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Conserved domains on  [gi|113677837|ref|NP_001038250|]
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transcription initiation factor TFIID subunit 1 [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: 688.13  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   617 WNLSNDEFYYPK----QQGLRGSFGGNIIQHSIPTVELRQPFFPTHMGPMKLRQFHRPSLKKYSFGalsqpGPHAVQPLL 692
Cdd:pfam12157    1 FNISNDEAYEILkenhQSKVRSTLGNLAIEHSLPALKLQLPFYKTKLSKRELRSFHRPRLQFPPNG-----GPEIVFSKL 75

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   693 KHIKKKakmreqerQASGGGDMFFMRTAQDLTGKD-GDLVLAEYSEEYPPLHMQVGMASKIKNYYKRKPGKDPGAPDCKY 771
Cdd:pfam12157   76 KHRKKK--------KDKGKDISELFKTTKDLSLRDtSNLVLLEYSEEYPPLLSNFGMGSKLINYYRKKDAKDTSRPKLEI 147

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   772 GETVYC---HTSPF--LGSLHPGQLLQAFENNLFRAPIYLHKMPETDFLIIRTRQG----YFIRELVDIFVVGQECPLYE 842
Cdd:pfam12157  148 GETHVLdpqDKSPFwnFGSVEPGETVPTLYNNMFRAPIFKHKPKSTDFLLIRSTTGgeskYYLRNIDNLFVVGQTFPVVE 227

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   843 VPGPNSKRANTHIRDFLQVFIYRLFWKSKDRprRIRMEDIKKAFPSHSESSIRKRLKLCADFKRTGMDSNWWVLKPDFRL 922
Cdd:pfam12157  228 VPGPHSRKVTNFSKNRLKMIAYRLFRKSKDG--RIKIEDITKHFPDQNEMQNRQRLKEFMDYQRTGDDQGFWKLKPGDRL 305

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   923 PTEEEIRAMVSPEQCCAYYSMLVAEQRLKDAGYGEKSffAPEEENEEEFQMKIDDEVRTAPWNTTRAFIAAMKGKCLLEV 1002
Cdd:pfam12157  306 PDEEEIRKMVTPEDVCLYESMQVGQQRLKDAGYGEKD--APEEEDEDDDESKIELEQQLAPWNTTKNFINATQGKAMLQL 383

                          410       420       430       440       450       460       470
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 113677837  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, ...
 1573-1684 1.18e-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: 1.18e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1573 FSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPD 1652
Cdd:cd05511     1 LSFILDEIVNELKNL-PDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPD 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 113677837 1653 SPYTKTALEIVNVCKQTLAEYDEHLTQLEKDI 1684
Cdd:cd05511    80 SVYTKKAKEMLELAEELLAEREEKLTQLEKNI 111
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1451-1562 2.53e-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: 2.53e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1451 LSSVLESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1530
Cdd:cd05511     1 LSFILDEIVNELKNLPDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDS 80

                          90       100       110
                  ....*....|....*....|....*....|..
gi 113677837 1531 PLTVVAQAMLSLCVEKIKEKEERLVRLEKAIN 1562
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 1.85e-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: 1.85e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 113677837    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 3.83e-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: 3.83e-13
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 113677837  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: 688.13  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   617 WNLSNDEFYYPK----QQGLRGSFGGNIIQHSIPTVELRQPFFPTHMGPMKLRQFHRPSLKKYSFGalsqpGPHAVQPLL 692
Cdd:pfam12157    1 FNISNDEAYEILkenhQSKVRSTLGNLAIEHSLPALKLQLPFYKTKLSKRELRSFHRPRLQFPPNG-----GPEIVFSKL 75

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   693 KHIKKKakmreqerQASGGGDMFFMRTAQDLTGKD-GDLVLAEYSEEYPPLHMQVGMASKIKNYYKRKPGKDPGAPDCKY 771
Cdd:pfam12157   76 KHRKKK--------KDKGKDISELFKTTKDLSLRDtSNLVLLEYSEEYPPLLSNFGMGSKLINYYRKKDAKDTSRPKLEI 147

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   772 GETVYC---HTSPF--LGSLHPGQLLQAFENNLFRAPIYLHKMPETDFLIIRTRQG----YFIRELVDIFVVGQECPLYE 842
Cdd:pfam12157  148 GETHVLdpqDKSPFwnFGSVEPGETVPTLYNNMFRAPIFKHKPKSTDFLLIRSTTGgeskYYLRNIDNLFVVGQTFPVVE 227

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   843 VPGPNSKRANTHIRDFLQVFIYRLFWKSKDRprRIRMEDIKKAFPSHSESSIRKRLKLCADFKRTGMDSNWWVLKPDFRL 922
Cdd:pfam12157  228 VPGPHSRKVTNFSKNRLKMIAYRLFRKSKDG--RIKIEDITKHFPDQNEMQNRQRLKEFMDYQRTGDDQGFWKLKPGDRL 305

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   923 PTEEEIRAMVSPEQCCAYYSMLVAEQRLKDAGYGEKSffAPEEENEEEFQMKIDDEVRTAPWNTTRAFIAAMKGKCLLEV 1002
Cdd:pfam12157  306 PDEEEIRKMVTPEDVCLYESMQVGQQRLKDAGYGEKD--APEEEDEDDDESKIELEQQLAPWNTTKNFINATQGKAMLQL 383

                          410       420       430       440       450       460       470
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 113677837  1003 TGVADPTGCGEGFSYVKVPNKPTQQKDDrepqPVKKTVTGTDADlRRLSLKNAKQLLRKFGVPEEEIKKLSRWEVIDV 1080
Cdd:pfam12157  384 HGEGDPTGRGEGFSFLRTSMKGGFLKAG----ETKKDVTGTDAD-RKLSGGHSYNVARQQGVYEEEIKRIWRWQKISL 456
TAF1 COG5179
Transcription initiation factor TFIID, subunit TAF1 [Transcription];
493-1356 1.66e-97

Transcription initiation factor TFIID, subunit TAF1 [Transcription];


Pssm-ID: 227506 [Multi-domain]  Cd Length: 968  Bit Score: 338.96  E-value: 1.66e-97
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  493 SITGSKRDKHNHDHQVSHEDdtpwfsifpidnEELVYGRWEDNIIWDDQNMDCIPSPPVLTLNPndeniILEIPDEKEER 572
Cdd:COG5179   249 RAGGRMKRDTVTTEFVDSID------------LLIATDDWERYVIVDEADDMKTPRKSFYKLKS-----LTDVDWLYDED 311

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  573 TSHSPSKENKKETALKKSRILL--GKTGVIKDEPQQNMSQP--EIKDPWNLSNDEFY----YPKQQGLRGSFGGNIIQHS 644
Cdd:COG5179   312 IIDAKLKESKAPLNLNDEKLLLkrQAKPKKKQQEVFSDDKPlnELKGKFNISNDKYYgilkKTHQSKVRNTLSTLGIQHS 391

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  645 IPTVELRQPFFPTHMGPMKLRQFHRPslkKYSFgalsQPGPHAVQPLLKHIKKKAKMREQERQAsgggdmffMRTAQDLT 724
Cdd:COG5179   392 LPALRLDPPFYKNNHTKEELRNFHRP---RFMV----RPGSNIVFSTLEARKRNKDKGKDVQEI--------IKTAGELT 456

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  725 GKDGD-LVLAEYSEEYPPLHMQVGMASKIKNYYKRKPGKDPGAPDCKYGETVYCHT---SPF--LGSLHPGQLLQAFENN 798
Cdd:COG5179   457 VGDTSpFSLFEYSEEEPFFLSNPGMASLLNNYYRKSNEQDEYRPKLDVGEYHVLDVqdpSPFwnFGDVEPGTIIPTLYNN 536

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  799 LFRAPIYLHKMPETDFLIIRTRQG-----YFIRELVDIFVVGQECPLYEVPGPNSKRANTHIRDFLQVFIYRLFWKSKDR 873
Cdd:COG5179   537 MIRAPVFKHSSGGTDFLLIVESSNsgemsLYLRNINHLFCVGQTFPVEEVPGPHSRKVTVFCKNRLKMAAFRLFNSKEGG 616

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  874 PRRIRmeDIKKAFPSHSESSIRKRLKLCADFKRTGMDsNWWVLKPDFRLPTEEEIRAMVSPEQCCAYYSMLVAEQRLKDA 953
Cdd:COG5179   617 SLRIS--QLDKHFPDQSEGQKRQWLKEFMDYVKDGPD-GVWVLKPSEALLDEEDLRSLVTPENICQYESMLAGERKLEDS 693

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  954 GYGEKSFfapeeeneeEFQMKIDDEVRTAPWNTTRAFIAAMKGKCLLEVTGVADPTGCGEGFSYVKVP----NKPTQQKD 1029
Cdd:COG5179   694 GYKTVNE---------DDDEENEEEMLLPPWCLTRNFINATQGRAMLELSGPGDPTGIGEGFSFRKTSmkggFEKSGSPV 764

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1030 DREPQPVKKTVTGtdadlrrlslknakqllrkfgvpeeeikklsrwevidvvrtmsteqarsgegpmskfargsrFSVAE 1109
Cdd:COG5179   765 ENRKSSNKKNTHI--------------------------------------------------------------YNVAQ 782

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1110 HQERYKEECQRIFDLQNKVLESTEvlstdtdsssaedsdFEEMGKNIENMLQNKKtssqlsrereeqerkelqrmlmged 1189
Cdd:COG5179   783 QQSAYKEEIDRIWSKQLASLSIVN---------------FEEPFDESFINRRHRE------------------------- 822

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1190 nerergrkerrkgssalstsSHKDDDASSVTSLNSSATgrrLKIYRTFCDEDGKEYVRCETVRKPAVIDAYLRIRtTKDD 1269
Cdd:COG5179   823 --------------------EVKNADLLRETTMLSEKT---LLIVRRTRDENGTSYREVERISDPRVIKAYLKAR-KQDK 878

                         810       820       830       840       850       860       870       880
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1270 EFIRKFALFDEQHREEMRKERRRIQEQLRRLKRNQEKDRFKGPPEKKTKKAKE-RPDLKLKCGACGAIGHMRTNKFCPLY 1348
Cdd:COG5179   879 EDVNKLDTSKINNKEISEKQKKLLQLELANLEKSQQRRAARQNSKNGSDLAGKgRKNTTRTCGNCGQVGHMKTNKACPKF 958


                  ....*...
gi 113677837 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, ...
 1573-1684 1.18e-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: 1.18e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1573 FSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPD 1652
Cdd:cd05511     1 LSFILDEIVNELKNL-PDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPD 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 113677837 1653 SPYTKTALEIVNVCKQTLAEYDEHLTQLEKDI 1684
Cdd:cd05511    80 SVYTKKAKEMLELAEELLAEREEKLTQLEKNI 111
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1451-1562 2.53e-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: 2.53e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1451 LSSVLESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1530
Cdd:cd05511     1 LSFILDEIVNELKNLPDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDS 80

                          90       100       110
                  ....*....|....*....|....*....|..
gi 113677837 1531 PLTVVAQAMLSLCVEKIKEKEERLVRLEKAIN 1562
Cdd:cd05511    81 VYTKKAKEMLELAEELLAEREEKLTQLEKNIN 112
BROMO smart00297
bromo domain;
1566-1673 1.59e-28

bromo domain;


Pssm-ID: 197636 [Multi-domain]  Cd Length: 107  Bit Score: 111.22  E-value: 1.59e-28
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   1566 DDDDQVAFSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNS 1645
Cdd:smart00297    1 DPKLQKKLQELLKAVLDKLDSH-PLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSNA 79

                            90       100
                    ....*....|....*....|....*...
gi 113677837   1646 VKYNGPDSPYTKTALEIVNVCKQTLAEY 1673
Cdd:smart00297   80 RTYNGPDSEVYKDAKKLEKFFEKKLREL 107
BROMO smart00297
bromo domain;
1444-1549 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 113677837   1444 RTDPMVTLSSVLESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSA 1523
Cdd:smart00297    1 DPKLQKKLQELLKAVLDKLDSHPLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSNAR 80

                            90       100
                    ....*....|....*....|....*.
gi 113677837   1524 TYNGAKHPLTVVAQAMLSLCVEKIKE 1549
Cdd:smart00297   81 TYNGPDSEVYKDAKKLEKFFEKKLRE 106
COG5076 COG5076
Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin ...
 1470-1677 5.70e-22

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


Pssm-ID: 227408 [Multi-domain]  Cd Length: 371  Bit Score: 100.27  E-value: 5.70e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1470 PFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTVVAQAMLSLCVEKIKE 1549
Cdd:COG5076   168 IFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFLKLIEE 247

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1550 KEERLVRLEKAINPLLDDDDQVAfsfILDNivtqkMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQ 1629
Cdd:COG5076   248 IPEEMLELSIKPGREEREERESV---LITN-----SQAHVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTKELKLRNNYYR 319

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 113677837 1630 NREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVCKQTLAEYDEHL 1677
Cdd:COG5076   320 PEETFVRDAKLFFDNCVMYNGEVTDYYKNANVLEDFVIKKTRLIREYP 367
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 1581-1661 6.30e-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: 6.30e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  1581 VTQKMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTAL 1660
Cdd:pfam00439    4 ILDKLMEHPIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLENGEYKSLAEFLADVKLIFSNARTYNGPGSVIYKAAE 83


                   .
gi 113677837  1661 E 1661
Cdd:pfam00439   84 K 84
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 1455-1537 4.66e-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: 4.66e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  1455 LESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTV 1534
Cdd:pfam00439    1 CLEILDKLMEHPIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLENGEYKSLAEFLADVKLIFSNARTYNGPGSVIYK 80


                   ...
gi 113677837  1535 VAQ 1537
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 1.85e-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: 1.85e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 113677837    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 3.83e-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: 3.83e-13
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 113677837  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: 688.13  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   617 WNLSNDEFYYPK----QQGLRGSFGGNIIQHSIPTVELRQPFFPTHMGPMKLRQFHRPSLKKYSFGalsqpGPHAVQPLL 692
Cdd:pfam12157    1 FNISNDEAYEILkenhQSKVRSTLGNLAIEHSLPALKLQLPFYKTKLSKRELRSFHRPRLQFPPNG-----GPEIVFSKL 75

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   693 KHIKKKakmreqerQASGGGDMFFMRTAQDLTGKD-GDLVLAEYSEEYPPLHMQVGMASKIKNYYKRKPGKDPGAPDCKY 771
Cdd:pfam12157   76 KHRKKK--------KDKGKDISELFKTTKDLSLRDtSNLVLLEYSEEYPPLLSNFGMGSKLINYYRKKDAKDTSRPKLEI 147

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   772 GETVYC---HTSPF--LGSLHPGQLLQAFENNLFRAPIYLHKMPETDFLIIRTRQG----YFIRELVDIFVVGQECPLYE 842
Cdd:pfam12157  148 GETHVLdpqDKSPFwnFGSVEPGETVPTLYNNMFRAPIFKHKPKSTDFLLIRSTTGgeskYYLRNIDNLFVVGQTFPVVE 227

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   843 VPGPNSKRANTHIRDFLQVFIYRLFWKSKDRprRIRMEDIKKAFPSHSESSIRKRLKLCADFKRTGMDSNWWVLKPDFRL 922
Cdd:pfam12157  228 VPGPHSRKVTNFSKNRLKMIAYRLFRKSKDG--RIKIEDITKHFPDQNEMQNRQRLKEFMDYQRTGDDQGFWKLKPGDRL 305

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   923 PTEEEIRAMVSPEQCCAYYSMLVAEQRLKDAGYGEKSffAPEEENEEEFQMKIDDEVRTAPWNTTRAFIAAMKGKCLLEV 1002
Cdd:pfam12157  306 PDEEEIRKMVTPEDVCLYESMQVGQQRLKDAGYGEKD--APEEEDEDDDESKIELEQQLAPWNTTKNFINATQGKAMLQL 383

                          410       420       430       440       450       460       470
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 113677837  1003 TGVADPTGCGEGFSYVKVPNKPTQQKDDrepqPVKKTVTGTDADlRRLSLKNAKQLLRKFGVPEEEIKKLSRWEVIDV 1080
Cdd:pfam12157  384 HGEGDPTGRGEGFSFLRTSMKGGFLKAG----ETKKDVTGTDAD-RKLSGGHSYNVARQQGVYEEEIKRIWRWQKISL 456
TAF1 COG5179
Transcription initiation factor TFIID, subunit TAF1 [Transcription];
493-1356 1.66e-97

Transcription initiation factor TFIID, subunit TAF1 [Transcription];


Pssm-ID: 227506 [Multi-domain]  Cd Length: 968  Bit Score: 338.96  E-value: 1.66e-97
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  493 SITGSKRDKHNHDHQVSHEDdtpwfsifpidnEELVYGRWEDNIIWDDQNMDCIPSPPVLTLNPndeniILEIPDEKEER 572
Cdd:COG5179   249 RAGGRMKRDTVTTEFVDSID------------LLIATDDWERYVIVDEADDMKTPRKSFYKLKS-----LTDVDWLYDED 311

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  573 TSHSPSKENKKETALKKSRILL--GKTGVIKDEPQQNMSQP--EIKDPWNLSNDEFY----YPKQQGLRGSFGGNIIQHS 644
Cdd:COG5179   312 IIDAKLKESKAPLNLNDEKLLLkrQAKPKKKQQEVFSDDKPlnELKGKFNISNDKYYgilkKTHQSKVRNTLSTLGIQHS 391

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  645 IPTVELRQPFFPTHMGPMKLRQFHRPslkKYSFgalsQPGPHAVQPLLKHIKKKAKMREQERQAsgggdmffMRTAQDLT 724
Cdd:COG5179   392 LPALRLDPPFYKNNHTKEELRNFHRP---RFMV----RPGSNIVFSTLEARKRNKDKGKDVQEI--------IKTAGELT 456

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  725 GKDGD-LVLAEYSEEYPPLHMQVGMASKIKNYYKRKPGKDPGAPDCKYGETVYCHT---SPF--LGSLHPGQLLQAFENN 798
Cdd:COG5179   457 VGDTSpFSLFEYSEEEPFFLSNPGMASLLNNYYRKSNEQDEYRPKLDVGEYHVLDVqdpSPFwnFGDVEPGTIIPTLYNN 536

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  799 LFRAPIYLHKMPETDFLIIRTRQG-----YFIRELVDIFVVGQECPLYEVPGPNSKRANTHIRDFLQVFIYRLFWKSKDR 873
Cdd:COG5179   537 MIRAPVFKHSSGGTDFLLIVESSNsgemsLYLRNINHLFCVGQTFPVEEVPGPHSRKVTVFCKNRLKMAAFRLFNSKEGG 616

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  874 PRRIRmeDIKKAFPSHSESSIRKRLKLCADFKRTGMDsNWWVLKPDFRLPTEEEIRAMVSPEQCCAYYSMLVAEQRLKDA 953
Cdd:COG5179   617 SLRIS--QLDKHFPDQSEGQKRQWLKEFMDYVKDGPD-GVWVLKPSEALLDEEDLRSLVTPENICQYESMLAGERKLEDS 693

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  954 GYGEKSFfapeeeneeEFQMKIDDEVRTAPWNTTRAFIAAMKGKCLLEVTGVADPTGCGEGFSYVKVP----NKPTQQKD 1029
Cdd:COG5179   694 GYKTVNE---------DDDEENEEEMLLPPWCLTRNFINATQGRAMLELSGPGDPTGIGEGFSFRKTSmkggFEKSGSPV 764

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1030 DREPQPVKKTVTGtdadlrrlslknakqllrkfgvpeeeikklsrwevidvvrtmsteqarsgegpmskfargsrFSVAE 1109
Cdd:COG5179   765 ENRKSSNKKNTHI--------------------------------------------------------------YNVAQ 782

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1110 HQERYKEECQRIFDLQNKVLESTEvlstdtdsssaedsdFEEMGKNIENMLQNKKtssqlsrereeqerkelqrmlmged 1189
Cdd:COG5179   783 QQSAYKEEIDRIWSKQLASLSIVN---------------FEEPFDESFINRRHRE------------------------- 822

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1190 nerergrkerrkgssalstsSHKDDDASSVTSLNSSATgrrLKIYRTFCDEDGKEYVRCETVRKPAVIDAYLRIRtTKDD 1269
Cdd:COG5179   823 --------------------EVKNADLLRETTMLSEKT---LLIVRRTRDENGTSYREVERISDPRVIKAYLKAR-KQDK 878

                         810       820       830       840       850       860       870       880
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1270 EFIRKFALFDEQHREEMRKERRRIQEQLRRLKRNQEKDRFKGPPEKKTKKAKE-RPDLKLKCGACGAIGHMRTNKFCPLY 1348
Cdd:COG5179   879 EDVNKLDTSKINNKEISEKQKKLLQLELANLEKSQQRRAARQNSKNGSDLAGKgRKNTTRTCGNCGQVGHMKTNKACPKF 958


                  ....*...
gi 113677837 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, ...
 1573-1684 1.18e-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: 1.18e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1573 FSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPD 1652
Cdd:cd05511     1 LSFILDEIVNELKNL-PDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPD 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 113677837 1653 SPYTKTALEIVNVCKQTLAEYDEHLTQLEKDI 1684
Cdd:cd05511    80 SVYTKKAKEMLELAEELLAEREEKLTQLEKNI 111
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1451-1562 2.53e-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: 2.53e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1451 LSSVLESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1530
Cdd:cd05511     1 LSFILDEIVNELKNLPDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDS 80

                          90       100       110
                  ....*....|....*....|....*....|..
gi 113677837 1531 PLTVVAQAMLSLCVEKIKEKEERLVRLEKAIN 1562
Cdd:cd05511    81 VYTKKAKEMLELAEELLAEREEKLTQLEKNIN 112
BROMO smart00297
bromo domain;
1566-1673 1.59e-28

bromo domain;


Pssm-ID: 197636 [Multi-domain]  Cd Length: 107  Bit Score: 111.22  E-value: 1.59e-28
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837   1566 DDDDQVAFSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNS 1645
Cdd:smart00297    1 DPKLQKKLQELLKAVLDKLDSH-PLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSNA 79

                            90       100
                    ....*....|....*....|....*...
gi 113677837   1646 VKYNGPDSPYTKTALEIVNVCKQTLAEY 1673
Cdd:smart00297   80 RTYNGPDSEVYKDAKKLEKFFEKKLREL 107
Bromodomain cd04369
Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear ...
 1569-1670 2.39e-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: 101.68  E-value: 2.39e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1569 DQVAFSFILDNIVTQKMmavPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKY 1648
Cdd:cd04369     1 LKKKLRSLLDALKKLKR---DLSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEADVRLIFSNAKTY 77

                          90       100
                  ....*....|....*....|..
gi 113677837 1649 NGPDSPYTKTALEIVNVCKQTL 1670
Cdd:cd04369    78 NGPGSPIYKDAKKLEKLFEKLL 99
BROMO smart00297
bromo domain;
1444-1549 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 113677837   1444 RTDPMVTLSSVLESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSA 1523
Cdd:smart00297    1 DPKLQKKLQELLKAVLDKLDSHPLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSNAR 80

                            90       100
                    ....*....|....*....|....*.
gi 113677837   1524 TYNGAKHPLTVVAQAMLSLCVEKIKE 1549
Cdd:smart00297   81 TYNGPDSEVYKDAKKLEKFFEKKLRE 106
Bromo_gcn5_like cd05509
Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates ...
 1589-1673 1.08e-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: 94.16  E-value: 1.08e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1589 PDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVCKQ 1668
Cdd:cd05509    17 KSAWPFLEPVDKEEAPDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDTEYYKCANKLEKFFWK 96


                  ....*
gi 113677837 1669 TLAEY 1673
Cdd:cd05509    97 KLKEL 101
Bromodomain cd04369
Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear ...
 1451-1547 1.35e-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: 1.35e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1451 LSSVLESIINDMRDLpnTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1530
Cdd:cd04369     5 LRSLLDALKKLKRDL--SEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEADVRLIFSNAKTYNGPGS 82

                          90
                  ....*....|....*..
gi 113677837 1531 PLTVVAQAMLSLCVEKI 1547
Cdd:cd04369    83 PIYKDAKKLEKLFEKLL 99
COG5076 COG5076
Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin ...
 1470-1677 5.70e-22

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


Pssm-ID: 227408 [Multi-domain]  Cd Length: 371  Bit Score: 100.27  E-value: 5.70e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1470 PFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTVVAQAMLSLCVEKIKE 1549
Cdd:COG5076   168 IFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFLKLIEE 247

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1550 KEERLVRLEKAINPLLDDDDQVAfsfILDNivtqkMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQ 1629
Cdd:COG5076   248 IPEEMLELSIKPGREEREERESV---LITN-----SQAHVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTKELKLRNNYYR 319

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 113677837 1630 NREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVCKQTLAEYDEHL 1677
Cdd:COG5076   320 PEETFVRDAKLFFDNCVMYNGEVTDYYKNANVLEDFVIKKTRLIREYP 367
Bromo_gcn5_like cd05509
Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates ...
 1451-1549 1.10e-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: 1.10e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1451 LSSVLESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1530
Cdd:cd05509     2 LYTQLKKVLDSLKNHKSAWPFLEPVDKEEAPDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDT 81

                          90
                  ....*....|....*....
gi 113677837 1531 PLTVVAQAMLSLCVEKIKE 1549
Cdd:cd05509    82 EYYKCANKLEKFFWKKLKE 100
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 1581-1661 6.30e-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: 6.30e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  1581 VTQKMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTAL 1660
Cdd:pfam00439    4 ILDKLMEHPIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLENGEYKSLAEFLADVKLIFSNARTYNGPGSVIYKAAE 83


                   .
gi 113677837  1661 E 1661
Cdd:pfam00439   84 K 84
Bromo_RACK7 cd05508
Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) ...
 1582-1668 3.02e-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: 3.02e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1582 TQKMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALE 1661
Cdd:cd05508    11 ALERMKQPGAEPFLKPVDLEQFPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNAIIYNGGDHKLTQAAKA 90


                  ....*..
gi 113677837 1662 IVNVCKQ 1668
Cdd:cd05508    91 IVKICEQ 97
Bromo_BAZ2A_B_like cd05503
Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B ...
 1573-1654 1.77e-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: 82.04  E-value: 1.77e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1573 FSFILDNIVTQkmmavPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPD 1652
Cdd:cd05503     5 CETILDEMEAH-----EDAWPFLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFNEDD 79


                  ..
gi 113677837 1653 SP 1654
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 ...
 1455-1557 1.88e-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: 1.88e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1455 LESIINDMRDL-PNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGA-KHPL 1532
Cdd:cd05510    12 LDKVLNELKTYtEHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWKNCLLYNSDpSHPL 91

                          90       100
                  ....*....|....*....|....*
gi 113677837 1533 TVVAQAMlslcvekiKEKEERLVRL 1557
Cdd:cd05510    92 RRHANFM--------KKKAEHLLKL 108
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 1455-1537 4.66e-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: 4.66e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837  1455 LESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTV 1534
Cdd:pfam00439    1 CLEILDKLMEHPIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLENGEYKSLAEFLADVKLIFSNARTYNGPGSVIYK 80


                   ...
gi 113677837  1535 VAQ 1537
Cdd:pfam00439   81 AAE 83
Bromo_BAZ2A_B_like cd05503
Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B ...
 1456-1526 1.97e-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: 1.97e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 113677837 1456 ESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1526
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 ...
 1577-1659 5.20e-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: 5.20e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1577 LDNIVTQKMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNG-PDSPY 1655
Cdd:cd05510    12 LDKVLNELKTYTEHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWKNCLLYNSdPSHPL 91


                  ....
gi 113677837 1656 TKTA 1659
Cdd:cd05510    92 RRHA 95
COG5076 COG5076
Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin ...
 1481-1700 1.27e-16

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


Pssm-ID: 227408 [Multi-domain]  Cd Length: 371  Bit Score: 84.09  E-value: 1.27e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1481 KDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPltvvaQAMLSLCVEKIKEKEERLVRLEKA 1560
Cdd:COG5076    46 KNLFQKQLKRMPKEYITSIVDDREPGSMANVNDDLENVGGITYSPFEKNRP-----ESLRFDEIVFLAIESVTPESGLGS 120

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1561 INPLLDDDDQV--------AFSFILDNIVTQKMM-------AVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISK 1625
Cdd:COG5076   121 LLMAHLKTSVKkrktpkieDELLYADNKAIAKFKkqlflrdGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKN 200

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 113677837 1626 HKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVCKQTLAEYDEHLTQLEKDILTAKEAALDAADLESL 1700
Cdd:COG5076   201 GRYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFLKLIEEIPEEMLELSIKPGREEREERESVLITNS 275
Bromo_WSTF_like cd05505
Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The ...
 1581-1653 1.17e-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: 1.17e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 113677837 1581 VTQKMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDS 1653
Cdd:cd05505     8 ILSKILKYRFSWPFREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYYENGS 80
Bromo_Acf1_like cd05504
Bromodomain; Acf1_like or BAZ1A_like subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was ...
 1589-1649 1.21e-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: 1.21e-15
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 113677837 1589 PDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYN 1649
Cdd:cd05504    28 KDSWPFLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLVFSNCFLYN 88
TBP-binding pfam09247
TATA box-binding protein binding; Members of this family adopt a structure consisting of three ...
 13-64 1.85e-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: 1.85e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 113677837    13 PFHLTGFLFGNINENGQLEDDSVLDTESKKHLAGLGTLGLGSLITEITASEE 64
Cdd:pfam09247    8 GLDLTGFLFGNIDEHGQLEDDDILDEESKRHLSSLSKLGLGSFLSEIIDDEE 59
Bromo_RACK7 cd05508
Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) ...
 1451-1543 2.64e-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: 2.64e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1451 LSSVLESIINDMRdLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1530
Cdd:cd05508     4 LSKLLKFALERMK-QPGAEPFLKPVDLEQFPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNAIIYNGGDH 82

                          90
                  ....*....|...
gi 113677837 1531 PLTVVAQAMLSLC 1543
Cdd:cd05508    83 KLTQAAKAIVKIC 95
Bromo_Acf1_like cd05504
Bromodomain; Acf1_like or BAZ1A_like subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was ...
 1440-1526 3.88e-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: 3.88e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1440 IHRRRT-DPMVTLSSVLESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELI 1518
Cdd:cd05504     1 RRRSEGrHHGPLNLSALEQLLVEIVKHKDSWPFLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLV 80


                  ....*...
gi 113677837 1519 FKNSATYN 1526
Cdd:cd05504    81 FSNCFLYN 88
Bromo_plant1 cd05506
Bromodomain, uncharacterized subfamily specific to plants. Might function as a global ...
 1456-1542 7.62e-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: 7.62e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1456 ESIINDMRDLPNTYPFHTPVNgkVVK----DYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHP 1531
Cdd:cd05506     6 GTLLRKLMKHKWGWVFNAPVD--VVAlglpDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPPGND 83

                          90
                  ....*....|.
gi 113677837 1532 LTVVAQAMLSL 1542
Cdd:cd05506    84 VHTMAKELLKI 94
Bromo_AAA cd05528
Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long ...
 1593-1659 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 113677837 1593 PFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTA 1659
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 ...
 1575-1662 1.40e-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: 1.40e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1575 FILDNIVTQKMMavPDSWPFHHPVN--KKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPD 1652
Cdd:cd05500     8 FLLSSIRSLKRL--KDARPFLVPVDpvKLNIPHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTFNGPE 85

                          90
                  ....*....|
gi 113677837 1653 SPYTKTALEI 1662
Cdd:cd05500    86 HPVSQMGKRL 95
Bromo_plant1 cd05506
Bromodomain, uncharacterized subfamily specific to plants. Might function as a global ...
 1584-1651 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 113677837 1584 KMMAVPDSWPFHHPVNKKF--VPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGP 1651
Cdd:cd05506    11 KLMKHKWGWVFNAPVDVVAlgLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPP 80
Bromo_brd7_like cd05513
Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown ...
 1576-1665 2.48e-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: 2.48e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1576 ILDNIVTQKMMAVPDSWpFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPY 1655
Cdd:cd05513     5 ALEQLIRQLQRKDPHGF-FAFPVTDFIAPGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYNKPDTIY 83

                          90
                  ....*....|
gi 113677837 1656 TKTALEIVNV 1665
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 ...
 1457-1539 7.04e-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: 7.04e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1457 SIINDMRDLPNT---YPFHTPVNGKVVK--DYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHP 1531
Cdd:cd05498     7 GILKELFSKKHKayaWPFYKPVDPEALGlhDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYNPPDHP 86


                  ....*...
gi 113677837 1532 LTVVAQAM 1539
Cdd:cd05498    87 VHAMARKL 94
Bromo_tif1_like cd05502
Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of ...
 1590-1653 1.07e-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: 1.07e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 113677837 1590 DSWPFHHPVnKKFVPDYYKVIINPMDLDTLRKNI---SKHKYQNREVFLSDVGLIHTNSVKYNGPDS 1653
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 ...
 1592-1665 1.31e-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: 1.31e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 113677837 1592 WPFHHPVN--KKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNV 1665
Cdd:cd05498    22 WPFYKPVDpeALGLHDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYNPPDHPVHAMARKLQDV 97
Bromo_brd1_like cd05512
Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein ...
 1594-1660 2.64e-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: 2.64e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 113677837 1594 FHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTAL 1660
Cdd:cd05512    22 FSEPVDLSEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNAKDTIFYRAAV 88
zf-CCHC_6 pfam15288
Zinc knuckle; This Zinc knuckle is found in FAM90A mammalian proteins.
 1327-1362 3.83e-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: 3.83e-13
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 113677837  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 ...
 1591-1672 2.98e-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: 2.98e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1591 SWPFHHPVN--KKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVCKQ 1668
Cdd:cd05497    23 AWPFQQPVDavKLNLPDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLEKLFLQ 102


                  ....
gi 113677837 1669 TLAE 1672
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 ...
 1576-1673 3.64e-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: 3.64e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1576 ILDNIVTQKMMAVpdSWPFHHPVNKKF--VPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDS 1653
Cdd:cd05499     8 VLKELMKPKHSAY--NWPFLDPVDPVAlnIPNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFNPEGT 85

                          90       100
                  ....*....|....*....|
gi 113677837 1654 PytktaleiVNVCKQTLAEY 1673
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 ...
 1457-1537 3.70e-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: 3.70e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1457 SIINDMRDLPNTYPFHTPVNgkVVK----DYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPL 1532
Cdd:cd05500    11 SSIRSLKRLKDARPFLVPVD--PVKlnipHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTFNGPEHPV 88


                  ....*
gi 113677837 1533 TVVAQ 1537
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 ...
 1451-1549 5.44e-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: 5.44e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1451 LSSVLESIINDMRDLPNTYPFHTPVNgkVVK----DYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1526
Cdd:cd05497     6 LQYLLKVVLKALWKHKFAWPFQQPVD--AVKlnlpDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIYN 83

                          90       100
                  ....*....|....*....|...
gi 113677837 1527 GAKHPLTVVAQAMLSLCVEKIKE 1549
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 ...
 1456-1537 7.19e-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: 7.19e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1456 ESIINDMRDLPNT---YPFHTPVNGKV--VKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1530
Cdd:cd05499     6 EEVLKELMKPKHSaynWPFLDPVDPVAlnIPNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFNPEGT 85


                  ....*..
gi 113677837 1531 PLTVVAQ 1537
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 ...
 1566-1670 1.01e-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: 1.01e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1566 DDDDQVAfsfILDNIVTQKMMAVPDSW--PFHHPVNKK-FVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIH 1642
Cdd:cd05529    21 IRDEERE---RLISGLDKLLLSLQLEIaeYFEYPVDLRaWYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLIL 97

                          90       100
                  ....*....|....*....|....*...
gi 113677837 1643 TNSVKYNGPDSPYTKTALEIVNVCKQTL 1670
Cdd:cd05529    98 SNAETFNEPNSEIAKKAKRLSDWLLRIL 125
Bromo_tif1_like cd05502
Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of ...
 1470-1542 1.70e-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: 1.70e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 113677837 1470 PFHTPVnGKVVKDYYKIITRPMDLQTLRENVRKR---MYPSREEFRESVELIFKNSATYNGakhPLTVVAQAMLSL 1542
Cdd:cd05502    24 PFHEPV-SPSVPNYYKIIKTPMDLSLIRKKLQPKspqHYSSPEEFVADVRLMFKNCYKFNE---EDSEVAQAGKEL 95
Bromo_AAA cd05528
Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long ...
 1451-1531 5.37e-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: 5.37e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1451 LSSVLESIINDMRDLPntypFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKH 1530
Cdd:cd05528     8 LRDVLKRLASDKRFNA----FTKPVDEEEVPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYNPDRD 83


                  .
gi 113677837 1531 P 1531
Cdd:cd05528    84 P 84
Bromo_WSTF_like cd05505
Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The ...
 1456-1526 6.07e-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: 6.07e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 113677837 1456 ESIINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1526
Cdd:cd05505     6 EEILSKILKYRFSWPFREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYY 76
Bromo_cbp_like cd05495
Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase ...
 1589-1665 8.14e-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: 60.92  E-value: 8.14e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 113677837 1589 PDSWPFHHPVNKKF--VPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNV 1665
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 ...
 1600-1661 1.20e-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: 59.95  E-value: 1.20e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 113677837 1600 KKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALE 1661
Cdd:cd05522    34 KAREPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAKLYNENDSQEYKDAVL 95
Bromo_polybromo_V cd05515
Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which ...
 1599-1672 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 113677837 1599 NKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVCKQTLAE 1672
Cdd:cd05515    32 SKSEYPDYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNACKYNEPDSQIYKDALTLQKVLLETKRE 105
Bromo_polybromo_IV cd05518
Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which ...
 1600-1649 1.99e-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: 1.99e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 113677837 1600 KKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYN 1649
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 ...
 1458-1529 5.94e-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: 5.94e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 113677837 1458 IINDMRDLPNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAK 1529
Cdd:cd05496    13 LVNLMWDCEDSEPFRQPVDLLKYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSNSKSYTPNK 84
Bromo_brd8_like cd05507
Bromodomain, brd8_like subgroup. In mammals, brd8 (bromodomain containing 8) interacts with ...
 1593-1666 3.09e-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: 3.09e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 113677837 1593 PFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVC 1666
Cdd:cd05507    23 VFLKPVTEDIAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYNSSDHDVYLMAVEMQREV 96
Bromo_brd1_like cd05512
Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein ...
 1449-1527 3.41e-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: 3.41e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 113677837 1449 VTLSSVLESIinDMRDLPNTypFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNG 1527
Cdd:cd05512     4 VLLRKTLDQL--QEKDTAEI--FSEPVDLSEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNA 78
Bromodomain_1 cd05494
Bromodomain; uncharacterized subfamily. Bromodomains are found in many chromatin-associated ...
 1583-1677 6.21e-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: 6.21e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1583 QKMMAVPDSWPFHHPVNKKF--VPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSdVGLIHTNSVKY----NGPDSPYT 1656
Cdd:cd05494    13 KRHRRNEDAWPFLEPVNPPRrgAPDYRDVIKRPMSFGTKVNNIVETGARDLEDLQI-VQEDPADKQIDdegrRSPSNIYA 91

                          90       100
                  ....*....|....*....|...
gi 113677837 1657 KTALE--IVNVCKQTLAEYDEHL 1677
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 ...
 1580-1649 6.84e-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: 6.84e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1580 IVTQKMMAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYN 1649
Cdd:cd05496    12 ELVNLMWDCEDSEPFRQPVDLLKYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSNSKSYT 81
Bromo_polybromo_III cd05520
Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which ...
 1588-1660 8.68e-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: 8.68e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 113677837 1588 VPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTAL 1660
Cdd:cd05520    21 QLLAEPFLKLPSKRKYPDYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYNVPNSRIYKDAE 93
Bromo_brd7_like cd05513
Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown ...
 1471-1538 1.45e-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: 1.45e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 113677837 1471 FHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNgakHPLTVVAQA 1538
Cdd:cd05513    22 FAFPVTDFIAPGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYN---KPDTIYYKA 86
Bromo_cbp_like cd05495
Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase ...
 1463-1526 1.76e-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: 1.76e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 113677837 1463 RDLPNTYPFHTPVNGKV--VKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1526
Cdd:cd05495    17 KQDPESLPFRQPVDPKLlgIPDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLYN 82
Bromo_ASH1 cd05525
Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the ...
 1571-1654 3.50e-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: 3.50e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1571 VAFSFILDNIVTQKM-MAVPDSWPFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYN 1649
Cdd:cd05525     5 QVLKEICDAIITYKDsNGQSLAIPFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRNAEKYY 84


                  ....*
gi 113677837 1650 GPDSP 1654
Cdd:cd05525    85 GRKSP 89
Bromo_polybromo_I cd05524
Bromodomain, polybromo repeat I. Polybromo is a nuclear protein of unknown function, which ...
 1600-1675 4.98e-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: 4.98e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 113677837 1600 KKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEIVNVCKQTLAEYDE 1675
Cdd:cd05524    35 RRNEPEYYEVVSNPIDLLKIQQKLKTEEYDDVDDLTADFELLINNAKAYYKPDSPEHKDACKLWELFLSARNEVLS 110
Bromo_polybromo_IV cd05518
Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which ...
 1478-1526 2.27e-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: 2.27e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 113677837 1478 KVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1526
Cdd:cd05518    34 KDYPDYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNARHYN 82
Bromo_SNF2L2 cd05516
Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI ...
 1451-1526 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 113677837 1451 LSSVLESIINDMRDLPNtyPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1526
Cdd:cd05516    10 VDVVIKYKDSDGRQLAE--VFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNAQTFN 83
Bromo_SNF2L2 cd05516
Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI ...
 1593-1649 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 113677837 1593 PFHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYN 1649
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 ...
 1594-1660 5.07e-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: 5.07e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 113677837 1594 FHHPVNKKFVPDYYKVIINPMDLDTLRKNISkhKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTAL 1660
Cdd:cd05521    28 FNVLPLRKDYPDYYKIIKNPLSLNTVKKRLP--HYTNAQEFVNDLAQIPWNARLYNTKGSVIYKYAL 92
Bromo_SNF2 cd05519
Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in ...
 1471-1526 1.78e-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: 1.78e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 113677837 1471 FHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1526
Cdd:cd05519    27 FLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANARTYN 82
Bromo_brd8_like cd05507
Bromodomain, brd8_like subgroup. In mammals, brd8 (bromodomain containing 8) interacts with ...
 1466-1547 8.60e-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: 8.60e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1466 PNTYPFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTVVAQAMLSLCVE 1545
Cdd:cd05507    19 RYASVFLKPVTEDIAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYNSSDHDVYLMAVEMQREVMS 98


                  ..
gi 113677837 1546 KI 1547
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 ...
 1456-1557 8.84e-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: 8.84e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1456 ESIINDMR------DLPNTYPFHTPVNGKV-VKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGA 1528
Cdd:cd05529    27 ERLISGLDklllslQLEIAEYFEYPVDLRAwYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLILSNAETFNEP 106

                          90       100
                  ....*....|....*....|....*....
gi 113677837 1529 KHPLtvvaqamlslcVEKIKEKEERLVRL 1557
Cdd:cd05529   107 NSEI-----------AKKAKRLSDWLLRI 124
Bromo_polybromo_V cd05515
Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which ...
 1482-1526 1.16e-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: 1.16e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 113677837 1482 DYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1526
Cdd:cd05515    38 DYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNACKYN 82
Bromo_SNF2 cd05519
Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in ...
 1594-1649 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 113677837 1594 FHHPVNKKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYN 1649
Cdd:cd05519    27 FLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANARTYN 82
Bromo_Rsc1_2_II cd05522
Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 1482-1526 1.68e-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: 45.31  E-value: 1.68e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 113677837 1482 DYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYN 1526
Cdd:cd05522    39 EYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAKLYN 83
Bromo_ASH1 cd05525
Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the ...
 1470-1537 2.28e-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: 2.28e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 113677837 1470 PFHTPVNGKVVKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTVVAQ 1537
Cdd:cd05525    28 PFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRNAEKYYGRKSPIGRDVC 95
Bromo_SP100C_like cd05501
Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major ...
 1480-1529 9.47e-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: 43.19  E-value: 9.47e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 113677837 1480 VKDYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAK 1529
Cdd:cd05501    30 IRDYCQGIKEPMWLNKVKERLNERVYHTVEGFVRDMRLIFHNHKLFYKDD 79
Bromo_polybromo_II cd05517
Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which ...
 1600-1662 1.78e-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: 1.78e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 113677837 1600 KKFVPDYYKVIINPMDLDTLRKNISKHKYQNREVFLSDVGLIHTNSVKYNGPDSPYTKTALEI 1662
Cdd:cd05517    33 KVLYPDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDLMVKNAKTFNEPGSQVYKDANAI 95
Bromo_polybromo_III cd05520
Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which ...
 1482-1546 4.39e-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: 4.39e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 113677837 1482 DYYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTVVAQAMLSLCVEK 1546
Cdd:cd05520    38 DYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYNVPNSRIYKDAEKLQKLMQAK 102
Bromo_ZMYND11 cd05492
Bromodomain; ZMYND11_like sub-family. ZMYND11 or BS69 is a ubiquitously expressed nuclear ...
 1465-1549 4.60e-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: 38.52  E-value: 4.60e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 113677837 1465 LPNTYPFHTPV---NGKVVKD--YYKIITRPMDLQTLRENVRKRMYPSREEFRESVELIFKNSATYNGAKHPLTVVAQAM 1539
Cdd:cd05492    16 LPPDTTNRAIVlnkRGKATKLpkRRRLIHTHLDVADIQEKINSEKYTSLEEFKADALLLLHNTAIFHGADSEQYDAARWL 95

                          90
                  ....*....|
gi 113677837 1540 LSLCVEKIKE 1549
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 ...
 1471-1526 8.51e-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: 8.51e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 113677837 1471 FHTPVNGKVVKDYYKIITRPMDLQTlrenVRKRM--YPSREEFRESVELIFKNSATYN 1526
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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