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Conserved domains on  [gi|1039797479|ref|XP_017174001|]
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transcription initiation factor TFIID subunit 1 isoform X1 [Mus musculus]

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 ...
 591-1054 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: 704.31  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  591 WNLSNDEYYYPK----QQGLRGTFGGNIIQHSIPAVELRQPFFPTHMGPIKLRQFHRPPLKKYSFGalsqpGPHSVQPLL 666
Cdd:pfam12157    1 FNISNDEAYEILkenhQSKVRSTLGNLAIEHSLPALKLQLPFYKTKLSKRELRSFHRPRLQFPPNG-----GPEIVFSKL 75

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  667 KHIKKKakmreqerQASGGGEMFFMRTPQDLTGKD-GDLILAEYSEENGPLMMQVGMATKIKNYYKRKPGKDPGAPDCKY 745
Cdd:pfam12157   76 KHRKKK--------KDKGKDISELFKTTKDLSLRDtSNLVLLEYSEEYPPLLSNFGMGSKLINYYRKKDAKDTSRPKLEI 147

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  746 GETVYC---HTSPF--LGSLHPGQLLQAFENNLFRAPIYLHKMPESDFLIIRTRQG----YFIRELVDIFVVGQQCPLFE 816
Cdd:pfam12157  148 GETHVLdpqDKSPFwnFGSVEPGETVPTLYNNMFRAPIFKHKPKSTDFLLIRSTTGgeskYYLRNIDNLFVVGQTFPVVE 227

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  817 VPGPNSKRANTHIRDFLQVFIYRLFWKSKDRprRIRMEDIKKAFPSHSESSIRKRLKLCADFKRTGMDSNWWVLKSDFRL 896
Cdd:pfam12157  228 VPGPHSRKVTNFSKNRLKMIAYRLFRKSKDG--RIKIEDITKHFPDQNEMQNRQRLKEFMDYQRTGDDQGFWKLKPGDRL 305

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  897 PTEEEIRAMVSPEQCCAYYSMIAAEQRLKDAGYGEKSffAPEEENEEDFQMKIDDEVRTAPWNTTRAFIAAMKGKCLLEV 976
Cdd:pfam12157  306 PDEEEIRKMVTPEDVCLYESMQVGQQRLKDAGYGEKD--APEEEDEDDDESKIELEQQLAPWNTTKNFINATQGKAMLQL 383

                          410       420       430       440       450       460       470
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1039797479  977 TGVADPTGCGEGFSYVKIPNKPTQQKDDKepqpVKKTVTGTDADlRRLSLKNAKQLLRKFGVPEEEIKKLSRWEVIDV 1054
Cdd:pfam12157  384 HGEGDPTGRGEGFSFLRTSMKGGFLKAGE----TKKDVTGTDAD-RKLSGGHSYNVARQQGVYEEEIKRIWRWQKISL 456
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1533-1645 5.76e-59

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: 198.26  E-value: 5.76e-59
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1533 FSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPE 1612
Cdd:cd05511      1 LSFILDEIVNELKNL-PDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPD 79

                           90       100       110
                   ....*....|....*....|....*....|...
gi 1039797479 1613 SQYTKTAQEIVNVCHQTLTEYDEHLTQLEKDIC 1645
Cdd:cd05511     80 SVYTKKAKEMLELAEELLAEREEKLTQLEKNIN 112
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1411-1522 2.61e-56

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


:

Pssm-ID: 99943 [Multi-domain]  Cd Length: 112  Bit Score: 190.94  E-value: 2.61e-56
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1411 LSSILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKH 1490
Cdd:cd05511      1 LSFILDEIVNELKNLPDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDS 80

                           90       100       110
                   ....*....|....*....|....*....|..
gi 1039797479 1491 SLTQISQSMLDLCDEKLKEKEDKLARLEKAIN 1522
Cdd:cd05511     81 VYTKKAKEMLELAEELLAEREEKLTQLEKNIN 112
TBP-binding pfam09247
TATA box-binding protein binding; Members of this family adopt a structure consisting of three ...
 28-86 3.50e-16

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: 74.22  E-value: 3.50e-16
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1039797479   28 EESAGGGPFSLTGFLFGNINGAGQLEGESVLDDECKKHLAGLGALGLGSLITELTANEE 86
Cdd:pfam09247    1 SDSEGGGGLDLTGFLFGNIDEHGQLEDDDILDEESKRHLSSLSKLGLGSFLSEIIDDEE 59
zf-CCHC_6 pfam15288
Zinc knuckle; This Zinc knuckle is found in FAM90A mammalian proteins.
 1287-1322 3.74e-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: 3.74e-13
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1039797479 1287 KLKCGACGAIGHMRTNKFCPLYYQTNAPPSNPVAMT 1322
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 ...
 591-1054 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: 704.31  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  591 WNLSNDEYYYPK----QQGLRGTFGGNIIQHSIPAVELRQPFFPTHMGPIKLRQFHRPPLKKYSFGalsqpGPHSVQPLL 666
Cdd:pfam12157    1 FNISNDEAYEILkenhQSKVRSTLGNLAIEHSLPALKLQLPFYKTKLSKRELRSFHRPRLQFPPNG-----GPEIVFSKL 75

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  667 KHIKKKakmreqerQASGGGEMFFMRTPQDLTGKD-GDLILAEYSEENGPLMMQVGMATKIKNYYKRKPGKDPGAPDCKY 745
Cdd:pfam12157   76 KHRKKK--------KDKGKDISELFKTTKDLSLRDtSNLVLLEYSEEYPPLLSNFGMGSKLINYYRKKDAKDTSRPKLEI 147

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  746 GETVYC---HTSPF--LGSLHPGQLLQAFENNLFRAPIYLHKMPESDFLIIRTRQG----YFIRELVDIFVVGQQCPLFE 816
Cdd:pfam12157  148 GETHVLdpqDKSPFwnFGSVEPGETVPTLYNNMFRAPIFKHKPKSTDFLLIRSTTGgeskYYLRNIDNLFVVGQTFPVVE 227

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  817 VPGPNSKRANTHIRDFLQVFIYRLFWKSKDRprRIRMEDIKKAFPSHSESSIRKRLKLCADFKRTGMDSNWWVLKSDFRL 896
Cdd:pfam12157  228 VPGPHSRKVTNFSKNRLKMIAYRLFRKSKDG--RIKIEDITKHFPDQNEMQNRQRLKEFMDYQRTGDDQGFWKLKPGDRL 305

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  897 PTEEEIRAMVSPEQCCAYYSMIAAEQRLKDAGYGEKSffAPEEENEEDFQMKIDDEVRTAPWNTTRAFIAAMKGKCLLEV 976
Cdd:pfam12157  306 PDEEEIRKMVTPEDVCLYESMQVGQQRLKDAGYGEKD--APEEEDEDDDESKIELEQQLAPWNTTKNFINATQGKAMLQL 383

                          410       420       430       440       450       460       470
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1039797479  977 TGVADPTGCGEGFSYVKIPNKPTQQKDDKepqpVKKTVTGTDADlRRLSLKNAKQLLRKFGVPEEEIKKLSRWEVIDV 1054
Cdd:pfam12157  384 HGEGDPTGRGEGFSFLRTSMKGGFLKAGE----TKKDVTGTDAD-RKLSGGHSYNVARQQGVYEEEIKRIWRWQKISL 456
TAF1 COG5179
Transcription initiation factor TFIID, subunit TAF1 [Transcription];
496-1316 3.07e-99

Transcription initiation factor TFIID, subunit TAF1 [Transcription];


Pssm-ID: 227506 [Multi-domain]  Cd Length: 968  Bit Score: 344.35  E-value: 3.07e-99
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  496 IDNEDLVYGR--WEDNIIWDAQNMPRILEPPVLTLDPndenlILEIPDEKEEATSNSPSKENKKESSLKKSRILL--GKT 571
Cdd:COG5179    264 VDSIDLLIATddWERYVIVDEADDMKTPRKSFYKLKS-----LTDVDWLYDEDIIDAKLKESKAPLNLNDEKLLLkrQAK 338

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  572 GVIKEEPQQNMSQP--EVKDPWNLSNDEYY----YPKQQGLRGTFGGNIIQHSIPAVELRQPFFPTHMGPIKLRQFHRPP 645
Cdd:COG5179    339 PKKKQQEVFSDDKPlnELKGKFNISNDKYYgilkKTHQSKVRNTLSTLGIQHSLPALRLDPPFYKNNHTKEELRNFHRPR 418

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  646 LkkysfgalsqpgphSVQPLLKHIKKKAKMREQERQaSGGGEMFFMRTPQDLTGKDGD-LILAEYSEENGPLMMQVGMAT 724
Cdd:COG5179    419 F--------------MVRPGSNIVFSTLEARKRNKD-KGKDVQEIIKTAGELTVGDTSpFSLFEYSEEEPFFLSNPGMAS 483

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  725 KIKNYYKRKPGKDPGAPDCKYGETVYCHT---SPF--LGSLHPGQLLQAFENNLFRAPIYLHKMPESDFLIIRTRQG--- 796
Cdd:COG5179    484 LLNNYYRKSNEQDEYRPKLDVGEYHVLDVqdpSPFwnFGDVEPGTIIPTLYNNMIRAPVFKHSSGGTDFLLIVESSNsge 563

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  797 --YFIRELVDIFVVGQQCPLFEVPGPNSKRANTHIRDFLQVFIYRLFWKSKDRPRRIRmeDIKKAFPSHSESSIRKRLKL 874
Cdd:COG5179    564 msLYLRNINHLFCVGQTFPVEEVPGPHSRKVTVFCKNRLKMAAFRLFNSKEGGSLRIS--QLDKHFPDQSEGQKRQWLKE 641

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  875 CADFKRTGMDsNWWVLKSDFRLPTEEEIRAMVSPEQCCAYYSMIAAEQRLKDAGYgEKSFFAPEEENEEdfqmkiddEVR 954
Cdd:COG5179    642 FMDYVKDGPD-GVWVLKPSEALLDEEDLRSLVTPENICQYESMLAGERKLEDSGY-KTVNEDDDEENEE--------EML 711

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  955 TAPWNTTRAFIAAMKGKCLLEVTGVADPTGCGEGFSYVKIP----NKPTQQKDDKEPQPVKKTVTGtdadlrrlslknak 1030
Cdd:COG5179    712 LPPWCLTRNFINATQGRAMLELSGPGDPTGIGEGFSFRKTSmkggFEKSGSPVENRKSSNKKNTHI-------------- 777

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1031 qllrkfgvpeeeikklsrwevidvvrtmsteqarsgegpmskfargsrFSVAEHQERYKEECQRIFDLQNKVLSStevls 1110
Cdd:COG5179    778 ------------------------------------------------YNVAQQQSAYKEEIDRIWSKQLASLSI----- 804

                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1111 tdtdsssaedSDFEEMGKNIEnmlqnkktssqlsrereeqerkelqrmllaagsaaAGNNHRDD-DTASVTSLNSSATGR 1189
Cdd:COG5179    805 ----------VNFEEPFDESF-----------------------------------INRRHREEvKNADLLRETTMLSEK 839

                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1190 CLKIYRTFRDEEGKEYVRCETVRKATVIDAYVRIRTTKDEEFIRKFALFDEQHREEMRKERRRIQEQLRRLKRNQEKEKL 1269
Cdd:COG5179    840 TLLIVRRTRDENGTSYREVERISDPRVIKAYLKARKQDKEDVNKLDTSKINNKEISEKQKKLLQLELANLEKSQQRRAAR 919

                          810       820       830       840
                   ....*....|....*....|....*....|....*....|....*..
gi 1039797479 1270 KGPPEKKPKKMKERPDLKLKCGACGAIGHMRTNKFCPLYYQTNAPPS 1316
Cdd:COG5179    920 QNSKNGSDLAGKGRKNTTRTCGNCGQVGHMKTNKACPKFSSKDNPAS 966
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1533-1645 5.76e-59

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: 198.26  E-value: 5.76e-59
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1533 FSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPE 1612
Cdd:cd05511      1 LSFILDEIVNELKNL-PDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPD 79

                           90       100       110
                   ....*....|....*....|....*....|...
gi 1039797479 1613 SQYTKTAQEIVNVCHQTLTEYDEHLTQLEKDIC 1645
Cdd:cd05511     80 SVYTKKAKEMLELAEELLAEREEKLTQLEKNIN 112
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1411-1522 2.61e-56

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


Pssm-ID: 99943 [Multi-domain]  Cd Length: 112  Bit Score: 190.94  E-value: 2.61e-56
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1411 LSSILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKH 1490
Cdd:cd05511      1 LSFILDEIVNELKNLPDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDS 80

                           90       100       110
                   ....*....|....*....|....*....|..
gi 1039797479 1491 SLTQISQSMLDLCDEKLKEKEDKLARLEKAIN 1522
Cdd:cd05511     81 VYTKKAKEMLELAEELLAEREEKLTQLEKNIN 112
BROMO smart00297
bromo domain;
1526-1633 3.79e-31

bromo domain;


Pssm-ID: 197636 [Multi-domain]  Cd Length: 107  Bit Score: 118.54  E-value: 3.79e-31
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  1526 DDDDQVAFSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANS 1605
Cdd:smart00297    1 DPKLQKKLQELLKAVLDKLDSH-PLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSNA 79

                            90       100
                    ....*....|....*....|....*...
gi 1039797479  1606 VKYNGPESQYTKTAQEIVNVCHQTLTEY 1633
Cdd:smart00297   80 RTYNGPDSEVYKDAKKLEKFFEKKLREL 107
BROMO smart00297
bromo domain;
1404-1509 3.74e-27

bromo domain;


Pssm-ID: 197636 [Multi-domain]  Cd Length: 107  Bit Score: 107.36  E-value: 3.74e-27
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  1404 RTDPMVTLSSILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSA 1483
Cdd:smart00297    1 DPKLQKKLQELLKAVLDKLDSHPLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSNAR 80

                            90       100
                    ....*....|....*....|....*.
gi 1039797479  1484 TYNGPKHSLTQISQSMLDLCDEKLKE 1509
Cdd:smart00297   81 TYNGPDSEVYKDAKKLEKFFEKKLRE 106
COG5076 COG5076
Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin ...
 1430-1643 7.72e-23

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


Pssm-ID: 227408 [Multi-domain]  Cd Length: 371  Bit Score: 102.58  E-value: 7.72e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1430 PFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKE 1509
Cdd:COG5076    168 IFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFLKLIEE 247

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1510 KEDKLARLEKAINPLLDDDDQVAfsfILDNivtqkMMAVPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQ 1589
Cdd:COG5076    248 IPEEMLELSIKPGREEREERESV---LITN-----SQAHVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTKELKLRNNYYR 319

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....
gi 1039797479 1590 SRESFLDDVNLILANSVKYNGPESQYTKtaqeivnvCHQTLTEYDEHLTQLEKD 1643
Cdd:COG5076    320 PEETFVRDAKLFFDNCVMYNGEVTDYYK--------NANVLEDFVIKKTRLIRE 365
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 1541-1621 1.24e-21

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: 90.84  E-value: 1.24e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1541 VTQKMMAVPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQ 1620
Cdd:pfam00439    4 ILDKLMEHPIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLENGEYKSLAEFLADVKLIFSNARTYNGPGSVIYKAAE 83


                   .
gi 1039797479 1621 E 1621
Cdd:pfam00439   84 K 84
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 1415-1497 5.96e-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: 80.05  E-value: 5.96e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1415 LESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQ 1494
Cdd:pfam00439    1 CLEILDKLMEHPIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLENGEYKSLAEFLADVKLIFSNARTYNGPGSVIYK 80


                   ...
gi 1039797479 1495 ISQ 1497
Cdd:pfam00439   81 AAE 83
TBP-binding pfam09247
TATA box-binding protein binding; Members of this family adopt a structure consisting of three ...
 28-86 3.50e-16

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: 74.22  E-value: 3.50e-16
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1039797479   28 EESAGGGPFSLTGFLFGNINGAGQLEGESVLDDECKKHLAGLGALGLGSLITELTANEE 86
Cdd:pfam09247    1 SDSEGGGGLDLTGFLFGNIDEHGQLEDDDILDEESKRHLSSLSKLGLGSFLSEIIDDEE 59
zf-CCHC_6 pfam15288
Zinc knuckle; This Zinc knuckle is found in FAM90A mammalian proteins.
 1287-1322 3.74e-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: 3.74e-13
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1039797479 1287 KLKCGACGAIGHMRTNKFCPLYYQTNAPPSNPVAMT 1322
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 ...
 591-1054 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: 704.31  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  591 WNLSNDEYYYPK----QQGLRGTFGGNIIQHSIPAVELRQPFFPTHMGPIKLRQFHRPPLKKYSFGalsqpGPHSVQPLL 666
Cdd:pfam12157    1 FNISNDEAYEILkenhQSKVRSTLGNLAIEHSLPALKLQLPFYKTKLSKRELRSFHRPRLQFPPNG-----GPEIVFSKL 75

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  667 KHIKKKakmreqerQASGGGEMFFMRTPQDLTGKD-GDLILAEYSEENGPLMMQVGMATKIKNYYKRKPGKDPGAPDCKY 745
Cdd:pfam12157   76 KHRKKK--------KDKGKDISELFKTTKDLSLRDtSNLVLLEYSEEYPPLLSNFGMGSKLINYYRKKDAKDTSRPKLEI 147

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  746 GETVYC---HTSPF--LGSLHPGQLLQAFENNLFRAPIYLHKMPESDFLIIRTRQG----YFIRELVDIFVVGQQCPLFE 816
Cdd:pfam12157  148 GETHVLdpqDKSPFwnFGSVEPGETVPTLYNNMFRAPIFKHKPKSTDFLLIRSTTGgeskYYLRNIDNLFVVGQTFPVVE 227

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  817 VPGPNSKRANTHIRDFLQVFIYRLFWKSKDRprRIRMEDIKKAFPSHSESSIRKRLKLCADFKRTGMDSNWWVLKSDFRL 896
Cdd:pfam12157  228 VPGPHSRKVTNFSKNRLKMIAYRLFRKSKDG--RIKIEDITKHFPDQNEMQNRQRLKEFMDYQRTGDDQGFWKLKPGDRL 305

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  897 PTEEEIRAMVSPEQCCAYYSMIAAEQRLKDAGYGEKSffAPEEENEEDFQMKIDDEVRTAPWNTTRAFIAAMKGKCLLEV 976
Cdd:pfam12157  306 PDEEEIRKMVTPEDVCLYESMQVGQQRLKDAGYGEKD--APEEEDEDDDESKIELEQQLAPWNTTKNFINATQGKAMLQL 383

                          410       420       430       440       450       460       470
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1039797479  977 TGVADPTGCGEGFSYVKIPNKPTQQKDDKepqpVKKTVTGTDADlRRLSLKNAKQLLRKFGVPEEEIKKLSRWEVIDV 1054
Cdd:pfam12157  384 HGEGDPTGRGEGFSFLRTSMKGGFLKAGE----TKKDVTGTDAD-RKLSGGHSYNVARQQGVYEEEIKRIWRWQKISL 456
TAF1 COG5179
Transcription initiation factor TFIID, subunit TAF1 [Transcription];
496-1316 3.07e-99

Transcription initiation factor TFIID, subunit TAF1 [Transcription];


Pssm-ID: 227506 [Multi-domain]  Cd Length: 968  Bit Score: 344.35  E-value: 3.07e-99
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  496 IDNEDLVYGR--WEDNIIWDAQNMPRILEPPVLTLDPndenlILEIPDEKEEATSNSPSKENKKESSLKKSRILL--GKT 571
Cdd:COG5179    264 VDSIDLLIATddWERYVIVDEADDMKTPRKSFYKLKS-----LTDVDWLYDEDIIDAKLKESKAPLNLNDEKLLLkrQAK 338

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  572 GVIKEEPQQNMSQP--EVKDPWNLSNDEYY----YPKQQGLRGTFGGNIIQHSIPAVELRQPFFPTHMGPIKLRQFHRPP 645
Cdd:COG5179    339 PKKKQQEVFSDDKPlnELKGKFNISNDKYYgilkKTHQSKVRNTLSTLGIQHSLPALRLDPPFYKNNHTKEELRNFHRPR 418

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  646 LkkysfgalsqpgphSVQPLLKHIKKKAKMREQERQaSGGGEMFFMRTPQDLTGKDGD-LILAEYSEENGPLMMQVGMAT 724
Cdd:COG5179    419 F--------------MVRPGSNIVFSTLEARKRNKD-KGKDVQEIIKTAGELTVGDTSpFSLFEYSEEEPFFLSNPGMAS 483

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  725 KIKNYYKRKPGKDPGAPDCKYGETVYCHT---SPF--LGSLHPGQLLQAFENNLFRAPIYLHKMPESDFLIIRTRQG--- 796
Cdd:COG5179    484 LLNNYYRKSNEQDEYRPKLDVGEYHVLDVqdpSPFwnFGDVEPGTIIPTLYNNMIRAPVFKHSSGGTDFLLIVESSNsge 563

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  797 --YFIRELVDIFVVGQQCPLFEVPGPNSKRANTHIRDFLQVFIYRLFWKSKDRPRRIRmeDIKKAFPSHSESSIRKRLKL 874
Cdd:COG5179    564 msLYLRNINHLFCVGQTFPVEEVPGPHSRKVTVFCKNRLKMAAFRLFNSKEGGSLRIS--QLDKHFPDQSEGQKRQWLKE 641

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  875 CADFKRTGMDsNWWVLKSDFRLPTEEEIRAMVSPEQCCAYYSMIAAEQRLKDAGYgEKSFFAPEEENEEdfqmkiddEVR 954
Cdd:COG5179    642 FMDYVKDGPD-GVWVLKPSEALLDEEDLRSLVTPENICQYESMLAGERKLEDSGY-KTVNEDDDEENEE--------EML 711

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  955 TAPWNTTRAFIAAMKGKCLLEVTGVADPTGCGEGFSYVKIP----NKPTQQKDDKEPQPVKKTVTGtdadlrrlslknak 1030
Cdd:COG5179    712 LPPWCLTRNFINATQGRAMLELSGPGDPTGIGEGFSFRKTSmkggFEKSGSPVENRKSSNKKNTHI-------------- 777

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1031 qllrkfgvpeeeikklsrwevidvvrtmsteqarsgegpmskfargsrFSVAEHQERYKEECQRIFDLQNKVLSStevls 1110
Cdd:COG5179    778 ------------------------------------------------YNVAQQQSAYKEEIDRIWSKQLASLSI----- 804

                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1111 tdtdsssaedSDFEEMGKNIEnmlqnkktssqlsrereeqerkelqrmllaagsaaAGNNHRDD-DTASVTSLNSSATGR 1189
Cdd:COG5179    805 ----------VNFEEPFDESF-----------------------------------INRRHREEvKNADLLRETTMLSEK 839

                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1190 CLKIYRTFRDEEGKEYVRCETVRKATVIDAYVRIRTTKDEEFIRKFALFDEQHREEMRKERRRIQEQLRRLKRNQEKEKL 1269
Cdd:COG5179    840 TLLIVRRTRDENGTSYREVERISDPRVIKAYLKARKQDKEDVNKLDTSKINNKEISEKQKKLLQLELANLEKSQQRRAAR 919

                          810       820       830       840
                   ....*....|....*....|....*....|....*....|....*..
gi 1039797479 1270 KGPPEKKPKKMKERPDLKLKCGACGAIGHMRTNKFCPLYYQTNAPPS 1316
Cdd:COG5179    920 QNSKNGSDLAGKGRKNTTRTCGNCGQVGHMKTNKACPKFSSKDNPAS 966
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1533-1645 5.76e-59

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: 198.26  E-value: 5.76e-59
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1533 FSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPE 1612
Cdd:cd05511      1 LSFILDEIVNELKNL-PDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPD 79

                           90       100       110
                   ....*....|....*....|....*....|...
gi 1039797479 1613 SQYTKTAQEIVNVCHQTLTEYDEHLTQLEKDIC 1645
Cdd:cd05511     80 SVYTKKAKEMLELAEELLAEREEKLTQLEKNIN 112
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 1411-1522 2.61e-56

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


Pssm-ID: 99943 [Multi-domain]  Cd Length: 112  Bit Score: 190.94  E-value: 2.61e-56
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1411 LSSILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKH 1490
Cdd:cd05511      1 LSFILDEIVNELKNLPDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDS 80

                           90       100       110
                   ....*....|....*....|....*....|..
gi 1039797479 1491 SLTQISQSMLDLCDEKLKEKEDKLARLEKAIN 1522
Cdd:cd05511     81 VYTKKAKEMLELAEELLAEREEKLTQLEKNIN 112
BROMO smart00297
bromo domain;
1526-1633 3.79e-31

bromo domain;


Pssm-ID: 197636 [Multi-domain]  Cd Length: 107  Bit Score: 118.54  E-value: 3.79e-31
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  1526 DDDDQVAFSFILDNIVTQKMMAvPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANS 1605
Cdd:smart00297    1 DPKLQKKLQELLKAVLDKLDSH-PLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSNA 79

                            90       100
                    ....*....|....*....|....*...
gi 1039797479  1606 VKYNGPESQYTKTAQEIVNVCHQTLTEY 1633
Cdd:smart00297   80 RTYNGPDSEVYKDAKKLEKFFEKKLREL 107
BROMO smart00297
bromo domain;
1404-1509 3.74e-27

bromo domain;


Pssm-ID: 197636 [Multi-domain]  Cd Length: 107  Bit Score: 107.36  E-value: 3.74e-27
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479  1404 RTDPMVTLSSILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSA 1483
Cdd:smart00297    1 DPKLQKKLQELLKAVLDKLDSHPLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSNAR 80

                            90       100
                    ....*....|....*....|....*.
gi 1039797479  1484 TYNGPKHSLTQISQSMLDLCDEKLKE 1509
Cdd:smart00297   81 TYNGPDSEVYKDAKKLEKFFEKKLRE 106
Bromodomain cd04369
Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear ...
 1529-1630 4.87e-27

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: 106.69  E-value: 4.87e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1529 DQVAFSFILDNIVTQKMmavPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKY 1608
Cdd:cd04369      1 LKKKLRSLLDALKKLKR---DLSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEADVRLIFSNAKTY 77

                           90       100
                   ....*....|....*....|..
gi 1039797479 1609 NGPESQYTKTAQEIVNVCHQTL 1630
Cdd:cd04369     78 NGPGSPIYKDAKKLEKLFEKLL 99
Bromo_gcn5_like cd05509
Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates ...
 1549-1633 8.79e-26

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: 103.02  E-value: 8.79e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1549 PDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCHQ 1628
Cdd:cd05509     17 KSAWPFLEPVDKEEAPDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDTEYYKCANKLEKFFWK 96


                   ....*
gi 1039797479 1629 TLTEY 1633
Cdd:cd05509     97 KLKEL 101
Bromodomain cd04369
Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear ...
 1411-1507 5.02e-24

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: 98.21  E-value: 5.02e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1411 LSSILESIINDMRDLpnTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKH 1490
Cdd:cd04369      5 LRSLLDALKKLKRDL--SEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEADVRLIFSNAKTYNGPGS 82

                           90
                   ....*....|....*..
gi 1039797479 1491 SLTQISQSMLDLCDEKL 1507
Cdd:cd04369     83 PIYKDAKKLEKLFEKLL 99
COG5076 COG5076
Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin ...
 1430-1643 7.72e-23

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


Pssm-ID: 227408 [Multi-domain]  Cd Length: 371  Bit Score: 102.58  E-value: 7.72e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1430 PFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKE 1509
Cdd:COG5076    168 IFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFLKLIEE 247

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1510 KEDKLARLEKAINPLLDDDDQVAfsfILDNivtqkMMAVPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQ 1589
Cdd:COG5076    248 IPEEMLELSIKPGREEREERESV---LITN-----SQAHVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTKELKLRNNYYR 319

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....
gi 1039797479 1590 SRESFLDDVNLILANSVKYNGPESQYTKtaqeivnvCHQTLTEYDEHLTQLEKD 1643
Cdd:COG5076    320 PEETFVRDAKLFFDNCVMYNGEVTDYYK--------NANVLEDFVIKKTRLIRE 365
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 1541-1621 1.24e-21

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: 90.84  E-value: 1.24e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1541 VTQKMMAVPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQ 1620
Cdd:pfam00439    4 ILDKLMEHPIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLENGEYKSLAEFLADVKLIFSNARTYNGPGSVIYKAAE 83


                   .
gi 1039797479 1621 E 1621
Cdd:pfam00439   84 K 84
COG5076 COG5076
Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin ...
 1441-1625 1.07e-20

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


Pssm-ID: 227408 [Multi-domain]  Cd Length: 371  Bit Score: 96.41  E-value: 1.07e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1441 KDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNsaTYNGPKhslTQISQSMLDLCDEKLKEKEDKLARLEKA 1520
Cdd:COG5076     46 KNLFQKQLKRMPKEYITSIVDDREPGSMANVNDDLENVGGI--TYSPFE---KNRPESLRFDEIVFLAIESVTPESGLGS 120

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1521 INPLLDDDDQV--------AFSFILDNIVTQKMM-------AVPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISK 1585
Cdd:COG5076    121 LLMAHLKTSVKkrktpkieDELLYADNKAIAKFKkqlflrdGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKN 200

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|
gi 1039797479 1586 HKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNV 1625
Cdd:COG5076    201 GRYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKY 240
Bromo_RACK7 cd05508
Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) ...
 1542-1628 3.78e-20

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: 87.05  E-value: 3.78e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1542 TQKMMAVPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQE 1621
Cdd:cd05508     11 ALERMKQPGAEPFLKPVDLEQFPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNAIIYNGGDHKLTQAAKA 90


                   ....*..
gi 1039797479 1622 IVNVCHQ 1628
Cdd:cd05508     91 IVKICEQ 97
Bromo_BAZ2A_B_like cd05503
Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B ...
 1533-1613 9.87e-20

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: 85.89  E-value: 9.87e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1533 FSFILDNIVTQkmmavPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPE 1612
Cdd:cd05503      5 CETILDEMEAH-----EDAWPFLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFNEDD 79


                   .
gi 1039797479 1613 S 1613
Cdd:cd05503     80 S 80
Bromo_gcn5_like cd05509
Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates ...
 1415-1509 1.12e-19

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: 85.68  E-value: 1.12e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1415 LESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQ 1494
Cdd:cd05509      6 LKKVLDSLKNHKSAWPFLEPVDKEEAPDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDTEYYK 85

                           90
                   ....*....|....*
gi 1039797479 1495 ISQSMLDLCDEKLKE 1509
Cdd:cd05509     86 CANKLEKFFWKKLKE 100
Bromo_SPT7_like cd05510
Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the ...
 1537-1613 1.79e-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: 1.79e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1039797479 1537 LDNIVTQKMMAVPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 1613
Cdd:cd05510     12 LDKVLNELKTYTEHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWKNCLLYNSDPS 88
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 1415-1497 5.96e-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: 80.05  E-value: 5.96e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1415 LESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQ 1494
Cdd:pfam00439    1 CLEILDKLMEHPIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLENGEYKSLAEFLADVKLIFSNARTYNGPGSVIYK 80


                   ...
gi 1039797479 1495 ISQ 1497
Cdd:pfam00439   81 AAE 83
Bromo_WSTF_like cd05505
Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The ...
 1541-1625 3.53e-17

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: 78.35  E-value: 3.53e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1541 VTQKMMAVPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES----QYT 1616
Cdd:cd05505      8 ILSKILKYRFSWPFREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYYENGSyvlsCMR 87


                   ....*....
gi 1039797479 1617 KTAQEIVNV 1625
Cdd:cd05505     88 KTEQCCVNL 96
Bromo_Acf1_like cd05504
Bromodomain; Acf1_like or BAZ1A_like subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was ...
 1549-1613 3.72e-17

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: 78.98  E-value: 3.72e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1039797479 1549 PDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 1613
Cdd:cd05504     28 KDSWPFLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLVFSNCFLYNPEHT 92
Bromo_SPT7_like cd05510
Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the ...
 1415-1513 2.18e-16

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: 76.71  E-value: 2.18e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1415 LESIINDMRDL-PNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNG-PKHSL 1492
Cdd:cd05510     12 LDKVLNELKTYtEHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWKNCLLYNSdPSHPL 91

                           90       100
                   ....*....|....*....|.
gi 1039797479 1493 TQISQSMLDLCDEKLKEKEDK 1513
Cdd:cd05510     92 RRHANFMKKKAEHLLKLIPDI 112
TBP-binding pfam09247
TATA box-binding protein binding; Members of this family adopt a structure consisting of three ...
 28-86 3.50e-16

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: 74.22  E-value: 3.50e-16
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1039797479   28 EESAGGGPFSLTGFLFGNINGAGQLEGESVLDDECKKHLAGLGALGLGSLITELTANEE 86
Cdd:pfam09247    1 SDSEGGGGLDLTGFLFGNIDEHGQLEDDDILDEESKRHLSSLSKLGLGSFLSEIIDDEE 59
Bromo_BDF1_2_I cd05500
Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast ...
 1535-1622 4.25e-16

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: 75.43  E-value: 4.25e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1535 FILDNIVTQKMMavPDSWPFHHPVN--KKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPE 1612
Cdd:cd05500      8 FLLSSIRSLKRL--KDARPFLVPVDpvKLNIPHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTFNGPE 85

                           90
                   ....*....|
gi 1039797479 1613 SQYTKTAQEI 1622
Cdd:cd05500     86 HPVSQMGKRL 95
Bromo_brd7_like cd05513
Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown ...
 1536-1625 4.48e-16

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: 75.52  E-value: 4.48e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1536 ILDNIVTQKMMAVPDSWpFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQY 1615
Cdd:cd05513      5 ALEQLIRQLQRKDPHGF-FAFPVTDFIAPGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYNKPDTIY 83

                           90
                   ....*....|
gi 1039797479 1616 TKTAQEIVNV 1625
Cdd:cd05513     84 YKAAKKLLHS 93
Bromo_BAZ2A_B_like cd05503
Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B ...
 1416-1486 5.16e-16

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: 75.10  E-value: 5.16e-16
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1039797479 1416 ESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYN 1486
Cdd:cd05503      6 ETILDEMEAHEDAWPFLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFN 76
Bromo_RACK7 cd05508
Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) ...
 1411-1507 5.87e-16

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: 75.11  E-value: 5.87e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1411 LSSILESIINDMRdLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKH 1490
Cdd:cd05508      4 LSKLLKFALERMK-QPGAEPFLKPVDLEQFPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNAIIYNGGDH 82

                           90
                   ....*....|....*..
gi 1039797479 1491 SLTQISQSMLDLCDEKL 1507
Cdd:cd05508     83 KLTQAAKAIVKICEQEM 99
Bromo_Brdt_I_like cd05497
Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET ...
 1551-1632 6.58e-16

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: 75.15  E-value: 6.58e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1551 SWPFHHPVN--KKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCHQ 1628
Cdd:cd05497     23 AWPFQQPVDavKLNLPDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLEKLFLQ 102


                   ....
gi 1039797479 1629 TLTE 1632
Cdd:cd05497    103 KLAQ 106
Bromo_WDR9_I_like cd05529
Bromodomain; WDR9 repeat I_like subfamily. WDR9 is a human gene located in the Down Syndrome ...
 1526-1632 1.27e-15

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: 75.07  E-value: 1.27e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1526 DDDDQVAfsfILDNIVTQKMMAVPDSW--PFHHPVNKK-FVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLIL 1602
Cdd:cd05529     21 IRDEERE---RLISGLDKLLLSLQLEIaeYFEYPVDLRaWYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLIL 97

                           90       100       110
                   ....*....|....*....|....*....|
gi 1039797479 1603 ANSVKYNGPESQYTKTAQEIVNVCHQTLTE 1632
Cdd:cd05529     98 SNAETFNEPNSEIAKKAKRLSDWLLRILSS 127
Bromo_plant1 cd05506
Bromodomain, uncharacterized subfamily specific to plants. Might function as a global ...
 1544-1622 2.45e-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: 73.13  E-value: 2.45e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1544 KMMAVPDSWPFHHPVNKKF--VPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQE 1621
Cdd:cd05506     11 KLMKHKWGWVFNAPVDVVAlgLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPPGNDVHTMAKE 90


                   .
gi 1039797479 1622 I 1622
Cdd:cd05506     91 L 91
Bromo_AAA cd05528
Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long ...
 1553-1610 1.30e-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: 71.62  E-value: 1.30e-14
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1039797479 1553 PFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNG 1610
Cdd:cd05528     23 AFTKPVDEEEVPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYNP 80
Bromo_brd1_like cd05512
Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein ...
 1554-1619 1.87e-14

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: 70.89  E-value: 1.87e-14
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039797479 1554 FHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTA 1619
Cdd:cd05512     22 FSEPVDLSEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNAKDTIFYRAA 87
Bromo_BDF1_2_II cd05499
Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast ...
 1536-1633 3.35e-14

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: 70.01  E-value: 3.35e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1536 ILDNIVTQKMMAVpdSWPFHHPVNKKF--VPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPes 1613
Cdd:cd05499      8 VLKELMKPKHSAY--NWPFLDPVDPVAlnIPNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFNPE-- 83

                           90       100
                   ....*....|....*....|
gi 1039797479 1614 qytktaQEIVNVCHQTLTEY 1633
Cdd:cd05499     84 ------GTDVYMMGHQLEEV 97
Bromo_tif1_like cd05502
Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of ...
 1550-1633 3.54e-14

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: 70.40  E-value: 3.54e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1550 DSWPFHHPVnKKFVPDYYKVIVSPMDLETIRKNI---SKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVC 1626
Cdd:cd05502     21 LSLPFHEPV-SPSVPNYYKIIKTPMDLSLIRKKLqpkSPQHYSSPEEFVADVRLMFKNCYKFNEEDSEVAQAGKELELFF 99


                   ....*..
gi 1039797479 1627 HQTLTEY 1633
Cdd:cd05502    100 EEQLKEI 106
Bromo_Acf1_like cd05504
Bromodomain; Acf1_like or BAZ1A_like subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was ...
 1400-1491 1.25e-13

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: 68.96  E-value: 1.25e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1400 IHRRRT-DPMVTLSSILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELI 1478
Cdd:cd05504      1 RRRSEGrHHGPLNLSALEQLLVEIVKHKDSWPFLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLV 80

                           90
                   ....*....|...
gi 1039797479 1479 VKNSATYNgPKHS 1491
Cdd:cd05504     81 FSNCFLYN-PEHT 92
Bromo_Brdt_II_like cd05498
Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET ...
 1417-1490 2.38e-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: 67.69  E-value: 2.38e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1039797479 1417 SIINDMRDLPNT---YPFHTPVNAKVVK--DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKH 1490
Cdd:cd05498      7 GILKELFSKKHKayaWPFYKPVDPEALGlhDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYNPPDH 85
Bromo_Brdt_II_like cd05498
Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET ...
 1552-1611 2.95e-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: 67.30  E-value: 2.95e-13
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1039797479 1552 WPFHHPVN--KKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGP 1611
Cdd:cd05498     22 WPFYKPVDpeALGLHDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYNPP 83
Bromo_Rsc1_2_II cd05522
Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 1560-1621 3.30e-13

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: 67.27  E-value: 3.30e-13
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1039797479 1560 KKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQE 1621
Cdd:cd05522     34 KAREPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAKLYNENDSQEYKDAVL 95
zf-CCHC_6 pfam15288
Zinc knuckle; This Zinc knuckle is found in FAM90A mammalian proteins.
 1287-1322 3.74e-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: 3.74e-13
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1039797479 1287 KLKCGACGAIGHMRTNKFCPLYYQTNAPPSNPVAMT 1322
Cdd:pfam15288    1 RVKCKNCGAFGHTARSKRCPIKCWNGALVPQPLGSK 36
Bromo_plant1 cd05506
Bromodomain, uncharacterized subfamily specific to plants. Might function as a global ...
 1416-1506 6.93e-13

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: 66.20  E-value: 6.93e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1416 ESIINDMRDLPNTYPFHTPVNAKV--VKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLT 1493
Cdd:cd05506      6 GTLLRKLMKHKWGWVFNAPVDVVAlgLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPPGNDVH 85

                           90
                   ....*....|...
gi 1039797479 1494 QISQSMLDLCDEK 1506
Cdd:cd05506     86 TMAKELLKIFETR 98
Bromo_polybromo_V cd05515
Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which ...
 1559-1619 1.15e-12

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: 65.79  E-value: 1.15e-12
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1039797479 1559 NKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTA 1619
Cdd:cd05515     32 SKSEYPDYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNACKYNEPDSQIYKDA 92
Bromo_cbp_like cd05495
Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase ...
 1549-1625 1.36e-12

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: 65.93  E-value: 1.36e-12
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1039797479 1549 PDSWPFHHPVNKKF--VPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNV 1625
Cdd:cd05495     20 PESLPFRQPVDPKLlgIPDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLYNRKTSRVYKYCTKLAEV 98
Bromo_polybromo_IV cd05518
Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which ...
 1560-1614 2.17e-12

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: 65.16  E-value: 2.17e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1039797479 1560 KKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQ 1614
Cdd:cd05518     33 KKDYPDYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNARHYNEEGSQ 87
Bromo_BDF1_2_I cd05500
Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast ...
 1417-1494 5.48e-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: 63.87  E-value: 5.48e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1417 SIINDMRDLPNTYPFHTPVNAkvVK----DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSL 1492
Cdd:cd05500     11 SSIRSLKRLKDARPFLVPVDP--VKlnipHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTFNGPEHPV 88


                   ..
gi 1039797479 1493 TQ 1494
Cdd:cd05500     89 SQ 90
Bromo_Brdt_I_like cd05497
Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET ...
 1411-1509 7.60e-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: 63.59  E-value: 7.60e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1411 LSSILESIINDMRDLPNTYPFHTPVNAkvVK----DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYN 1486
Cdd:cd05497      6 LQYLLKVVLKALWKHKFAWPFQQPVDA--VKlnlpDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIYN 83

                           90       100
                   ....*....|....*....|...
gi 1039797479 1487 GPKHSLTQISQSMLDLCDEKLKE 1509
Cdd:cd05497     84 KPGDDVVLMAQTLEKLFLQKLAQ 106
Bromo_AAA cd05528
Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long ...
 1411-1499 1.88e-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: 62.76  E-value: 1.88e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1411 LSSILESIINDMRDLPntypFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKH 1490
Cdd:cd05528      8 LRDVLKRLASDKRFNA----FTKPVDEEEVPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYNPDRD 83


                   ....*....
gi 1039797479 1491 SLTQISQSM 1499
Cdd:cd05528     84 PADKLIRSR 92
Bromo_WSTF_like cd05505
Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The ...
 1416-1498 2.44e-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: 61.78  E-value: 2.44e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1416 ESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGP-KHSLTQ 1494
Cdd:cd05505      6 EEILSKILKYRFSWPFREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYYENgSYVLSC 85


                   ....
gi 1039797479 1495 ISQS 1498
Cdd:cd05505     86 MRKT 89
Bromo_tif1_like cd05502
Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of ...
 1430-1509 5.15e-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: 61.15  E-value: 5.15e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1430 PFHTPVnAKVVKDYYKIITRPMDLQTlrenVRKRL-------YPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDL 1502
Cdd:cd05502     24 PFHEPV-SPSVPNYYKIIKTPMDLSL----IRKKLqpkspqhYSSPEEFVADVRLMFKNCYKFNEEDSEVAQAGKELELF 98


                   ....*..
gi 1039797479 1503 CDEKLKE 1509
Cdd:cd05502     99 FEEQLKE 105
Bromo_polybromo_III cd05520
Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which ...
 1548-1619 5.51e-11

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: 61.20  E-value: 5.51e-11
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1039797479 1548 VPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTA 1619
Cdd:cd05520     21 QLLAEPFLKLPSKRKYPDYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYNVPNSRIYKDA 92
Bromo_brd8_like cd05507
Bromodomain, brd8_like subgroup. In mammals, brd8 (bromodomain containing 8) interacts with ...
 1553-1626 1.50e-10

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: 59.69  E-value: 1.50e-10
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1039797479 1553 PFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVC 1626
Cdd:cd05507     23 VFLKPVTEDIAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYNSSDHDVYLMAVEMQREV 96
Bromodomain_1 cd05494
Bromodomain; uncharacterized subfamily. Bromodomains are found in many chromatin-associated ...
 1543-1637 1.96e-10

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: 59.76  E-value: 1.96e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1543 QKMMAVPDSWPFHHPVNKKF--VPDYYKVIVSPMDLETIRKNISK-------HKYQSRESFLDDVNLILANSvkynGPES 1613
Cdd:cd05494     13 KRHRRNEDAWPFLEPVNPPRrgAPDYRDVIKRPMSFGTKVNNIVEtgardleDLQIVQEDPADKQIDDEGRR----SPSN 88

                           90       100
                   ....*....|....*....|....*.
gi 1039797479 1614 QYTKTA--QEIVNVCHQTLTEYDEHL 1637
Cdd:cd05494     89 IYAVEAleQLIVFQCKQVKGLKQKRH 114
Bromo_brd1_like cd05512
Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein ...
 1409-1487 3.27e-10

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: 58.56  E-value: 3.27e-10
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1039797479 1409 VTLSSILESIinDMRDLPNTypFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNG 1487
Cdd:cd05512      4 VLLRKTLDQL--QEKDTAEI--FSEPVDLSEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNA 78
Bromo_BDF1_2_II cd05499
Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast ...
 1416-1490 8.84e-10

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: 57.68  E-value: 8.84e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1416 ESIINDMRDLPNT---YPFHTPVN--AKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKH 1490
Cdd:cd05499      6 EEVLKELMKPKHSaynWPFLDPVDpvALNIPNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFNPEGT 85
Bromo_ASH1 cd05525
Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the ...
 1531-1620 9.06e-10

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: 57.78  E-value: 9.06e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1531 VAFSFILDNIVTQKM-MAVPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYN 1609
Cdd:cd05525      5 QVLKEICDAIITYKDsNGQSLAIPFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRNAEKYY 84

                           90
                   ....*....|.
gi 1039797479 1610 GPESQYTKTAQ 1620
Cdd:cd05525     85 GRKSPIGRDVC 95
Bromo_SNF2L2 cd05516
Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI ...
 1553-1614 1.58e-09

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: 57.05  E-value: 1.58e-09
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1039797479 1553 PFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQ 1614
Cdd:cd05516     27 VFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNAQTFNLEGSL 88
Bromo_WDR9_II cd05496
Bromodomain; WDR9 repeat II_like subfamily. WDR9 is a human gene located in the Down Syndrome ...
 1540-1609 2.00e-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: 57.08  E-value: 2.00e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1540 IVTQKMMAVPDSWPFHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYN 1609
Cdd:cd05496     12 ELVNLMWDCEDSEPFRQPVDLLKYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSNSKSYT 81
Bromo_polybromo_I cd05524
Bromodomain, polybromo repeat I. Polybromo is a nuclear protein of unknown function, which ...
 1560-1635 4.19e-09

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: 56.19  E-value: 4.19e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039797479 1560 KKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCHQTLTEYDE 1635
Cdd:cd05524     35 RRNEPEYYEVVSNPIDLLKIQQKLKTEEYDDVDDLTADFELLINNAKAYYKPDSPEHKDACKLWELFLSARNEVLS 110
Bromo_brd7_like cd05513
Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown ...
 1431-1488 1.14e-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: 54.34  E-value: 1.14e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1039797479 1431 FHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGP 1488
Cdd:cd05513     22 FAFPVTDFIAPGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYNKP 79
Bromo_WDR9_II cd05496
Bromodomain; WDR9 repeat II_like subfamily. WDR9 is a human gene located in the Down Syndrome ...
 1418-1491 1.26e-08

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: 54.77  E-value: 1.26e-08
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1039797479 1418 IINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHS 1491
Cdd:cd05496     13 LVNLMWDCEDSEPFRQPVDLLKYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSNSKSYTPNKRS 86
Bromo_SNF2 cd05519
Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in ...
 1554-1609 3.86e-08

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: 53.11  E-value: 3.86e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1039797479 1554 FHHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYN 1609
Cdd:cd05519     27 FLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANARTYN 82
Bromo_cbp_like cd05495
Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase ...
 1423-1486 4.37e-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: 52.83  E-value: 4.37e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039797479 1423 RDLPNTYPFHTPVNAKV--VKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYN 1486
Cdd:cd05495     17 KQDPESLPFRQPVDPKLlgIPDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLYN 82
Bromo_polybromo_II cd05517
Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which ...
 1560-1622 5.88e-07

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: 49.74  E-value: 5.88e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1039797479 1560 KKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEI 1622
Cdd:cd05517     33 KVLYPDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDLMVKNAKTFNEPGSQVYKDANAI 95
Bromo_SNF2L2 cd05516
Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI ...
 1411-1486 6.68e-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: 49.73  E-value: 6.68e-07
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039797479 1411 LSSILESIINDMRDLPNtyPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYN 1486
Cdd:cd05516     10 VDVVIKYKDSDGRQLAE--VFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNAQTFN 83
Bromo_WDR9_I_like cd05529
Bromodomain; WDR9 repeat I_like subfamily. WDR9 is a human gene located in the Down Syndrome ...
 1416-1509 2.04e-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: 48.87  E-value: 2.04e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1416 ESIINDMR------DLPNTYPFHTPVNAKV-VKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGP 1488
Cdd:cd05529     27 ERLISGLDklllslQLEIAEYFEYPVDLRAwYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLILSNAETFNEP 106

                           90       100
                   ....*....|....*....|.
gi 1039797479 1489 KHSLTQISQSMLDLCDEKLKE 1509
Cdd:cd05529    107 NSEIAKKAKRLSDWLLRILSS 127
Bromo_Rsc1_2_I cd05521
Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 1554-1620 2.25e-06

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: 48.09  E-value: 2.25e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1039797479 1554 FHHPVNKKFVPDYYKVIVSPMDLETIRKNISkhKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQ 1620
Cdd:cd05521     28 FNVLPLRKDYPDYYKIIKNPLSLNTVKKRLP--HYTNAQEFVNDLAQIPWNARLYNTKGSVIYKYAL 92
Bromo_SNF2 cd05519
Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in ...
 1431-1486 6.27e-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: 46.56  E-value: 6.27e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1039797479 1431 FHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYN 1486
Cdd:cd05519     27 FLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANARTYN 82
Bromo_polybromo_IV cd05518
Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which ...
 1438-1486 7.50e-06

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: 46.28  E-value: 7.50e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1039797479 1438 KVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYN 1486
Cdd:cd05518     34 KDYPDYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNARHYN 82
Bromo_ZMYND11 cd05492
Bromodomain; ZMYND11_like sub-family. ZMYND11 or BS69 is a ubiquitously expressed nuclear ...
 1564-1632 1.72e-05

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: 45.45  E-value: 1.72e-05
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1564 PDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVN-VCHQtLTE 1632
Cdd:cd05492     37 PKRRRLIHTHLDVADIQEKINSEKYTSLEEFKADALLLLHNTAIFHGADSEQYDAARWLYRdTCHD-LRE 105
Bromo_polybromo_III cd05520
Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which ...
 1442-1507 2.00e-05

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: 45.02  E-value: 2.00e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039797479 1442 DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKL 1507
Cdd:cd05520     38 DYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYNVPNSRIYKDAEKLQKLMQAKK 103
Bromo_polybromo_V cd05515
Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which ...
 1442-1488 2.61e-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: 44.99  E-value: 2.61e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 1039797479 1442 DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGP 1488
Cdd:cd05515     38 DYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNACKYNEP 84
Bromo_brd8_like cd05507
Bromodomain, brd8_like subgroup. In mammals, brd8 (bromodomain containing 8) interacts with ...
 1426-1490 3.08e-05

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: 44.66  E-value: 3.08e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1039797479 1426 PNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKH 1490
Cdd:cd05507     19 RYASVFLKPVTEDIAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYNSSDH 83
Bromo_Rsc1_2_II cd05522
Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 1442-1486 1.74e-04

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: 42.61  E-value: 1.74e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 1039797479 1442 DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYN 1486
Cdd:cd05522     39 EYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAKLYN 83
Bromo_ASH1 cd05525
Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the ...
 1430-1489 2.67e-04

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: 41.99  E-value: 2.67e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1430 PFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPK 1489
Cdd:cd05525     28 PFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRNAEKYYGRK 87
Bromo_polybromo_II cd05517
Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which ...
 1442-1488 5.78e-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: 40.89  E-value: 5.78e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 1039797479 1442 DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGP 1488
Cdd:cd05517     38 DYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDLMVKNAKTFNEP 84
Bromo_TBP7_like cd05491
Bromodomain; TBP7_like subfamily, limited to fungi. TBP7, or TAT-binding protein homolog 7, is ...
 1492-1625 9.03e-04

Bromodomain; TBP7_like subfamily, limited to fungi. TBP7, or TAT-binding protein homolog 7, is a yeast protein of unknown function that contains AAA-superfamily ATP-ase domains and a bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.


Pssm-ID: 99923  Cd Length: 119  Bit Score: 40.90  E-value: 9.03e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039797479 1492 LTQISQSMLDLCDeKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKMMAVPDSWPFHHpvnkkfvpdyykviv 1571
Cdd:cd05491      1 LKKFRQPIIDELQ-RKYLKFEKPPTEDAFVRPDNENNEERPYEIAKDKQGVDTILETASGKKFYN--------------- 64

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1039797479 1572 spMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPEsqYTKTAQEIV-NV 1625
Cdd:cd05491     65 --MDLDTIEERLWNGYYATPKDFLKDIKRIVRDAKTIGDRE--RLLKANEMFaNA 115
Bromo_SP100C_like cd05501
Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major ...
 1555-1609 1.24e-03

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: 40.10  E-value: 1.24e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1039797479 1555 HHPVNKKFVPDYYKVIVSPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYN 1609
Cdd:cd05501     22 FFISKPYYIRDYCQGIKEPMWLNKVKERLNERVYHTVEGFVRDMRLIFHNHKLFY 76
Bromo_SP100C_like cd05501
Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major ...
 1440-1486 1.87e-03

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: 39.72  E-value: 1.87e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 1039797479 1440 VKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYN 1486
Cdd:cd05501     30 IRDYCQGIKEPMWLNKVKERLNERVYHTVEGFVRDMRLIFHNHKLFY 76
Bromo_Rsc1_2_I cd05521
Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 1431-1489 3.17e-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: 38.84  E-value: 3.17e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1039797479 1431 FHTPVNAKVVKDYYKIITRPMDLQTlrenVRKRL--YPSREEFREHLELIVKNSATYNGPK 1489
Cdd:cd05521     28 FNVLPLRKDYPDYYKIIKNPLSLNT----VKKRLphYTNAQEFVNDLAQIPWNARLYNTKG 84
 
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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