by cDNA library screening. BAZ2A is also known as Tip5 (Transcription termination factor I-interacting protein 5) and hWALp3. The proteins may play roles in transcriptional regulation. Human Tip5 is part of a complex termed NoRC (nucleolar remodeling complex), which induces nucleosome sliding and may play a role in the regulation of the rDNA locus. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99935  Cd Length: 97  Bit Score: 82.42  E-value: 1.73e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1575 FSFILDNIVTQkmmavPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPD 1654
Cdd:cd05503      5 CETILDEMEAH-----EDAWPFLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFNEDD 79


                   ..
gi 1207175443 1655 SP 1656
Cdd:cd05503     80 SE 81
Bromo_SPT7_like cd05510
Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the ...
 1457-1559 1.91e-18

Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the transcription regulatory histone acetylation (HAT) complexes SAGA, SALSA, and SLIK. SAGA is involved in the RNA polymerase II-dependent transcriptional regulation of about 10% of all yeast genes. The SPT7 bromodomain has been shown to weakly interact with acetylated histone H3, but not H4. The human representative of this subfamily is cat eye syndrome critical region protein 2 (CECR2). Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99942 [Multi-domain]  Cd Length: 112  Bit Score: 82.87  E-value: 1.91e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1457 LESIINDMRDL-PNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGA-KHPL 1534
Cdd:cd05510     12 LDKVLNELKTYtEHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWKNCLLYNSDpSHPL 91

                           90       100
                   ....*....|....*....|....*
gi 1207175443 1535 TVVAQAMlslcvekiKEKEERLVRL 1559
Cdd:cd05510     92 RRHANFM--------KKKAEHLLKL 108
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 1457-1539 4.89e-18

Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 425683 [Multi-domain]  Cd Length: 84  Bit Score: 80.44  E-value: 4.89e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1457 LESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTV 1536
Cdd:pfam00439    1 CLEILDKLMEHPIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLENGEYKSLAEFLADVKLIFSNARTYNGPGSVIYK 80


                   ...
gi 1207175443 1537 VAQ 1539
Cdd:pfam00439   81 AAE 83
Bromo_BAZ2A_B_like cd05503
Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B ...
 1458-1528 1.95e-17

Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B (BAZ2B) were identified as a novel human bromodomain gene by cDNA library screening. BAZ2A is also known as Tip5 (Transcription termination factor I-interacting protein 5) and hWALp3. The proteins may play roles in transcriptional regulation. Human Tip5 is part of a complex termed NoRC (nucleolar remodeling complex), which induces nucleosome sliding and may play a role in the regulation of the rDNA locus. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99935  Cd Length: 97  Bit Score: 79.34  E-value: 1.95e-17
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1207175443 1458 ESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1528
Cdd:cd05503      6 ETILDEMEAHEDAWPFLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFN 76
Bromo_SPT7_like cd05510
Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the ...
 1579-1661 5.30e-17

Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the transcription regulatory histone acetylation (HAT) complexes SAGA, SALSA, and SLIK. SAGA is involved in the RNA polymerase II-dependent transcriptional regulation of about 10% of all yeast genes. The SPT7 bromodomain has been shown to weakly interact with acetylated histone H3, but not H4. The human representative of this subfamily is cat eye syndrome critical region protein 2 (CECR2). Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99942 [Multi-domain]  Cd Length: 112  Bit Score: 78.64  E-value: 5.30e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1579 LDNIVTQKMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNG-PDSPY 1657
Cdd:cd05510     12 LDKVLNELKTYTEHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWKNCLLYNSdPSHPL 91


                   ....
gi 1207175443 1658 TKTA 1661
Cdd:cd05510     92 RRHA 95
COG5076 COG5076
Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin ...
 1483-1702 1.52e-16

Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227408 [Multi-domain]  Cd Length: 371  Bit Score: 83.70  E-value: 1.52e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1483 KDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPltvvaQAMLSLCVEKIKEKEERLVRLEKA 1562
Cdd:COG5076     46 KNLFQKQLKRMPKEYITSIVDDREPGSMANVNDDLENVGGITYSPFEKNRP-----ESLRFDEIVFLAIESVTPESGLGS 120

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1563 INPLLDDDDQV--------AFSFILDNIVTQKMM-------AVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISK 1627
Cdd:COG5076    121 LLMAHLKTSVKkrktpkieDELLYADNKAIAKFKkqlflrdGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKN 200

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1207175443 1628 HKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVCKQTLAEYDEHLTQLEKDILTAKEAALDAADLESL 1702
Cdd:COG5076    201 GRYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFLKLIEEIPEEMLELSIKPGREEREERESVLITNS 275
Bromo_Acf1_like cd05504
Bromodomain; Acf1_like or BAZ1A_like subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was ...
 1591-1651 1.20e-15

Bromodomain; Acf1_like or BAZ1A_like subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was identified as a novel human bromodomain gene by cDNA library screening. The Drosophila homologue, Acf1, is part of the CHRAC (chromatin accessibility complex) and regulates ISWI-induced nucleosome remodeling. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99936  Cd Length: 115  Bit Score: 74.74  E-value: 1.20e-15
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1207175443 1591 PDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYN 1651
Cdd:cd05504     28 KDSWPFLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLVFSNCFLYN 88
Bromo_WSTF_like cd05505
Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The ...
 1583-1655 1.30e-15

Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The Williams-Beuren syndrome deletion transcript 9 is a putative transcriptional regulator. WSTF was found to play a role in vitamin D-mediated transcription as part of two chromatin remodeling complexes, WINAC and WICH. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99937  Cd Length: 97  Bit Score: 74.11  E-value: 1.30e-15
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1207175443 1583 VTQKMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDS 1655
Cdd:cd05505      8 ILSKILKYRFSWPFREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYYENGS 80
TBP-binding pfam09247
TATA box-binding protein binding; Members of this family adopt a structure consisting of three ...
 13-64 1.76e-15

TATA box-binding protein binding; Members of this family adopt a structure consisting of three alpha helices and a beta-hairpin. They bind to TATA box-binding protein (TBP), inhibiting TBP interaction with the TATA element, thereby resulting in shutting down of gene transcription.


Pssm-ID: 462723  Cd Length: 59  Bit Score: 72.29  E-value: 1.76e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 1207175443   13 PFHLTGFLFGNINENGQLEDDSVLDTESKKHLAGLGTLGLGSLITEITASEE 64
Cdd:pfam09247    8 GLDLTGFLFGNIDEHGQLEDDDILDEESKRHLSSLSKLGLGSFLSEIIDDEE 59
Bromo_RACK7 cd05508
Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) ...
 1453-1545 2.72e-15

Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) was identified as a potential tumor suppressor genes, it shares domain architecture with BS69/ZMYND11; both have been implicated in the regulation of cellular proliferation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99940  Cd Length: 99  Bit Score: 73.19  E-value: 2.72e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1453 LSSVLESIINDMRdLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1532
Cdd:cd05508      4 LSKLLKFALERMK-QPGAEPFLKPVDLEQFPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNAIIYNGGDH 82

                           90
                   ....*....|...
gi 1207175443 1533 PLTVVAQAMLSLC 1545
Cdd:cd05508     83 KLTQAAKAIVKIC 95
Bromo_Acf1_like cd05504
Bromodomain; Acf1_like or BAZ1A_like subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was ...
 1442-1528 3.85e-15

Bromodomain; Acf1_like or BAZ1A_like subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was identified as a novel human bromodomain gene by cDNA library screening. The Drosophila homologue, Acf1, is part of the CHRAC (chromatin accessibility complex) and regulates ISWI-induced nucleosome remodeling. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99936  Cd Length: 115  Bit Score: 73.20  E-value: 3.85e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1442 IHRRRT-DPMVTLSSVLESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELI 1520
Cdd:cd05504      1 RRRSEGrHHGPLNLSALEQLLVEIVKHKDSWPFLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLV 80


                   ....*...
gi 1207175443 1521 FKNSATYN 1528
Cdd:cd05504     81 FSNCFLYN 88
Bromo_plant1 cd05506
Bromodomain, uncharacterized subfamily specific to plants. Might function as a global ...
 1458-1544 7.77e-15

Bromodomain, uncharacterized subfamily specific to plants. Might function as a global transcription factor. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99938  Cd Length: 99  Bit Score: 71.98  E-value: 7.77e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1458 ESIINDMRDLPNTYPFHTPVNgkVVK----DYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHP 1533
Cdd:cd05506      6 GTLLRKLMKHKWGWVFNAPVD--VVAlglpDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPPGND 83

                           90
                   ....*....|.
gi 1207175443 1534 LTVVAQAMLSL 1544
Cdd:cd05506     84 VHTMAKELLKI 94
Bromo_AAA cd05528
Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long ...
 1595-1661 1.06e-14

Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this alignment is an uncharacterized protein predicted from analysis of cDNA clones from human fetal liver


Pssm-ID: 99957  Cd Length: 112  Bit Score: 72.00  E-value: 1.06e-14
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1207175443 1595 PFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTA 1661
Cdd:cd05528     23 AFTKPVDEEEVPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYNPDRDPADKLI 89
Bromo_BDF1_2_I cd05500
Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast ...
 1577-1664 1.46e-14

Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99932  Cd Length: 103  Bit Score: 71.19  E-value: 1.46e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1577 FILDNIVTQKMMavPDSWPFHHPVN--KKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPD 1654
Cdd:cd05500      8 FLLSSIRSLKRL--KDARPFLVPVDpvKLNIPHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTFNGPE 85

                           90
                   ....*....|
gi 1207175443 1655 SPYTKTALEI 1664
Cdd:cd05500     86 HPVSQMGKRL 95
Bromo_plant1 cd05506
Bromodomain, uncharacterized subfamily specific to plants. Might function as a global ...
 1586-1653 1.58e-14

Bromodomain, uncharacterized subfamily specific to plants. Might function as a global transcription factor. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99938  Cd Length: 99  Bit Score: 71.21  E-value: 1.58e-14
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1586 KMMAVPDSWPFHHPVNKKF--VPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGP 1653
Cdd:cd05506     11 KLMKHKWGWVFNAPVDVVAlgLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPP 80
Bromo_brd7_like cd05513
Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown ...
 1578-1667 2.58e-14

Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene involved in nasopharyngeal carcinoma. The protein interacts with acetylated histone H3 via its bromodomain. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99945  Cd Length: 98  Bit Score: 70.52  E-value: 2.58e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1578 ILDNIVTQKMMAVPDSWpFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPY 1657
Cdd:cd05513      5 ALEQLIRQLQRKDPHGF-FAFPVTDFIAPGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYNKPDTIY 83

                           90
                   ....*....|
gi 1207175443 1658 TKTALEIVNV 1667
Cdd:cd05513     84 YKAAKKLLHS 93
Bromo_Brdt_II_like cd05498
Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET ...
 1459-1541 6.90e-14

Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99930  Cd Length: 102  Bit Score: 69.23  E-value: 6.90e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1459 SIINDMRDLPNT---YPFHTPVNGKVVK--DYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHP 1533
Cdd:cd05498      7 GILKELFSKKHKayaWPFYKPVDPEALGlhDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYNPPDHP 86


                   ....*...
gi 1207175443 1534 LTVVAQAM 1541
Cdd:cd05498     87 VHAMARKL 94
Bromo_tif1_like cd05502
Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of ...
 1592-1655 1.17e-13

Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of the tripartite motif (TRIM) protein family, which is characterized by a particular domain architecture. It functions by recruiting coactivators and/or corepressors to modulate transcription. Vertebrate Tif1-gamma, also labeled E3 ubiquitin-protein ligase TRIM33, plays a role in the control of hematopoiesis. Its homologue in Xenopus laevis, Ectodermin, has been shown to function in germ-layer specification and control of cell growth during embryogenesis. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99934 [Multi-domain]  Cd Length: 109  Bit Score: 68.86  E-value: 1.17e-13
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1207175443 1592 DSWPFHHPVnKKFVPDYYKVIINPMDLDTLRKNI---SKHKYQNREVFLSDVGLIHTNSVKYNGPDS 1655
Cdd:cd05502     21 LSLPFHEPV-SPSVPNYYKIIKTPMDLSLIRKKLqpkSPQHYSSPEEFVADVRLMFKNCYKFNEEDS 86
Bromo_Brdt_II_like cd05498
Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET ...
 1594-1667 1.30e-13

Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99930  Cd Length: 102  Bit Score: 68.46  E-value: 1.30e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1207175443 1594 WPFHHPVN--KKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNV 1667
Cdd:cd05498     22 WPFYKPVDpeALGLHDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYNPPDHPVHAMARKLQDV 97
Bromo_brd1_like cd05512
Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein ...
 1596-1662 2.77e-13

Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein assumed to be a transcriptional regulator. BRD1 has been implicated with brain development and susceptibility to schizophrenia and bipolar affective disorder. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99944  Cd Length: 98  Bit Score: 67.42  E-value: 2.77e-13
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1207175443 1596 FHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTAL 1662
Cdd:cd05512     22 FSEPVDLSEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNAKDTIFYRAAV 88
zf-CCHC_6 pfam15288
Zinc knuckle; This Zinc knuckle is found in FAM90A mammalian proteins.
 1327-1362 3.90e-13

Zinc knuckle; This Zinc knuckle is found in FAM90A mammalian proteins.


Pssm-ID: 464616 [Multi-domain]  Cd Length: 42  Bit Score: 65.10  E-value: 3.90e-13
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1207175443 1327 KLKCGACGAIGHMRTNKFCPLYYQTNAPPSNPVAMT 1362
Cdd:pfam15288    1 RVKCKNCGAFGHTARSKRCPIKCWNGALVPQPLGSK 36
Bromo_Brdt_I_like cd05497
Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET ...
 1593-1674 3.13e-12

Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99929  Cd Length: 107  Bit Score: 64.75  E-value: 3.13e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1593 SWPFHHPVN--KKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVCKQ 1670
Cdd:cd05497     23 AWPFQQPVDavKLNLPDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLEKLFLQ 102


                   ....
gi 1207175443 1671 TLAE 1674
Cdd:cd05497    103 KLAQ 106
Bromo_BDF1_2_II cd05499
Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast ...
 1578-1675 3.78e-12

Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99931  Cd Length: 102  Bit Score: 64.23  E-value: 3.78e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1578 ILDNIVTQKMMAVpdSWPFHHPVNKKF--VPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDS 1655
Cdd:cd05499      8 VLKELMKPKHSAY--NWPFLDPVDPVAlnIPNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFNPEGT 85

                           90       100
                   ....*....|....*....|
gi 1207175443 1656 PytktaleiVNVCKQTLAEY 1675
Cdd:cd05499     86 D--------VYMMGHQLEEV 97
Bromo_BDF1_2_I cd05500
Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast ...
 1459-1539 3.85e-12

Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99932  Cd Length: 103  Bit Score: 64.26  E-value: 3.85e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1459 SIINDMRDLPNTYPFHTPVNgkVVK----DYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPL 1534
Cdd:cd05500     11 SSIRSLKRLKDARPFLVPVD--PVKlnipHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTFNGPEHPV 88


                   ....*
gi 1207175443 1535 TVVAQ 1539
Cdd:cd05500     89 SQMGK 93
Bromo_Brdt_I_like cd05497
Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET ...
 1453-1551 5.77e-12

Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99929  Cd Length: 107  Bit Score: 63.98  E-value: 5.77e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1453 LSSVLESIINDMRDLPNTYPFHTPVNgkVVK----DYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1528
Cdd:cd05497      6 LQYLLKVVLKALWKHKFAWPFQQPVD--AVKlnlpDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIYN 83

                           90       100
                   ....*....|....*....|...
gi 1207175443 1529 GAKHPLTVVAQAMLSLCVEKIKE 1551
Cdd:cd05497     84 KPGDDVVLMAQTLEKLFLQKLAQ 106
Bromo_BDF1_2_II cd05499
Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast ...
 1458-1539 7.33e-12

Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99931  Cd Length: 102  Bit Score: 63.46  E-value: 7.33e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1458 ESIINDMRDLPNT---YPFHTPVNGKV--VKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1532
Cdd:cd05499      6 EEVLKELMKPKHSaynWPFLDPVDPVAlnIPNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFNPEGT 85


                   ....*..
gi 1207175443 1533 PLTVVAQ 1539
Cdd:cd05499     86 DVYMMGH 92
Bromo_WDR9_I_like cd05529
Bromodomain; WDR9 repeat I_like subfamily. WDR9 is a human gene located in the Down Syndrome ...
 1568-1672 1.06e-11

Bromodomain; WDR9 repeat I_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99958  Cd Length: 128  Bit Score: 63.90  E-value: 1.06e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1568 DDDDQVAfsfILDNIVTQKMMAVPDSW--PFHHPVNKK-FVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIH 1644
Cdd:cd05529     21 IRDEERE---RLISGLDKLLLSLQLEIaeYFEYPVDLRaWYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLIL 97

                           90       100
                   ....*....|....*....|....*...
gi 1207175443 1645 TNSVKYNGPDSPYTKTALEIVNVCKQTL 1672
Cdd:cd05529     98 SNAETFNEPNSEIAKKAKRLSDWLLRIL 125
Bromo_tif1_like cd05502
Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of ...
 1472-1544 1.89e-11

Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of the tripartite motif (TRIM) protein family, which is characterized by a particular domain architecture. It functions by recruiting coactivators and/or corepressors to modulate transcription. Vertebrate Tif1-gamma, also labeled E3 ubiquitin-protein ligase TRIM33, plays a role in the control of hematopoiesis. Its homologue in Xenopus laevis, Ectodermin, has been shown to function in germ-layer specification and control of cell growth during embryogenesis. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99934 [Multi-domain]  Cd Length: 109  Bit Score: 62.69  E-value: 1.89e-11
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1207175443 1472 PFHTPVnGKVVKDYYKIITRPMDLQTLRENVRKR---MYPSREEFRESVELIFKNSATYNGakhPLTVVAQAMLSL 1544
Cdd:cd05502     24 PFHEPV-SPSVPNYYKIIKTPMDLSLIRKKLQPKspqHYSSPEEFVADVRLMFKNCYKFNE---EDSEVAQAGKEL 95
Bromo_AAA cd05528
Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long ...
 1453-1533 5.47e-11

Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this alignment is an uncharacterized protein predicted from analysis of cDNA clones from human fetal liver


Pssm-ID: 99957  Cd Length: 112  Bit Score: 61.22  E-value: 5.47e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1453 LSSVLESIINDMRDLPntypFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1532
Cdd:cd05528      8 LRDVLKRLASDKRFNA----FTKPVDEEEVPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYNPDRD 83


                   .
gi 1207175443 1533 P 1533
Cdd:cd05528     84 P 84
Bromo_WSTF_like cd05505
Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The ...
 1458-1528 6.96e-11

Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The Williams-Beuren syndrome deletion transcript 9 is a putative transcriptional regulator. WSTF was found to play a role in vitamin D-mediated transcription as part of two chromatin remodeling complexes, WINAC and WICH. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99937  Cd Length: 97  Bit Score: 60.63  E-value: 6.96e-11
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1207175443 1458 ESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1528
Cdd:cd05505      6 EEILSKILKYRFSWPFREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYY 76
Bromo_cbp_like cd05495
Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase ...
 1591-1667 9.06e-11

Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase acting on histone, which gives a specific tag for transcriptional activation and also acetylates non-histone proteins. CREBBP binds specifically to phosphorylated CREB protein and augments the activity of phosphorylated CREB to activate transcription of cAMP-responsive genes. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99927  Cd Length: 108  Bit Score: 60.53  E-value: 9.06e-11
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1207175443 1591 PDSWPFHHPVNKKF--VPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNV 1667
Cdd:cd05495     20 PESLPFRQPVDPKLlgIPDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLYNRKTSRVYKYCTKLAEV 98
Bromo_Rsc1_2_II cd05522
Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 1602-1663 1.14e-10

Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99953 [Multi-domain]  Cd Length: 104  Bit Score: 60.33  E-value: 1.14e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1207175443 1602 KKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALE 1663
Cdd:cd05522     34 KAREPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAKLYNENDSQEYKDAVL 95
Bromo_polybromo_V cd05515
Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which ...
 1601-1674 1.51e-10

Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99946  Cd Length: 105  Bit Score: 60.01  E-value: 1.51e-10
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1207175443 1601 NKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVCKQTLAE 1674
Cdd:cd05515     32 SKSEYPDYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNACKYNEPDSQIYKDALTLQKVLLETKRE 105
Bromo_polybromo_IV cd05518
Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which ...
 1602-1651 1.98e-10

Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99949 [Multi-domain]  Cd Length: 103  Bit Score: 59.38  E-value: 1.98e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1602 KKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYN 1651
Cdd:cd05518     33 KKDYPDYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNARHYN 82
Bromo_WDR9_II cd05496
Bromodomain; WDR9 repeat II_like subfamily. WDR9 is a human gene located in the Down Syndrome ...
 1460-1531 6.05e-10

Bromodomain; WDR9 repeat II_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99928  Cd Length: 119  Bit Score: 58.62  E-value: 6.05e-10
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1207175443 1460 IINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAK 1531
Cdd:cd05496     13 LVNLMWDCEDSEPFRQPVDLLKYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSNSKSYTPNK 84
Bromo_brd8_like cd05507
Bromodomain, brd8_like subgroup. In mammals, brd8 (bromodomain containing 8) interacts with ...
 1595-1668 2.91e-09

Bromodomain, brd8_like subgroup. In mammals, brd8 (bromodomain containing 8) interacts with the thyroid hormone receptor in a ligand-dependent fashion and enhances thyroid hormone-dependent activation from thyroid response elements. Brd8 is thought to be a nuclear receptor coactivator. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99939  Cd Length: 104  Bit Score: 56.22  E-value: 2.91e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1207175443 1595 PFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVC 1668
Cdd:cd05507     23 VFLKPVTEDIAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYNSSDHDVYLMAVEMQREV 96
Bromo_brd1_like cd05512
Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein ...
 1451-1529 3.55e-09

Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein assumed to be a transcriptional regulator. BRD1 has been implicated with brain development and susceptibility to schizophrenia and bipolar affective disorder. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99944  Cd Length: 98  Bit Score: 55.87  E-value: 3.55e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1207175443 1451 VTLSSVLESIinDMRDLPNTypFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNG 1529
Cdd:cd05512      4 VLLRKTLDQL--QEKDTAEI--FSEPVDLSEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNA 78
Bromodomain_1 cd05494
Bromodomain; uncharacterized subfamily. Bromodomains are found in many chromatin-associated ...
 1585-1679 6.39e-09

Bromodomain; uncharacterized subfamily. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.


Pssm-ID: 99926 [Multi-domain]  Cd Length: 114  Bit Score: 55.53  E-value: 6.39e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1585 QKMMAVPDSWPFHHPVNKKF--VPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSdVGLIHTNSVKY----NGPDSPYT 1658
Cdd:cd05494     13 KRHRRNEDAWPFLEPVNPPRrgAPDYRDVIKRPMSFGTKVNNIVETGARDLEDLQI-VQEDPADKQIDdegrRSPSNIYA 91

                           90       100
                   ....*....|....*....|...
gi 1207175443 1659 KTALE--IVNVCKQTLAEYDEHL 1679
Cdd:cd05494     92 VEALEqlIVFQCKQVKGLKQKRH 114
Bromo_WDR9_II cd05496
Bromodomain; WDR9 repeat II_like subfamily. WDR9 is a human gene located in the Down Syndrome ...
 1582-1651 6.98e-09

Bromodomain; WDR9 repeat II_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99928  Cd Length: 119  Bit Score: 55.54  E-value: 6.98e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1582 IVTQKMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYN 1651
Cdd:cd05496     12 ELVNLMWDCEDSEPFRQPVDLLKYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSNSKSYT 81
Bromo_polybromo_III cd05520
Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which ...
 1590-1662 8.84e-09

Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99951  Cd Length: 103  Bit Score: 54.65  E-value: 8.84e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1207175443 1590 VPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTAL 1662
Cdd:cd05520     21 QLLAEPFLKLPSKRKYPDYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYNVPNSRIYKDAE 93
Bromo_brd7_like cd05513
Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown ...
 1473-1540 1.46e-08

Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene involved in nasopharyngeal carcinoma. The protein interacts with acetylated histone H3 via its bromodomain. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99945  Cd Length: 98  Bit Score: 53.95  E-value: 1.46e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1207175443 1473 FHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNgakHPLTVVAQA 1540
Cdd:cd05513     22 FAFPVTDFIAPGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYN---KPDTIYYKA 86
Bromo_cbp_like cd05495
Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase ...
 1465-1528 1.98e-08

Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase acting on histone, which gives a specific tag for transcriptional activation and also acetylates non-histone proteins. CREBBP binds specifically to phosphorylated CREB protein and augments the activity of phosphorylated CREB to activate transcription of cAMP-responsive genes. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99927  Cd Length: 108  Bit Score: 53.99  E-value: 1.98e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1207175443 1465 RDLPNTYPFHTPVNGKV--VKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1528
Cdd:cd05495     17 KQDPESLPFRQPVDPKLlgIPDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLYN 82
Bromo_ASH1 cd05525
Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the ...
 1573-1656 3.57e-08

Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the trithorax-group in Drosophila melanogaster, an epigenetic transcriptional regulator of HOX genes. Drosophila ASH1 has been shown to methylate specific lysines in histones H3 and H4. Mammalian ASH1 has been shown to methylate histone H3. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99955 [Multi-domain]  Cd Length: 106  Bit Score: 53.16  E-value: 3.57e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1573 VAFSFILDNIVTQKM-MAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYN 1651
Cdd:cd05525      5 QVLKEICDAIITYKDsNGQSLAIPFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRNAEKYY 84


                   ....*
gi 1207175443 1652 GPDSP 1656
Cdd:cd05525     85 GRKSP 89
Bromo_polybromo_I cd05524
Bromodomain, polybromo repeat I. Polybromo is a nuclear protein of unknown function, which ...
 1602-1677 5.07e-08

Bromodomain, polybromo repeat I. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99954 [Multi-domain]  Cd Length: 113  Bit Score: 53.11  E-value: 5.07e-08
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1207175443 1602 KKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVCKQTLAEYDE 1677
Cdd:cd05524     35 RRNEPEYYEVVSNPIDLLKIQQKLKTEEYDDVDDLTADFELLINNAKAYYKPDSPEHKDACKLWELFLSARNEVLS 110
Bromo_polybromo_IV cd05518
Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which ...
 1480-1528 2.16e-07

Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99949 [Multi-domain]  Cd Length: 103  Bit Score: 50.91  E-value: 2.16e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1207175443 1480 KVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1528
Cdd:cd05518     34 KDYPDYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNARHYN 82
Bromo_SNF2L2 cd05516
Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI ...
 1453-1528 2.40e-07

Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 2 is a global transcriptional activator, which cooperates with nuclear hormone receptors to boost transcriptional activation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99947  Cd Length: 107  Bit Score: 50.89  E-value: 2.40e-07
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1207175443 1453 LSSVLESIINDMRDLPNtyPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1528
Cdd:cd05516     10 VDVVIKYKDSDGRQLAE--VFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNAQTFN 83
Bromo_SNF2L2 cd05516
Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI ...
 1595-1651 4.43e-07

Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 2 is a global transcriptional activator, which cooperates with nuclear hormone receptors to boost transcriptional activation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99947  Cd Length: 107  Bit Score: 50.12  E-value: 4.43e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1207175443 1595 PFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYN 1651
Cdd:cd05516     27 VFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNAQTFN 83
Bromo_Rsc1_2_I cd05521
Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 1596-1662 5.27e-07

Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99952  Cd Length: 106  Bit Score: 50.01  E-value: 5.27e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1207175443 1596 FHHPVNKKFVPDYYKVIINPMDLDTLRKNISkhKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTAL 1662
Cdd:cd05521     28 FNVLPLRKDYPDYYKIIKNPLSLNTVKKRLP--HYTNAQEFVNDLAQIPWNARLYNTKGSVIYKYAL 92
Bromo_SNF2 cd05519
Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in ...
 1473-1528 1.76e-06

Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in transcriptional activation, it is the catalytic component of the SWI/SNF ATP-dependent chromatin remodeling complex. The protein is essential for the regulation of gene expression (both positive and negative) of a large number of genes. The SWI/SNF complex changes chromatin structure by altering DNA-histone contacts within the nucleosome, which results in a re-positioning of the nucleosome and facilitates or represses the binding of gene-specific transcription factors. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99950  Cd Length: 103  Bit Score: 48.10  E-value: 1.76e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1207175443 1473 FHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1528
Cdd:cd05519     27 FLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANARTYN 82
Bromo_brd8_like cd05507
Bromodomain, brd8_like subgroup. In mammals, brd8 (bromodomain containing 8) interacts with ...
 1468-1549 8.35e-06

Bromodomain, brd8_like subgroup. In mammals, brd8 (bromodomain containing 8) interacts with the thyroid hormone receptor in a ligand-dependent fashion and enhances thyroid hormone-dependent activation from thyroid response elements. Brd8 is thought to be a nuclear receptor coactivator. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99939  Cd Length: 104  Bit Score: 46.20  E-value: 8.35e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1468 PNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTVVAQAMLSLCVE 1547
Cdd:cd05507     19 RYASVFLKPVTEDIAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYNSSDHDVYLMAVEMQREVMS 98


                   ..
gi 1207175443 1548 KI 1549
Cdd:cd05507     99 QI 100
Bromo_WDR9_I_like cd05529
Bromodomain; WDR9 repeat I_like subfamily. WDR9 is a human gene located in the Down Syndrome ...
 1458-1559 9.10e-06

Bromodomain; WDR9 repeat I_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99958  Cd Length: 128  Bit Score: 46.95  E-value: 9.10e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1458 ESIINDMR------DLPNTYPFHTPVNGKV-VKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGA 1530
Cdd:cd05529     27 ERLISGLDklllslQLEIAEYFEYPVDLRAwYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLILSNAETFNEP 106

                           90       100
                   ....*....|....*....|....*....
gi 1207175443 1531 KHPLtvvaqamlslcVEKIKEKEERLVRL 1559
Cdd:cd05529    107 NSEI-----------AKKAKRLSDWLLRI 124
Bromo_SNF2 cd05519
Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in ...
 1596-1651 1.16e-05

Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in transcriptional activation, it is the catalytic component of the SWI/SNF ATP-dependent chromatin remodeling complex. The protein is essential for the regulation of gene expression (both positive and negative) of a large number of genes. The SWI/SNF complex changes chromatin structure by altering DNA-histone contacts within the nucleosome, which results in a re-positioning of the nucleosome and facilitates or represses the binding of gene-specific transcription factors. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99950  Cd Length: 103  Bit Score: 45.79  E-value: 1.16e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1207175443 1596 FHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYN 1651
Cdd:cd05519     27 FLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANARTYN 82
Bromo_polybromo_V cd05515
Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which ...
 1484-1528 1.18e-05

Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99946  Cd Length: 105  Bit Score: 46.14  E-value: 1.18e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 1207175443 1484 DYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1528
Cdd:cd05515     38 DYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNACKYN 82
Bromo_Rsc1_2_II cd05522
Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 1484-1528 1.61e-05

Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99953 [Multi-domain]  Cd Length: 104  Bit Score: 45.69  E-value: 1.61e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 1207175443 1484 DYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1528
Cdd:cd05522     39 EYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAKLYN 83
Bromo_ASH1 cd05525
Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the ...
 1472-1539 2.32e-05

Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the trithorax-group in Drosophila melanogaster, an epigenetic transcriptional regulator of HOX genes. Drosophila ASH1 has been shown to methylate specific lysines in histones H3 and H4. Mammalian ASH1 has been shown to methylate histone H3. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99955 [Multi-domain]  Cd Length: 106  Bit Score: 45.07  E-value: 2.32e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1207175443 1472 PFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTVVAQ 1539
Cdd:cd05525     28 PFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRNAEKYYGRKSPIGRDVC 95
Bromo_SP100C_like cd05501
Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major ...
 1482-1531 8.84e-05

Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin level. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99933  Cd Length: 102  Bit Score: 43.57  E-value: 8.84e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1482 VKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAK 1531
Cdd:cd05501     30 IRDYCQGIKEPMWLNKVKERLNERVYHTVEGFVRDMRLIFHNHKLFYKDD 79
Bromo_polybromo_II cd05517
Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which ...
 1602-1664 1.79e-04

Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99948  Cd Length: 103  Bit Score: 42.43  E-value: 1.79e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1207175443 1602 KKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEI 1664
Cdd:cd05517     33 KVLYPDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDLMVKNAKTFNEPGSQVYKDANAI 95
Bromo_polybromo_III cd05520
Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which ...
 1484-1548 4.48e-04

Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99951  Cd Length: 103  Bit Score: 41.56  E-value: 4.48e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1207175443 1484 DYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTVVAQAMLSLCVEK 1548
Cdd:cd05520     38 DYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYNVPNSRIYKDAEKLQKLMQAK 102
Bromo_ZMYND11 cd05492
Bromodomain; ZMYND11_like sub-family. ZMYND11 or BS69 is a ubiquitously expressed nuclear ...
 1467-1551 4.25e-03

Bromodomain; ZMYND11_like sub-family. ZMYND11 or BS69 is a ubiquitously expressed nuclear protein that has been shown to associate with chromatin. It interacts with chromatin remodeling factors and might play a role in chromatin remodeling and gene expression. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99924  Cd Length: 109  Bit Score: 38.90  E-value: 4.25e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1207175443 1467 LPNTYPFHTPV---NGKVVKD--YYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTVVAQAM 1541
Cdd:cd05492     16 LPPDTTNRAIVlnkRGKATKLpkRRRLIHTHLDVADIQEKINSEKYTSLEEFKADALLLLHNTAIFHGADSEQYDAARWL 95

                           90
                   ....*....|
gi 1207175443 1542 LSLCVEKIKE 1551
Cdd:cd05492     96 YRDTCHDLRE 105
Bromo_Rsc1_2_I cd05521
Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 1473-1528 8.94e-03

Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99952  Cd Length: 106  Bit Score: 37.69  E-value: 8.94e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1207175443 1473 FHTPVNGKVVKDYYKIITRPMDLQTlrenVRKRM--YPSREEFRESVELIFKNSATYN 1528
Cdd:cd05521     28 FNVLPLRKDYPDYYKIIKNPLSLNT----VKKRLphYTNAQEFVNDLAQIPWNARLYN 81
 
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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