Citrus Sinensis ID: 007651

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590----
Protein Sequence
MGFVFRERRLFLVRIQQITTKGLSWNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSDVTLASGAENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDEVSLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVGLPSSSQPSLIPENLSSASTHSTIELKGDKLTERPEAEDSSEKPGPSTQSSLDGHFKKPNTSSLLVVNRFSEPAKEKAEIIEGLKSQLNLVNSSMGAINTRPPFQIHQNSVIRPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPVTASSLNSDDPKLDCSRSLQNLESLGSAPSLPGNHQPTWQVSPHPKPDLGLTPQQKPDAVPPDLNVRFRSPGSPNSSRVDSTQPDLALQL
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccccccccccccccccccccccccHHHHHHHHHccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEcccccccHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEccEEEEEEEEEcccccccHcccHHHHHHHHcccccccccccccHHHcccHHHHccccccHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHccccccHHHHHHHccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccEcEcccccccccccccccccccccccccccHHHHHEcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccEEcccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccccccccccHHccccccccccEcccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccHHHHccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccEEEEcccccccccccccccccEEcc
Coil and Loop (DISEMBL)
MGFVFRERRLFLVRIQQITtkglswnwdpqrlyQIKSyccsssidfkmdpeelpdyceviehpmdfgtvrnklanGAYATLEQFEKDVFLICSNamqynapdtiyFRQARSIHELAKKNFENlrqdsddnepetkvvrrgrpptknfkkplgrpslerarsdfssdvtlasgaentaltnrdlgngtphleksgftdssrrfsgswndlytgclaenklerndevslskgysmkhgkkqvvldenrrNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERclpagvrfgpgwvvendlapqrplllssatvglpsssqpslipenlssasthstielkgdklterpeaedssekpgpstqssldghfkkpntssllvvnrfsepakEKAEIIEGLKSQLNLVNssmgaintrppfqihqnsvirpgmngfngtygfnmpsqmgkligaagpagfsfqspqmvdrisrtdtnfvqpvtasslnsddpkldcSRSLQnleslgsapslpgnhqptwqvsphpkpdlgltpqqkpdavppdlnvrfrspgspnssrvdstqpdlalql
Flexible Loop (DISEMBL)
mgfvfrerrlFLVRIQQIttkglswnwdpqRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNfenlrqdsddnepetkvvrrgrpptknfkkplgrpslerarsdfssdvtlasgaentaltnrdlgngtphleksgftdssrrfSGSWNDLYTGCLAENKLERNDEVslskgysmkhgkkqvvldenRRNTYKQFhqslressvltTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVGLPSSSQPslipenlssasthstielkgdklterpeaedssekpgpstqssldghfkkpnTSSLLVVNRFSEPAKEKAEIIEGLKSQLNLVNSSMGAINTRPPFQIHQNSVIRPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPvtasslnsddpkLDCSRSLQNLESLGSAPSLPGNHQPTWQVSPHPKPDLGLTPQQKPDAVPPDLNVRfrspgspnssrvdstqpdlalql
Low Complexity Region (SEG)
MGfvfrerrlflvrIQQITTKGLSWNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSDVTLASGAENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDEVSLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVGLPSSSQPSLIPENLSSASTHSTIELKGDKLTERPEAEDSSEKPGPSTQSSLDGHFKKPNTSSLLVVNRFSEPAKEKAEIIEGLKSQLNLVNSSMGAINTRPPFQIHQNSVIRPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPVTASSLNSDDPKLDCSRSLQNLESLGSAPSLPGNHQPTWQVSPHPKPDLGLTPQQKPDAVPPDLNVRFRSPGSPNSSRVDSTQPDLALQL
Disordered region (IsUnstruct)
**FVFRERRLFLVRIQQITTKGLSWNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLIC************YF*************************************************************************************************GSWNDLYTGCLAE*********************************************VLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLL**************************************************************************************I**L***LNLVN**MGAINTRPPFQIHQNSVIRPGMNGFNGTYGFNMPSQMGKLIGAAG*******************************************************************************************************************
Disordered Region (DISOPRED)
**FVFR*******************NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFE**********************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************PDLALQL
Disordered Region (DISEMBL)
MGFVFRERRLFLVRIQQITTKGLSWNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQD***********RRGRPPTKNFKKPLGRPSLERARSDFSSDVTLASGAENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDEVSLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSAT**********************STIELKGDKL**********************GHFKKPNTSSLLVVNRFSEPAKEKAEIIEGLKSQLNLVNSSMGAINTRPPFQIHQNSVIRPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPVTASSLNSDDPKLDCSRSLQNLESLGSAPSLPGNHQPTWQVSPHPKPDLGLTPQQKPDAVPPDLNVRFRS********************
Disordered Region (DISPRO)
*GFVFRERRLFLVRIQQITTKGLSWNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDD**********************************************************PHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDEVSLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDL****************************************************************************************************************************I*P**NGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRI******************************************************************PDAVPPDLNVRFRS**************D*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGFVFRERRLFLVRIQQITTKGLSWNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSDVTLASGAENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDEVSLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVGLPSSSQPSLIPENLSSASTHSTIELKGDKLTERPEAEDSSEKPGPSTQSSLDGHFKKPNTSSLLVVNRFSEPAKEKAEIIEGLKSQLNLVNSSMGAINTRPPFQIHQNSVIRPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPVTASSLNSDDPKLDCSRSLQNLESLGSAPSLPGNHQPTWQVSPHPKPDLGLTPQQKPDAVPPDLNVRFRSPGSPNSSRVDSTQPDLALQL
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	594	2.2.26 [Sep-21-2011]
Q9ULD4	1205	Bromodomain and PHD finge	yes	no	0.131	0.064	0.448	7e-13
Q3UQU0	596	Bromodomain-containing pr	no	no	0.099	0.098	0.457	5e-12
Q9H8M2	597	Bromodomain-containing pr	no	no	0.099	0.098	0.457	5e-12
Q7ZUF2	631	Bromodomain-containing pr	yes	no	0.168	0.158	0.339	1e-11
O95696	1058	Bromodomain-containing pr	no	no	0.131	0.073	0.397	3e-11
Q9NPI1	651	Bromodomain-containing pr	no	no	0.126	0.115	0.362	4e-11
Q5R8B0	651	Bromodomain-containing pr	no	no	0.126	0.115	0.362	4e-11
O88665	651	Bromodomain-containing pr	no	no	0.126	0.115	0.362	4e-11
Q5ZKG2	651	Bromodomain-containing pr	no	no	0.121	0.110	0.363	6e-11
Q54BA2	806	Ankyrin repeat, bromo and	no	no	0.109	0.080	0.432	8e-10

>sp|Q9ULD4|BRPF3_HUMAN Bromodomain and PHD finger-containing protein 3 OS=Homo sapiens GN=BRPF3 PE=1 SV=2

 Score = 76.3 bits (186), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 35/78 (44%), Positives = 50/78 (64%)

Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
           E+PDY E I  PMDF T+R KL +  Y TLE+FE+D  LI +N M+YNA DTI+ R A  
Sbjct: 622 EVPDYLEFISKPMDFSTMRRKLESHLYRTLEEFEEDFNLIVTNCMKYNAKDTIFHRAAVR 681

Query: 112 IHELAKKNFENLRQDSDD 129
           + +L      + R+ +++
Sbjct: 682 LRDLGGAILRHARRQAEN 699

Component of the MOZ/MORF complex which has a histone H3 acetyltransferase activity.
Homo sapiens (taxid: 9606)

>sp|Q3UQU0|BRD9_MOUSE Bromodomain-containing protein 9 OS=Mus musculus GN=Brd9 PE=2 SV=1

 Score = 73.2 bits (178), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 42/59 (71%)

Query: 54  PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           P Y  +I+HPMDFGT+++K+    Y ++ +F+ D  L+C NAM YN PDT+Y++ A+ I
Sbjct: 171 PGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKI 229

Mus musculus (taxid: 10090)

>sp|Q9H8M2|BRD9_HUMAN Bromodomain-containing protein 9 OS=Homo sapiens GN=BRD9 PE=1 SV=2

 Score = 73.2 bits (178), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 42/59 (71%)

Query: 54  PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           P Y  +I+HPMDFGT+++K+    Y ++ +F+ D  L+C NAM YN PDT+Y++ A+ I
Sbjct: 171 PGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKI 229

Homo sapiens (taxid: 9606)

>sp|Q7ZUF2|BRD9_DANRE Bromodomain-containing protein 9 OS=Danio rerio GN=brd9 PE=2 SV=1

 Score = 72.4 bits (176), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 38/112 (33%), Positives = 62/112 (55%), Gaps = 12/112 (10%)

Query: 54  PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH 113
           P Y  +I+HPMDF T+++K+A   Y T+ +F+ D  L+C NAM YN P+T+Y++ A+   
Sbjct: 201 PGYSMIIKHPMDFSTMKDKIAANEYKTITEFKADFKLMCDNAMVYNRPETVYYKAAK--- 257

Query: 114 ELAKKNFENLRQDS-----DDNEPETKVVR----RGRPPTKNFKKPLGRPSL 156
           +L    F+ + + +     DD  PE  V          P K+ K+P+  P +
Sbjct: 258 KLLHTGFKMMSKQAAILGDDDIAPEEPVTEMMPIHTEYPKKSKKQPVKEPII 309

Danio rerio (taxid: 7955)

>sp|O95696|BRD1_HUMAN Bromodomain-containing protein 1 OS=Homo sapiens GN=BRD1 PE=1 SV=1

 Score = 70.9 bits (172), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 31/78 (39%), Positives = 47/78 (60%)

Query: 51  EELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQAR 110
           +E+PDY + I+HPMDF T+R +L    Y  L +FE+D  LI  N M+YNA DT+++R A 
Sbjct: 594 KEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNARDTVFYRAAV 653

Query: 111 SIHELAKKNFENLRQDSD 128
            + +         R++ D
Sbjct: 654 RLRDQGGVVLRQARREVD 671

Component of the MOZ/MORF complex which has a histone H3 acetyltransferase activity.

Homo sapiens (taxid: 9606)

>sp|Q9NPI1|BRD7_HUMAN Bromodomain-containing protein 7 OS=Homo sapiens GN=BRD7 PE=1 SV=1

 Score = 70.1 bits (170), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 29/80 (36%), Positives = 52/80 (65%), Gaps = 5/80 (6%)

Query: 54  PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH 113
           P Y  +I+HPMDF T++ K+ N  Y ++E+ + +  L+C+NAM YN P+TIY++ A+ + 
Sbjct: 166 PGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKLL 225

Query: 114 E-----LAKKNFENLRQDSD 128
                 L+++  ++L+Q  D
Sbjct: 226 HSGMKILSQERIQSLKQSID 245

Acts both as coactivator and as corepressor. May play a role in chromatin remodeling. Activator of the Wnt signaling pathway in a DVL1-dependent manner by negatively regulating the GSK3B phosphotransferase activity. Induces dephosphorylation of GSK3B at 'Tyr-216'. Down-regulates TRIM24-mediated activation of transcriptional activation by AR (By similarity). Transcriptional corepressor that down-regulates the expression of target genes. Binds to target promoters, leading to increased histone H3 acetylation at 'Lys-9' (H3K9ac). Binds to the ESR1 promoter. Recruits BRCA1 and POU2F1 to the ESR1 promoter. Coactivator for TP53-mediated activation of transcription of a set of target genes. Required for TP53-mediated cell-cycle arrest in response to oncogene activation. Promotes acetylation of TP53 at 'Lys-382', and thereby promotes efficient recruitment of TP53 to target promoters. Inhibits cell cycle progression from G1 to S phase.

Homo sapiens (taxid: 9606)

>sp|Q5R8B0|BRD7_PONAB Bromodomain-containing protein 7 OS=Pongo abelii GN=BRD7 PE=2 SV=1

 Score = 70.1 bits (170), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 29/80 (36%), Positives = 52/80 (65%), Gaps = 5/80 (6%)

Query: 54  PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH 113
           P Y  +I+HPMDF T++ K+ N  Y ++E+ + +  L+C+NAM YN P+TIY++ A+ + 
Sbjct: 166 PGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKLL 225

Query: 114 E-----LAKKNFENLRQDSD 128
                 L+++  ++L+Q  D
Sbjct: 226 HSGMKILSQERIQSLKQSID 245

Acts both as coactivator and as corepressor. May play a role in chromatin remodeling. Activator of the Wnt signaling pathway in a DVL1-dependent manner by negatively regulating the GSK3B phosphotransferase activity. Induces dephosphorylation of GSK3B at 'Tyr-216'. Down-regulates TRIM24-mediated activation of transcriptional activation by AR. Transcriptional corepressor that down-regulates the expression of target genes. Binds to target promoters, leading to increased histone H3 acetylation at 'Lys-9' (H3K9ac). Binds to the ESR1 promoter. Recruits BRCA1 and POU2F1 to the ESR1 promoter. Coactivator for TP53-mediated activation of transcription of a set of target genes. Required for TP53-mediated cell-cycle arrest in response to oncogene activation. Promotes acetylation of TP53 at 'Lys-382', and thereby promotes efficient recruitment of TP53 to target promoters. Inhibits cell cycle progression from G1 to S phase.

Pongo abelii (taxid: 9601)

>sp|O88665|BRD7_MOUSE Bromodomain-containing protein 7 OS=Mus musculus GN=Brd7 PE=1 SV=1

 Score = 70.1 bits (170), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 29/80 (36%), Positives = 52/80 (65%), Gaps = 5/80 (6%)

Query: 54  PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH 113
           P Y  +I+HPMDF T++ K+ N  Y ++E+ + +  L+C+NAM YN P+TIY++ A+ + 
Sbjct: 166 PGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKLL 225

Query: 114 E-----LAKKNFENLRQDSD 128
                 L+++  ++L+Q  D
Sbjct: 226 HSGMKILSQERIQSLKQSID 245

Acts both as coactivator and as corepressor. May play a role in chromatin remodeling. Transcriptional corepressor that down-regulates the expression of target genes. Binds to target promoters, leading to increased histone H3 acetylation at 'Lys-9' (H3K9ac). Binds to the ESR1 promoter. Recruits BRCA1 and POU2F1 to the ESR1 promoter. Coactivator for TP53-mediated activation of transcription of a set of target genes. Required for TP53-mediated cell-cycle arrest in response to oncogene activation. Promotes acetylation of TP53 at 'Lys-382', and thereby promotes efficient recruitment of TP53 to target promoters. Inhibits cell cycle progression from G1 to S phase (By similarity). Activator of the Wnt signaling pathway in a DVL1-dependent manner by negatively regulating the GSK3B phosphotransferase activity. Induces dephosphorylation of GSK3B at 'Tyr-216'. Down-regulates TRIM24-mediated activation of transcriptional activation by AR.

Mus musculus (taxid: 10090)

>sp|Q5ZKG2|BRD7_CHICK Bromodomain-containing protein 7 OS=Gallus gallus GN=BRD7 PE=2 SV=1

 Score = 69.7 bits (169), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 28/77 (36%), Positives = 51/77 (66%), Gaps = 5/77 (6%)

Query: 54  PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH 113
           P Y  +I++PMDF T++ K+ N  Y ++E+ + +  L+C+NAM YN PDTIY++ A+ + 
Sbjct: 166 PGYSMIIKNPMDFSTMKEKIKNNGYQSIEELKDNFKLMCTNAMTYNKPDTIYYKAAKKLL 225

Query: 114 E-----LAKKNFENLRQ 125
                 L+++  ++L+Q
Sbjct: 226 HSGMKILSQERIQSLKQ 242

Acts both as coactivator and as corepressor. May play a role in chromatin remodeling. Participates in the Wnt signaling pathway. Transcriptional corepressor that down-regulates the expression of target genes. Binds to target promoters, leading to increased histone H3 acetylation. Coactivator for TP53-mediated activation of transcription of a set of target genes. Required for TP53-mediated cell-cycle arrest in response to oncogene activation. Inhibits cell cycle progression from G1 to S phase.

Gallus gallus (taxid: 9031)

>sp|Q54BA2|Y3800_DICDI Ankyrin repeat, bromo and BTB domain-containing protein DDB_G0293800 OS=Dictyostelium discoideum GN=DDB_G0293800 PE=4 SV=1

 Score = 66.2 bits (160), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 29/67 (43%), Positives = 46/67 (68%), Gaps = 2/67 (2%)

Query: 48  MDP--EELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY 105
           +DP  E +PDY +VI+HPMD GT++ KL N  Y+T++ F  DV L+  NA+ YNA  +  
Sbjct: 545 VDPLAEGIPDYFDVIKHPMDLGTIKGKLDNNGYSTIKDFAADVRLMFENALTYNADSSPV 604

Query: 106 FRQARSI 112
           ++ A+++
Sbjct: 605 WKHAKTL 611

Dictyostelium discoideum (taxid: 44689)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	594
225428300	750	PREDICTED: uncharacterized protein LOC10	0.914	0.724	0.571	1e-164
255559820	767	bromodomain-containing protein [Ricinus	0.919	0.711	0.569	1e-159
224102791	758	bromodomain protein [Populus trichocarpa	0.888	0.696	0.540	1e-153
449454289	776	PREDICTED: uncharacterized protein LOC10	0.912	0.698	0.501	1e-129
449528661	622	PREDICTED: LOW QUALITY PROTEIN: uncharac	0.912	0.871	0.5	1e-128
359491912	691	PREDICTED: uncharacterized protein LOC10	0.816	0.701	0.45	1e-108
147814821	688	hypothetical protein VITISV_012026 [Viti	0.816	0.704	0.446	1e-108
224132440	546	bromodomain protein [Populus trichocarpa	0.449	0.489	0.649	2e-99
297745559	634	unnamed protein product [Vitis vinifera]	0.722	0.676	0.426	1e-96
297744477	4608	unnamed protein product [Vitis vinifera]	0.570	0.073	0.564	3e-93

>gi|225428300|ref|XP_002279830.1| PREDICTED: uncharacterized protein LOC100245230 [Vitis vinifera]

 Score =  585 bits (1507), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 334/584 (57%), Positives = 399/584 (68%), Gaps = 41/584 (7%)

Query: 31  RLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFL 90
           RL +  SY   S     +DP+ELPDY EVIEHPMDFGTVR  LA GAYA+LEQFEKDVFL
Sbjct: 188 RLQKKDSYGVFSE---PVDPKELPDYHEVIEHPMDFGTVRKNLAGGAYASLEQFEKDVFL 244

Query: 91  ICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKP 150
           ICSNAMQYNAPDTIYF+QARSI ELAKKNFENLRQDSDDNEPE K  RRGRPPTKN KKP
Sbjct: 245 ICSNAMQYNAPDTIYFKQARSIQELAKKNFENLRQDSDDNEPEPK--RRGRPPTKNIKKP 302

Query: 151 LGRPSLERARSDFSSDVTLASGAENTALTNRDLGNGTPHLEKSGFTDS-SRRFSGS-WND 208
           LGRPSLER  S+FSSD TLA+G ENT  +N DL  G    +KSG  DS  R   G+ ++D
Sbjct: 303 LGRPSLERPGSEFSSDATLATGGENTMWSNHDLRKGALISDKSGPADSFGRSLHGTRYSD 362

Query: 209 LYTGCLAENKLERNDEV--SLSKGYSMKHGKKQVVLDENRRNTYKQFHQSL--RESSVLT 264
             TG  A+ KLER+DE   S+ KG S+KH KK  VLDENRRNTYKQ       RE SVLT
Sbjct: 363 GNTGWSADQKLERHDEFTGSILKGISLKHAKKPFVLDENRRNTYKQSSSIAVGREPSVLT 422

Query: 265 TFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVE 324
           TFD +KKQLM VGL++E+GY RSLARFA+NLGPVAWKIAA++IE+ LP GV+FGPGWV E
Sbjct: 423 TFDGEKKQLMPVGLNAEYGYARSLARFASNLGPVAWKIAAKKIEKSLPPGVKFGPGWVGE 482

Query: 325 NDLAPQRPLLLSSATVGLPSSSQPS-LIPENLSSASTHSTIELKGDKLTERPEAEDSSEK 383
           ND+ P +PL + S+T   P SS P   IP ++ S     + +  G  L ER         
Sbjct: 483 NDVIPPKPLFVPSST---PLSSLPGDSIPCSMDSQEDKPSQKTGGIGLPERNVL------ 533

Query: 384 PGPSTQSSLDGHFKKPNTSS------LLVVNRFSEPAKEKAEIIEGLKSQ--LNLVNSSM 435
              S +++L  H  K   +S      +   N+ S P+    E   GL +Q   +++NSS 
Sbjct: 534 ---SARAALANHPGKSLLTSAAASPLINTANKASGPSSGSTEASIGLNAQSGFSILNSSA 590

Query: 436 GAINTRPPFQIHQN-SVIRPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRI 494
           GA+  RPPFQIHQ  + + PGMNGFNG YGFN+P+QMGK +GAA P GF+ Q+PQM+D I
Sbjct: 591 GAVRPRPPFQIHQGPTALHPGMNGFNGAYGFNIPTQMGKPMGAARPTGFNLQAPQMLDAI 650

Query: 495 SRTDTNFVQPVTASSLNSDDPKLDCSRSLQNLESLGSAPSLP---GNHQPTWQVSPHPKP 551
           SRT  NF  P   ++L  +DPK     +  N     S+P LP   G      +V PHP+P
Sbjct: 651 SRTTPNFGHPGMGNNLTPEDPKFLEKSTTTN----SSSPLLPHPGGEAAAAPRVGPHPQP 706

Query: 552 DL-GLTPQQKPDAVPPDLNVRFRSPGSPNSSRVDSTQPDLALQL 594
              GL PQQ+ D+VPPDLNVRF+SPGSP+SS+VDSTQPDLALQL
Sbjct: 707 SWPGLPPQQRQDSVPPDLNVRFQSPGSPSSSKVDSTQPDLALQL 750

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255559820|ref|XP_002520929.1| bromodomain-containing protein [Ricinus communis] gi|223539895|gb|EEF41474.1| bromodomain-containing protein [Ricinus communis]

 Score =  568 bits (1464), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 335/588 (56%), Positives = 407/588 (69%), Gaps = 42/588 (7%)

Query: 30  QRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVF 89
           +RL +  +Y   S     +DP+ELPDY EVIEHPMDFGTVR KLA G YA LEQFEKDVF
Sbjct: 199 ERLQKKDTYGVFSE---PVDPDELPDYHEVIEHPMDFGTVRKKLAGGVYANLEQFEKDVF 255

Query: 90  LICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPETK--VVRRGRPPTKNF 147
           LICSNAMQYNAPDTIYFRQARSI ELAKKNFENLRQDSDDNEPE +  VVRRGRPPTKN 
Sbjct: 256 LICSNAMQYNAPDTIYFRQARSIQELAKKNFENLRQDSDDNEPEPEPTVVRRGRPPTKNL 315

Query: 148 KKPLGRPSLERARSDFSSD-VTLASGAENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSW 206
           KKP+GRPSL+RA S++S D  TLA+G E+T  +N D   G    +KSGFTDS  R  G  
Sbjct: 316 KKPVGRPSLDRAGSEYSLDAATLATGGESTIWSNNDHRKGPLVSDKSGFTDSLGRSHGPR 375

Query: 207 NDLYTGCLAENKLERNDEV--SLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLT 264
           +D     L +NK ERN+E   S+ KG S+K+GK+Q  LDENRRNTYKQ     RE SVL 
Sbjct: 376 SD--ANWLTDNKFERNEEATGSVLKGNSIKYGKRQFGLDENRRNTYKQLSAG-REPSVLI 432

Query: 265 TFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVE 324
           TFD+++KQLM VGL SEHGY RSLARFAAN+G VAWKIA+ RIER LP G++FGPGWV E
Sbjct: 433 TFDSERKQLMAVGLLSEHGYARSLARFAANVGAVAWKIASTRIERSLPPGIKFGPGWVSE 492

Query: 325 NDLAPQRPLLLSSATVGLPSSSQPSLIPENLSSASTHSTIELKGDKLTERPEAEDSSEKP 384
           ND++PQR  +LSS   GLP   QP  +P N  +A+T S  E + + L+++PE     ++ 
Sbjct: 493 NDISPQRAFVLSSPPPGLPLLLQPLSLPVN--TAATTSIAESR-ENLSQKPENNMIEDE- 548

Query: 385 GPSTQSSLDGHFKKPNTSSLLVVNRFSEPAK-----EKAEIIEGLKSQ--LNLVNSSMGA 437
               Q + +GH     + S           K     E+ E +E L S     L+N S   
Sbjct: 549 ---KQLASEGHISNALSPSASSSTSPVAAGKPESCAERGEAVERLNSHGGATLLNCSASM 605

Query: 438 INTRPPFQIHQNSVIRPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRT 497
           I   PP QI  NSV R GMN FNGTYGF++P++MGKL+G + PAGF+FQSPQM+D+I ++
Sbjct: 606 IRPNPPLQI--NSVHR-GMNRFNGTYGFDLPAEMGKLVGTSMPAGFNFQSPQMIDKILKS 662

Query: 498 DTNFVQPVTASSLNSDDPKLDCSRSLQNLESLGSAPSLPGNH----------QPTWQVSP 547
           +TNFV P TA+SLNS+ PKL  S    ++   G+ P+ PGN           +P+WQ S 
Sbjct: 663 NTNFVHPATANSLNSEGPKL--SEHSSSINPTGALPN-PGNDMEVPRYELEPRPSWQGSL 719

Query: 548 H-PKPDLGLTPQQKPDAVPPDLNVRFRSPGSPNSSRVDSTQPDLALQL 594
           H PK D GL+PQQK D+VPPDLNVRF+SPGSP+S+RVDS QPDLALQL
Sbjct: 720 HLPKSDAGLSPQQKSDSVPPDLNVRFQSPGSPSSNRVDSAQPDLALQL 767

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224102791|ref|XP_002312802.1| bromodomain protein [Populus trichocarpa] gi|222849210|gb|EEE86757.1| bromodomain protein [Populus trichocarpa]

 Score =  550 bits (1416), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 309/572 (54%), Positives = 384/572 (67%), Gaps = 44/572 (7%)

Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +D +ELPDY EVIEHPMDFGTVR KL NGAY +LE FE++VFLIC+NAMQYNAPDTIYFR
Sbjct: 206 VDLDELPDYLEVIEHPMDFGTVRKKLTNGAYGSLELFEEEVFLICTNAMQYNAPDTIYFR 265

Query: 108 QARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSDV 167
           QARSI ELAKKNFENLRQDSDDNE E KVVRRGRPP++NFKK  GRPSL+ A S+F +  
Sbjct: 266 QARSIQELAKKNFENLRQDSDDNEAEPKVVRRGRPPSENFKKSPGRPSLDLAGSEFPTGR 325

Query: 168 TLASGAENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDEV-- 225
           TLA+G EN +             EKSGF DSS +F GS N+ Y     +N+ ERNDE   
Sbjct: 326 TLATGGENRS------------SEKSGFADSSGQFHGSRNEAYLST--DNRFERNDETAG 371

Query: 226 SLSKGYSMKHGKKQVVLDENRRNTYKQFHQSL--RESSVLTTFDADKKQLMTVGLHSEHG 283
           S+ KG   KH KK + LDENRRNTYKQFH S   R  SVLTTFDA++KQL+ VGL +EHG
Sbjct: 372 SILKG---KHIKKHLALDENRRNTYKQFHPSAGGRVPSVLTTFDAERKQLVAVGLLTEHG 428

Query: 284 YTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVGLP 343
           Y RS+ARFAAN+GP +W IA +RIE+ L  GV+FGPGWV END+ PQ+ L  S     L 
Sbjct: 429 YARSIARFAANIGPFSWTIAVKRIEKSLAPGVKFGPGWVGENDIPPQKALFSSPMPSQLA 488

Query: 344 SSSQPSL-----IPENLSSASTHSTIELKGDKLTERPEAEDSSEKPGPSTQSSLDGHFKK 398
                       + E+ ++ +T   ++ K  KL+ +PE +   EK  PST+ S + HF  
Sbjct: 489 PPPSLPPQKPFSVLESSAATATACGVKSKQGKLSAKPEKDIFPEKQVPSTRLS-EAHFSS 547

Query: 399 --PNTS---SLLVVNRFSEPAKEKAEIIEGLKSQ--LNLVNSSMGAINTRPPFQIHQNSV 451
             P+TS   S+  VN+ SEP  E+AE +  L S    N++NSS G +    P Q+HQN  
Sbjct: 548 VPPSTSMTTSVSAVNK-SEPFTERAESVPKLNSHSAFNVLNSSTGVMRQTAPSQLHQNPA 606

Query: 452 IRPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPVTASSLN 511
           I PG  GFN TYGFN+ +QMGKLIG A PAG   QS QM D++SRT++N V+   A+S+N
Sbjct: 607 IHPGTIGFNATYGFNLAAQMGKLIGVARPAGLGIQSSQMADKVSRTNSNLVRSANANSIN 666

Query: 512 SDDPKL-DCSRSLQNLESLGS-------APSLPGNHQPTWQ-VSPHPKPDLGLTPQQKPD 562
           S+  K  + S S++   +L +       AP      QPTWQ + P+P+PD G +  QK D
Sbjct: 667 SEKMKFPENSSSIKISGALPNSGNEAVEAPRSVDQEQPTWQGLYPNPRPDSGSSSHQKSD 726

Query: 563 AVPPDLNVRFRSPGSPNSSRVDSTQPDLALQL 594
           AVPPDLNVR++SPGSP+S  +D  QPDLALQL
Sbjct: 727 AVPPDLNVRYQSPGSPSSGCIDPAQPDLALQL 758

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449454289|ref|XP_004144888.1| PREDICTED: uncharacterized protein LOC101218234 [Cucumis sativus] gi|449473925|ref|XP_004154023.1| PREDICTED: uncharacterized protein LOC101210731 [Cucumis sativus]

 Score =  467 bits (1202), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 288/574 (50%), Positives = 367/574 (63%), Gaps = 32/574 (5%)

Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +DP ELPDY E+I+HPMDFGTVR KL +GAY+TLEQFEKDV LI SNAMQYN+PDTIYFR
Sbjct: 208 VDPNELPDYHEIIDHPMDFGTVREKLTSGAYSTLEQFEKDVLLISSNAMQYNSPDTIYFR 267

Query: 108 QARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSDV 167
           QAR+I ELAKKNF+NLRQDSDDNEPE KVVRRGRPPTKN KKPLGRPSLERA S+FS D 
Sbjct: 268 QARTIQELAKKNFKNLRQDSDDNEPEPKVVRRGRPPTKNLKKPLGRPSLERAGSEFSPDA 327

Query: 168 TLASGAENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSWN--DLYTGCLAENKLERNDEV 225
           TLA+G EN A  + DL  G  HLEK  F D S RFS S N  D        ++ +R++++
Sbjct: 328 TLATGGEN-ANRSSDLRKGLHHLEKPSFADFSGRFSFSSNNSDAAFNLFNPSRFDRSEDI 386

Query: 226 SLS--KGYSMKHGKKQVVLDENRRNTYKQFHQ--SLRESSVLTTFDADKKQLMTVGLHSE 281
           + S  +  S++ GKK +V +ENRRNTY QF    ++ E +VL TFD ++K LM VGL  E
Sbjct: 387 TGSALRFNSVRQGKKPIVSEENRRNTYSQFQAATAMLEPAVLNTFDRERKVLMPVGLFLE 446

Query: 282 HGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVG 341
           H Y RSLARFAA+LG VAW +A+++IER LP+G  FGPGWV+END+ P+R + L  A   
Sbjct: 447 HAYARSLARFAADLGSVAWTVASKKIERSLPSGSGFGPGWVIENDITPKR-VFLPQAEPS 505

Query: 342 LPSSSQPSLIPENLSSASTHSTIELKGDKLTERPEAEDSSEKPGPSTQS-SLDGHFKKPN 400
             S+ QP L  E+        T E K  + ++  EA+ S +     +++ S  G   +P 
Sbjct: 506 KMSTLQPFLGHESSDPDVKPLTNEQKRVRSSDNSEADTSHKTHDELSRAPSSGGQVNRPP 565

Query: 401 TSSLLV------VNRFSEPAKEKAEIIEGLK--SQLNLVNSSMGAINTRPPFQIHQNSVI 452
           T  + V        + SE  K +AE +EG K     N++ SS+    +RP F  H +  I
Sbjct: 566 TEFVAVSSSPSSTQQSSEQCKGQAETVEGSKPSGNYNVLESSIPI--SRPSFHKHHSPSI 623

Query: 453 RPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPVTASSLNS 512
            PGMNGFNG YGF++ +  GKLIG +  AG   QS QM++ ISRT+ NF+ P  A++LN 
Sbjct: 624 HPGMNGFNGAYGFDLSAHRGKLIGPSDSAGVKPQSSQMLETISRTNANFILPAMATNLNP 683

Query: 513 DDPKL----------DCSRSLQNLESLGSAPSLPGNHQPTWQVSPHP--KPDLGLTPQQK 560
            +PK             S      + L +  + P    P W     P  K D  +T   K
Sbjct: 684 KEPKCPENNPSTTNSSSSLVGSGSDGLINPVASPHLRSP-WHQGKQPAEKTDAVVTTIYK 742

Query: 561 PDAVPPDLNVRFRSPGSPNSSRVDSTQPDLALQL 594
           P++VPPDLNVRF+SPGSP+SS+VDS  PDL LQL
Sbjct: 743 PESVPPDLNVRFKSPGSPSSSKVDSAHPDLVLQL 776

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449528661|ref|XP_004171322.1| PREDICTED: LOW QUALITY PROTEIN: uncharacterized LOC101210731, partial [Cucumis sativus]

 Score =  464 bits (1195), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 287/574 (50%), Positives = 366/574 (63%), Gaps = 32/574 (5%)

Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +DP ELPDY E+I+HPMDFGTVR KL +GAY+TLEQFEKDV LI SNAMQYN+PDTIYFR
Sbjct: 54  VDPNELPDYHEIIDHPMDFGTVREKLTSGAYSTLEQFEKDVLLISSNAMQYNSPDTIYFR 113

Query: 108 QARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSDV 167
           QAR+I EL KKNF+NLRQDSDDNEPE KVVRRGRPPTKN KKPLGRPSLERA S+FS D 
Sbjct: 114 QARTIQELXKKNFKNLRQDSDDNEPEPKVVRRGRPPTKNLKKPLGRPSLERAGSEFSPDA 173

Query: 168 TLASGAENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSWN--DLYTGCLAENKLERNDEV 225
           TLA+G EN A  + DL  G  HLEK  F D S RFS S N  D        ++ +R++++
Sbjct: 174 TLATGGEN-ANRSSDLRKGLHHLEKPSFADFSGRFSFSSNNSDAAFNLFNPSRFDRSEDI 232

Query: 226 SLS--KGYSMKHGKKQVVLDENRRNTYKQFHQ--SLRESSVLTTFDADKKQLMTVGLHSE 281
           + S  +  S++ GKK +V +ENRRNTY QF    ++ E +VL TFD ++K LM VGL  E
Sbjct: 233 TGSALRFNSVRQGKKPIVSEENRRNTYSQFQAATAMLEPAVLNTFDRERKVLMPVGLFLE 292

Query: 282 HGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVG 341
           H Y RSLARFAA+LG VAW +A+++IER LP+G  FGPGWV+END+ P+R + L  A   
Sbjct: 293 HAYARSLARFAADLGSVAWTVASKKIERSLPSGSGFGPGWVIENDITPKR-VFLPQAEPS 351

Query: 342 LPSSSQPSLIPENLSSASTHSTIELKGDKLTERPEAEDSSEKPGPSTQS-SLDGHFKKPN 400
             S+ QP L  E+        T E K  + ++  EA+ S +     +++ S  G   +P 
Sbjct: 352 KMSTLQPFLGHESSDPDVKPLTNEQKRVRSSDNSEADTSHKTHDELSRAPSSGGQVNRPP 411

Query: 401 TSSLLV------VNRFSEPAKEKAEIIEGLK--SQLNLVNSSMGAINTRPPFQIHQNSVI 452
           T  + V        + SE  K +AE +EG K     N++ SS+    +RP F  H +  I
Sbjct: 412 TEFVAVSSSPSSTQQSSEQCKGQAETVEGSKPSGNYNVLESSIPI--SRPSFHKHHSPSI 469

Query: 453 RPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPVTASSLNS 512
            PGMNGFNG YGF++ +  GKLIG +  AG   QS QM++ ISRT+ NF+ P  A++LN 
Sbjct: 470 HPGMNGFNGAYGFDLSAHRGKLIGPSDSAGVKPQSSQMLETISRTNANFILPAMATNLNP 529

Query: 513 DDPKL----------DCSRSLQNLESLGSAPSLPGNHQPTWQVSPHP--KPDLGLTPQQK 560
            +PK             S      + L +  + P    P W     P  K D  +T   K
Sbjct: 530 KEPKCPENNPSTTNSSSSLVGSGSDGLINPVASPHLRSP-WHQGKQPAEKTDAVVTTIYK 588

Query: 561 PDAVPPDLNVRFRSPGSPNSSRVDSTQPDLALQL 594
           P++VPPDLNVRF+SPGSP+SS+VDS  PDL LQL
Sbjct: 589 PESVPPDLNVRFKSPGSPSSSKVDSAHPDLVLQL 622

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359491912|ref|XP_002272566.2| PREDICTED: uncharacterized protein LOC100244510 [Vitis vinifera]

 Score =  399 bits (1024), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 252/560 (45%), Positives = 322/560 (57%), Gaps = 75/560 (13%)

Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +DPEELPDY ++IEHPMDFGTVR KL  G Y+ LEQFE D+FLICSNAMQYNAPDT+YFR
Sbjct: 194 VDPEELPDYHDIIEHPMDFGTVRKKLDGGLYSNLEQFESDIFLICSNAMQYNAPDTVYFR 253

Query: 108 QARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSDV 167
           QAR+I ELAK++F NLRQ+ DD EP+ K+VRRGRPPTK+ KK LG   LE    + SS+ 
Sbjct: 254 QARTIQELAKRDFANLRQEGDDGEPQPKIVRRGRPPTKHLKKSLGSSPLEHVAPETSSEA 313

Query: 168 TLASGAENTALTNR-DLGNG-TPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDE- 224
           TLA+G +N+  +N  +L  G TP   +        ++    +D Y+  L+E     N+E 
Sbjct: 314 TLATGGDNSISSNSYNLRKGPTPCKFRPADISVKAQYGSRNSDNYSSWLSE----WNNEF 369

Query: 225 -VSLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHG 283
             S+ KG S KHGKK   LDENRR+TYK    S  E SVLTT   + KQLM+VGLHS+HG
Sbjct: 370 PASILKGVSTKHGKKPFELDENRRDTYKHPLASNHEPSVLTTLHGELKQLMSVGLHSDHG 429

Query: 284 YTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVGLP 343
           Y RSLARFAA+LG   WKIAA++I   LP GV FGPGWV EN+   QRP L         
Sbjct: 430 YARSLARFAADLGQDVWKIAAKKIANVLPVGVEFGPGWVGENEALAQRPSL--------- 480

Query: 344 SSSQPSLIPENLSSASTHSTIELKGDKLTERPEAEDSSEKPGPSTQSSLDGHFKKPNTSS 403
                                      L E  ++ ++S  P P    +  G       SS
Sbjct: 481 ---------------------------LCENQKSSNNSTPPHPQPPPTTSG-------SS 506

Query: 404 LLVVNRFSEPAKEKA-EIIEGLKSQLNLVNSSMGAINTRP-PFQIHQNSVIRPGMNGFNG 461
           L V NR S P KE++ E + GL SQ+ L         +RP P +IHQ   I PG+NGF+G
Sbjct: 507 LFVANRSSLPCKEESGEAVRGLNSQIELT--------SRPAPPEIHQTLGIHPGLNGFSG 558

Query: 462 TYGFNMPSQMG--KLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPVTASSLNSDDPKLDC 519
            +GFN  SQMG  +L   AG +       Q +  +S + +  + P+ A+   SD P+   
Sbjct: 559 GFGFNPSSQMGMARLAMLAGNSSTESMPSQKLGMVSNSSSIPIHPMQANYFASDRPESPV 618

Query: 520 SRSLQNLESLGSAPSLPGNHQPTWQVSPHPKPDLG--LTPQQKPDAVPPDLNVRFRSPGS 577
           S +     +L +  SL   H P       P+  +G   + Q  P  +PPDLNVRF++PGS
Sbjct: 619 SSNTPRSRNLAAPGSLMKVHTP-------PEVLIGGKASWQGLPQRIPPDLNVRFQAPGS 671

Query: 578 PNSSR---VDSTQPDLALQL 594
           P+SS      S QPDLALQL
Sbjct: 672 PSSSTTPIASSQQPDLALQL 691

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147814821|emb|CAN74748.1| hypothetical protein VITISV_012026 [Vitis vinifera]

 Score =  397 bits (1021), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 250/560 (44%), Positives = 320/560 (57%), Gaps = 75/560 (13%)

Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +DPEELPDY ++IEHPMDFGTVR KL  G Y+ LEQFE D+FLICSNAMQYNAPDT+YFR
Sbjct: 191 VDPEELPDYHDIIEHPMDFGTVRKKLDGGLYSNLEQFESDIFLICSNAMQYNAPDTVYFR 250

Query: 108 QARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSDV 167
           QAR+I ELAK++F NLRQ+ DD EP+ K+VRRGRPPTK+ KK LG   LE    + SS+ 
Sbjct: 251 QARTIQELAKRDFANLRQEGDDGEPQPKIVRRGRPPTKHLKKSLGSSPLEHVAPETSSEA 310

Query: 168 TLASGAENTALTNR-DLGNG-TPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDE- 224
           TLA+G +N+  +N  +L  G TP   +        ++    +D Y+  L+E     N+E 
Sbjct: 311 TLATGGDNSISSNSYNLRKGPTPCKFRPADISVKAQYGSRNSDNYSSWLSE----WNNEF 366

Query: 225 -VSLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHG 283
             S+ KG S KHGKK   LDENRR+TYK    S  E SVLTT   + KQLM+VGLHS+HG
Sbjct: 367 PASILKGVSTKHGKKPFELDENRRDTYKHPLASNHEPSVLTTLHGELKQLMSVGLHSDHG 426

Query: 284 YTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVGLP 343
           Y RSLARFAA+LG   WKIAA++I   LP GV FGPGWV EN+   QRP           
Sbjct: 427 YARSLARFAADLGQDVWKIAAKKIANVLPVGVEFGPGWVGENEALAQRP----------- 475

Query: 344 SSSQPSLIPENLSSASTHSTIELKGDKLTERPEAEDSSEKPGPSTQSSLDGHFKKPNTSS 403
                SL+ EN  S++                           ++           + SS
Sbjct: 476 -----SLLCENQKSSN---------------------------NSTPPHPQPPPTTSGSS 503

Query: 404 LLVVNRFSEPAKEKA-EIIEGLKSQLNLVNSSMGAINTRP-PFQIHQNSVIRPGMNGFNG 461
           L V NR S P KE++ E + GL SQ+ L         +RP P +IHQ   I PG+NGF+G
Sbjct: 504 LFVANRSSLPCKEESGEAVRGLNSQIELT--------SRPAPPEIHQTLGIHPGLNGFSG 555

Query: 462 TYGFNMPSQMG--KLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPVTASSLNSDDPKLDC 519
            +GFN  SQMG  +L   AG +       Q +  +S + +  + P+ A+   SD P+   
Sbjct: 556 GFGFNPSSQMGMARLAMLAGNSSTESXPSQKLGMVSNSSSIPIHPMQANYFASDRPESPV 615

Query: 520 SRSLQNLESLGSAPSLPGNHQPTWQVSPHPKPDLG--LTPQQKPDAVPPDLNVRFRSPGS 577
           S +     +L    SL   H P       P+  +G   + Q  P  +PPDLNVRF++PGS
Sbjct: 616 SSNTPRSRNLAEPGSLMKVHTP-------PEVLIGGKASWQGLPQRIPPDLNVRFQAPGS 668

Query: 578 PNSSR---VDSTQPDLALQL 594
           P+SS      S QPDLALQL
Sbjct: 669 PSSSTTPIASSQQPDLALQL 688

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224132440|ref|XP_002328271.1| bromodomain protein [Populus trichocarpa] gi|222837786|gb|EEE76151.1| bromodomain protein [Populus trichocarpa]

 Score =  369 bits (948), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 187/288 (64%), Positives = 219/288 (76%), Gaps = 21/288 (7%)

Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +D  ELPDY EVIEHPMDFGTVR KL NGAYA+LEQFEKDVFLIC+NAMQYNAPDTIYFR
Sbjct: 214 VDLNELPDYLEVIEHPMDFGTVRKKLLNGAYASLEQFEKDVFLICTNAMQYNAPDTIYFR 273

Query: 108 QARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSDV 167
           QARSI ELA+KNFENLRQD+DDNE E KVV+RGRPP++N KK  GRPSL+ A S+F S  
Sbjct: 274 QARSIQELARKNFENLRQDTDDNEAEHKVVKRGRPPSENLKKSPGRPSLDPAGSEFPSGA 333

Query: 168 TLASGAENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDEV-- 225
           TLA+G EN               EK GF DSS +F GS N+ Y+  L +N+ ER+DE   
Sbjct: 334 TLATGGENRP------------SEKPGFADSSEQFHGSRNEAYS--LTDNRFERHDETAG 379

Query: 226 SLSKGYSMKHGKKQVVLDENRRNTYKQFHQSL--RESSVLTTFDADKKQLMTVGLHSEHG 283
           S+ KG   KH KK + +DENRRNTYKQFH S   R  SVLTTFDA++KQL+ VGL +EHG
Sbjct: 380 SVLKG---KHSKKPLAIDENRRNTYKQFHPSAGGRVPSVLTTFDAERKQLVAVGLLTEHG 436

Query: 284 YTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQR 331
           Y RS+ARFAAN+GP +W IA ++IER L  G++FGPGWV END+ PQR
Sbjct: 437 YARSIARFAANIGPFSWTIAVKKIERSLAPGIKFGPGWVGENDITPQR 484

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297745559|emb|CBI40724.3| unnamed protein product [Vitis vinifera]

 Score =  360 bits (923), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 237/556 (42%), Positives = 298/556 (53%), Gaps = 127/556 (22%)

Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +DPEELPDY ++IEHPMDFGTVR KL  G Y+ LEQFE D+FLICSNAMQYNAPDT+YFR
Sbjct: 197 VDPEELPDYHDIIEHPMDFGTVRKKLDGGLYSNLEQFESDIFLICSNAMQYNAPDTVYFR 256

Query: 108 QARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSDV 167
           QAR+I ELAK++F NLRQ+ DD EP+ K+VRRGRPPTK+ KK LG   LE    + SS+ 
Sbjct: 257 QARTIQELAKRDFANLRQEGDDGEPQPKIVRRGRPPTKHLKKSLGSSPLEHVAPETSSEA 316

Query: 168 TLASGAENTALTNR-DLGNG-TPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDE- 224
           TLA+G +N+  +N  +L  G TP   +        ++    +D Y+  L+E     N+E 
Sbjct: 317 TLATGGDNSISSNSYNLRKGPTPCKFRPADISVKAQYGSRNSDNYSSWLSE----WNNEF 372

Query: 225 -VSLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHG 283
             S+ KG S KHGKK   LDENRR+TYK    S  E SVLTT   + KQLM+VGLHS+HG
Sbjct: 373 PASILKGVSTKHGKKPFELDENRRDTYKHPLASNHEPSVLTTLHGELKQLMSVGLHSDHG 432

Query: 284 YTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVGLP 343
           Y RSLARFAA+LG   WKIAA++I   LP GV FGPGWV EN+   QRP           
Sbjct: 433 YARSLARFAADLGQDVWKIAAKKIANVLPVGVEFGPGWVGENEALAQRP----------- 481

Query: 344 SSSQPSLIPENLSSASTHSTIELKGDKLTERPEAEDSSEKPGPSTQSSLDGHFKKPNTSS 403
                SL+ EN  S++                           ++           + SS
Sbjct: 482 -----SLLCENQKSSN---------------------------NSTPPHPQPPPTTSGSS 509

Query: 404 LLVVNRFSEPAKEKA-EIIEGLKSQLNLVNSSMGAINTRP-PFQIHQNSVIRPGMNGFNG 461
           L V NR S P KE++ E + GL SQ+ L         +RP P +IHQ   I PG+NGF+G
Sbjct: 510 LFVANRSSLPCKEESGEAVRGLNSQIELT--------SRPAPPEIHQTLGIHPGLNGFSG 561

Query: 462 TYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPVTASSLNSDDPKLDCSR 521
             GF                GF+  S   + R++                          
Sbjct: 562 --GF----------------GFNPSSQMGMARLAM------------------------- 578

Query: 522 SLQNLESLGSAPSLPGNHQPTWQVSPHPKPDLGLTPQQKPDAVPPDLNVRFRSPGSPNSS 581
                        L GN   + +  P  K  +GL     P  +PPDLNVRF++PGSP+SS
Sbjct: 579 -------------LAGNS--STESMPSQKLGMGL-----PQRIPPDLNVRFQAPGSPSSS 618

Query: 582 R---VDSTQPDLALQL 594
                 S QPDLALQL
Sbjct: 619 TTPIASSQQPDLALQL 634

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297744477|emb|CBI37739.3| unnamed protein product [Vitis vinifera]

 Score =  348 bits (894), Expect = 3e-93,   Method: Compositional matrix adjust.
 Identities = 201/356 (56%), Positives = 243/356 (68%), Gaps = 17/356 (4%)

Query: 37   SYCCSSSIDFK----MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLIC 92
            S+ C+  +  K    +DP  LP  C ++ + + F ++  K+    Y       KDVFLIC
Sbjct: 4259 SFVCNLWVWTKSIVNVDPLTLPSVC-IVRYELRFLSIFIKMYRIVYRKFLTIMKDVFLIC 4317

Query: 93   SNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLG 152
            SNAMQYNAPDTIYF+QARSI ELAKKNFENLRQDSDDNEPE K  RRGRPPTKN KKPLG
Sbjct: 4318 SNAMQYNAPDTIYFKQARSIQELAKKNFENLRQDSDDNEPEPK--RRGRPPTKNIKKPLG 4375

Query: 153  RPSLERARSDFSSDVTLASGAENTALTNRDLGNGTPHLEKSGFTDS-SRRFSGS-WNDLY 210
            RPSLER  S+FSSD TLA+G ENT  +N DL  G    +KSG  DS  R   G+ ++D  
Sbjct: 4376 RPSLERPGSEFSSDATLATGGENTMWSNHDLRKGALISDKSGPADSFGRSLHGTRYSDGN 4435

Query: 211  TGCLAENKLERNDEV--SLSKGYSMKHGKKQVVLDENRRNTYKQFHQSL--RESSVLTTF 266
            TG  A+ KLER+DE   S+ KG S+KH KK  VLDENRRNTYKQ       RE SVLTTF
Sbjct: 4436 TGWSADQKLERHDEFTGSILKGISLKHAKKPFVLDENRRNTYKQSSSIAVGREPSVLTTF 4495

Query: 267  DADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVEND 326
            D +KKQLM VGL++E+GY RSLARFA+NLGPVAWKIAA++IE+ LP GV+FGPGWV END
Sbjct: 4496 DGEKKQLMPVGLNAEYGYARSLARFASNLGPVAWKIAAKKIEKSLPPGVKFGPGWVGEND 4555

Query: 327  LAPQRPLLLSSATVGLPSSSQPS-LIPENLSSASTHSTIELKGDKLTERPEAEDSS 381
            + P +PL + S+T   P SS P   IP ++ S     + +  G  L ER + +  S
Sbjct: 4556 VIPPKPLFVPSST---PLSSLPGDSIPCSMDSQEDKPSQKTGGIGLPERNQWKHGS 4608

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	594
TAIR|locus:2151948	916	AT5G55040 "AT5G55040" [Arabido	0.538	0.349	0.444	2e-75
TAIR|locus:2030422	652	AT1G20670 "AT1G20670" [Arabido	0.577	0.526	0.435	2.5e-75
TAIR|locus:2014594	580	AT1G76380 "AT1G76380" [Arabido	0.469	0.481	0.493	5.3e-73
UNIPROTKB|F1N3J5	596	BRD9 "Uncharacterized protein"	0.202	0.201	0.356	8.1e-11
MGI|MGI:2145317	596	Brd9 "bromodomain containing 9	0.163	0.162	0.396	1.3e-10
MGI|MGI:1888520	1400	Brd4 "bromodomain containing 4	0.183	0.077	0.350	1.3e-10
RGD|1307359	597	Brd9 "bromodomain containing 9	0.163	0.162	0.392	1.7e-10
UNIPROTKB|Q9H8M2	597	BRD9 "Bromodomain-containing p	0.163	0.162	0.382	2.1e-10
UNIPROTKB|E9PSF3	821	BRPF3 "Bromodomain and PHD fin	0.138	0.099	0.440	4.7e-10
UNIPROTKB|B7ZLN5	871	BRPF3 "Bromodomain and PHD fin	0.138	0.094	0.440	5.1e-10

TAIR|locus:2151948 AT5G55040 "AT5G55040" [Arabidopsis thaliana (taxid:3702)]

 Score = 650 (233.9 bits), Expect = 2.0e-75, Sum P(3) = 2.0e-75
 Identities = 152/342 (44%), Positives = 205/342 (59%)

Query:    48 MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
             +DPEELPDY ++IEHPMDF TVR KLANG+Y+TLE+ E DV LICSNAMQYN+ DT+Y++
Sbjct:   211 VDPEELPDYHDMIEHPMDFSTVRKKLANGSYSTLEELESDVLLICSNAMQYNSSDTVYYK 270

Query:   108 QARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPT---KNFKKPLGRPSLERARSDFS 164
             QAR+I E+ K+ FE  R      E E K   + +P +   K  ++P  R  LE   SDFS
Sbjct:   271 QARTIQEMGKRKFEKARLKIKRAEKELKTDEKVKPDSSVKKQVRQPFSRNGLEAVGSDFS 330

Query:   165 SDVTLASG-AENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERND 223
             S   LASG A      +  +G    H EK  +TD    F G+ +      L ++ LE+ +
Sbjct:   331 SGANLASGGASQNEPVSTQIGG---H-EKHSYTDVL--FEGNTS------LVDS-LEKAE 377

Query:   224 EVSLSKGYSMKHGKKQVVLDENRRNTYKQF-HQSLRESSVLTTFDADKKQLMTVGLHSEH 282
             ++S  KG   K G+K  V++E+RR TY+    Q  R  S+ TTF+++ KQ + VGLH+EH
Sbjct:   378 DLSSGKGLFGKCGRKLSVVEEDRRATYEDSDQQGDRSESIFTTFESEIKQFVAVGLHAEH 437

Query:   283 GYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVGL 342
              Y RSLARFAA LGPVAWKIA++RIE+ LPA  +FG GWV E +  P   LL  + T   
Sbjct:   438 AYGRSLARFAATLGPVAWKIASQRIEQALPADFKFGRGWVGEYEPLPTPVLLFETCTPKE 497

Query:   343 PSSSQPSLIPENLSSASTHSTIELKGDKLTERPEAEDSSEKP 384
             P   + S+  +  S+A+T +   L    L   P  E    +P
Sbjct:   498 PPK-KASVFSKRKSNAATKTNETLFKTPL---PAKEQQGSRP 535

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0000956 "nuclear-transcribed mRNA catabolic process" evidence=RCA

TAIR|locus:2030422 AT1G20670 "AT1G20670" [Arabidopsis thaliana (taxid:3702)]

 Score = 691 (248.3 bits), Expect = 2.5e-75, Sum P(2) = 2.5e-75
 Identities = 161/370 (43%), Positives = 226/370 (61%)

Query:    48 MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
             +DPEELPDY E+I++PMDF T+RNKL +GAY+TLEQFE+DVFLIC+NAM+YN+ DT+Y+R
Sbjct:   200 VDPEELPDYFEIIKNPMDFSTLRNKLDSGAYSTLEQFERDVFLICTNAMEYNSADTVYYR 259

Query:   108 QARSIHELAKKNFENLRQDSDDNEPET--------KVVRRGRPPTKNFKKPLGRPSLERA 159
             QAR+I ELAKK+FENLRQDSDD EP++        KV RRGRPP K+  +P    S++R 
Sbjct:   260 QARAIQELAKKDFENLRQDSDDEEPQSQQQQQQQPKVARRGRPPKKH-PEP---SSIDRT 315

Query:   160 RSDFSSDVTLASGAENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKL 219
              S+ S+D  +   + N      +L    P   K    +SS R + + ++  +G   +   
Sbjct:   316 ASEISADALIPGDSSNKFSGAYNLRKAPPSY-KFRQAESSVRINHN-SETQSGWSVD--W 371

Query:   220 ERNDEVSLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLH 279
             E     S+ K  + K+G K   +D+NRR+TY     S +E SVLTT + + KQL+ VGL+
Sbjct:   372 ESEFPSSVVKAVN-KYGMKHFNVDDNRRDTYNHLSTSTQEPSVLTTLEDELKQLIPVGLN 430

Query:   280 SEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRP------L 333
              E+GY +SLAR+AANLGPVAWKIA+RRIE  LP+G++FG GWV EN   P+        +
Sbjct:   431 MEYGYAKSLARYAANLGPVAWKIASRRIETVLPSGIKFGQGWVGENPAGPEEDDSQKQNI 490

Query:   334 LLSSATVGLPSSSQPSLIPENLSSASTHSTIELKGDKLTERPEAEDSSEKPGPSTQSSLD 393
             L+SS   G    S   L  ++ S+     T  +    +  R  +  + E+  P     L+
Sbjct:   491 LMSS---GKQKCSN-DLASDDHSNRILSPTASVSSAFIGNRHASSQAIEETTPPPARVLN 546

Query:   394 GHFKKPNTSS 403
                  P++SS
Sbjct:   547 PEIDHPSSSS 556

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2014594 AT1G76380 "AT1G76380" [Arabidopsis thaliana (taxid:3702)]

 Score = 655 (235.6 bits), Expect = 5.3e-73, Sum P(2) = 5.3e-73
 Identities = 147/298 (49%), Positives = 199/298 (66%)

Query:    49 DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
             DPEELPDY E+I++PMDF T+R KL +GAY TLEQFE+DVFLIC+NAM+YN+ DT+Y+RQ
Sbjct:   171 DPEELPDYYEIIKNPMDFTTLRKKLESGAYTTLEQFEQDVFLICTNAMEYNSADTVYYRQ 230

Query:   109 ARSIHELAKKNFENLRQDSDDNEP-----ETKVVRRGRPPTKNFKKPLGRPSLERARSDF 163
             AR++ ELAKK+F NLRQ+SD  EP     + KVV+RGRPP    KK L +  ++R  SD 
Sbjct:   231 ARAMLELAKKDFGNLRQESDGEEPVSLSQQPKVVKRGRPPGSGLKKQLEQSLIDRTTSDI 290

Query:   164 SSDVTLASGA-ENTALTNR-DLGNGTPHLEKSGF--TDSSRRFSGSWNDLYTGCLAENKL 219
             S+D    + A +++ L+   +L    P     GF   ++S R + + ++  +G L +   
Sbjct:   291 SADAAAFTYAGDSSRLSGSYNLRKNPPSY---GFRHAETSVRINHN-SENQSGLLID--W 344

Query:   220 ERNDEVSLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLH 279
             E+    S+ K  + K+G K V  DENRR+TY Q   SL++SS+ T  D + KQL  VGL 
Sbjct:   345 EKEFPPSVVKAVN-KYGMKNV--DENRRDTYNQNSASLQDSSIFTLLDDNLKQLTPVGLK 401

Query:   280 SEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVEN-DLAPQRPLLLS 336
             +E+GY RSLAR+AAN+GPVAW  A  RIE+ LP G  FGPGWV EN +  PQ+  L+S
Sbjct:   402 AEYGYARSLARYAANIGPVAWTFANVRIEKLLPTGTEFGPGWVGENPENPPQQQNLMS 459

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009506 "plasmodesma" evidence=IDA

UNIPROTKB|F1N3J5 BRD9 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 184 (69.8 bits), Expect = 8.1e-11, P = 8.1e-11
 Identities = 46/129 (35%), Positives = 69/129 (53%)

Query:    54 PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI- 112
             P Y  +I+HPMDFGT+++K+A   Y ++ +F+ D  L+C NAM YN PDT+Y++ A+ I 
Sbjct:   171 PGYSMIIKHPMDFGTMKDKIAANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKIL 230

Query:   113 H---ELAKKNFENL-RQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSDVT 168
             H   ++  K    L  +D+   EP  +VV    P      K   RPS E     F  +  
Sbjct:   231 HAGFKMMSKQAALLGNEDTAAEEPVPEVV----PVHVETAKKSKRPSREVISCVFEPEGN 286

Query:   169 LASGAENTA 177
               S  ++TA
Sbjct:   287 ACSLTDSTA 295

GO:0070577 "histone acetyl-lysine binding" evidence=IEA

MGI|MGI:2145317 Brd9 "bromodomain containing 9" [Mus musculus (taxid:10090)]

 Score = 182 (69.1 bits), Expect = 1.3e-10, P = 1.3e-10
 Identities = 40/101 (39%), Positives = 58/101 (57%)

Query:    54 PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI- 112
             P Y  +I+HPMDFGT+++K+    Y ++ +F+ D  L+C NAM YN PDT+Y++ A+ I 
Sbjct:   171 PGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKIL 230

Query:   113 HELAKKNFENLRQDSDD---NEPETKVVRRGRPPTKNFKKP 150
             H   K   +     S+D    EP  +VV      TK  KKP
Sbjct:   231 HAGFKMMSKAALLGSEDPAAEEPVPEVVPVQVETTKKSKKP 271

GO:0005575 "cellular_component" evidence=ND

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0016568 "chromatin modification" evidence=IEA

GO:0070577 "histone acetyl-lysine binding" evidence=ISO

MGI|MGI:1888520 Brd4 "bromodomain containing 4" [Mus musculus (taxid:10090)]

 Score = 174 (66.3 bits), Expect = 1.3e-10, Sum P(3) = 1.3e-10
 Identities = 40/114 (35%), Positives = 59/114 (51%)

Query:    53 LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
             L DYC++I+HPMD  T+++KL +  Y   ++F  DV L+ SN  +YN PD      AR +
Sbjct:   388 LHDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKL 447

Query:   113 HELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSD 166
              ++ +  F  +      +EPE  VV    P      K +  PS   + SD SSD
Sbjct:   448 QDVFEMRFAKM-----PDEPEEPVVTVSSPAVPPPTKVVAPPSSSDSSSDSSSD 496

GO:0000114 "regulation of transcription involved in G1 phase of mitotic cell cycle" evidence=ISO

GO:0000790 "nuclear chromatin" evidence=IDA

GO:0000794 "condensed nuclear chromosome" evidence=ISO;IDA

GO:0001833 "inner cell mass cell proliferation" evidence=IMP

GO:0003677 "DNA binding" evidence=IDA

GO:0003682 "chromatin binding" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0006468 "protein phosphorylation" evidence=IPI

GO:0007059 "chromosome segregation" evidence=IMP

GO:0010971 "positive regulation of G2/M transition of mitotic cell cycle" evidence=ISO

GO:0032968 "positive regulation of transcription elongation from RNA polymerase II promoter" evidence=ISO

GO:0043388 "positive regulation of DNA binding" evidence=IDA

GO:0043983 "histone H4-K12 acetylation" evidence=IMP

GO:0044154 "histone H3-K14 acetylation" evidence=IMP

RGD|1307359 Brd9 "bromodomain containing 9" [Rattus norvegicus (taxid:10116)]

 Score = 181 (68.8 bits), Expect = 1.7e-10, P = 1.7e-10
 Identities = 40/102 (39%), Positives = 59/102 (57%)

Query:    54 PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI- 112
             P Y  +I+HPMDFGT+++K+    Y ++ +F+ D  L+C NAM YN PDT+Y++ A+ I 
Sbjct:   171 PGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKIL 230

Query:   113 H---ELAKKNFENL-RQDSDDNEPETKVVRRGRPPTKNFKKP 150
             H   ++  K    L  +D    EP  +VV      TK  KKP
Sbjct:   231 HAGFKMMSKQAALLGSEDPAVEEPVPEVVPVQVETTKKSKKP 272

GO:0070577 "histone acetyl-lysine binding" evidence=IEA;ISO

UNIPROTKB|Q9H8M2 BRD9 "Bromodomain-containing protein 9" [Homo sapiens (taxid:9606)]

 Score = 179 (68.1 bits), Expect = 2.1e-10, Sum P(2) = 2.1e-10
 Identities = 39/102 (38%), Positives = 59/102 (57%)

Query:    54 PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI- 112
             P Y  +I+HPMDFGT+++K+    Y ++ +F+ D  L+C NAM YN PDT+Y++ A+ I 
Sbjct:   171 PGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKIL 230

Query:   113 H---ELAKKNFENL-RQDSDDNEPETKVVRRGRPPTKNFKKP 150
             H   ++  K    L  +D+   EP  +VV       K  KKP
Sbjct:   231 HAGFKMMSKQAALLGNEDTAVEEPVPEVVPVQVETAKKSKKP 272

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0016568 "chromatin modification" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=NAS

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0070577 "histone acetyl-lysine binding" evidence=IDA

UNIPROTKB|E9PSF3 BRPF3 "Bromodomain and PHD finger-containing protein 3" [Homo sapiens (taxid:9606)]

 Score = 179 (68.1 bits), Expect = 4.7e-10, P = 4.7e-10
 Identities = 37/84 (44%), Positives = 53/84 (63%)

Query:    52 ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
             E+PDY E I  PMDF T+R KL +  Y TLE+FE+D  LI +N M+YNA DTI+ R A  
Sbjct:   622 EVPDYLEFISKPMDFSTMRRKLESHLYRTLEEFEEDFNLIVTNCMKYNAKDTIFHRAAVR 681

Query:   112 IHELAKKNFENLRQDSDD--NEPE 133
             + +L      + R+ +++   +PE
Sbjct:   682 LRDLGGAILRHARRQAENIGYDPE 705

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|B7ZLN5 BRPF3 "Bromodomain and PHD finger-containing protein 3" [Homo sapiens (taxid:9606)]

 Score = 179 (68.1 bits), Expect = 5.1e-10, P = 5.1e-10
 Identities = 37/84 (44%), Positives = 53/84 (63%)

Query:    52 ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
             E+PDY E I  PMDF T+R KL +  Y TLE+FE+D  LI +N M+YNA DTI+ R A  
Sbjct:   622 EVPDYLEFISKPMDFSTMRRKLESHLYRTLEEFEEDFNLIVTNCMKYNAKDTIFHRAAVR 681

Query:   112 IHELAKKNFENLRQDSDD--NEPE 133
             + +L      + R+ +++   +PE
Sbjct:   682 LRDLGGAILRHARRQAENIGYDPE 705

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	594
cd04369	99	cd04369, Bromodomain, Bromodomain	5e-27
smart00297	107	smart00297, BROMO, bromo domain	4e-24
cd05509	101	cd05509, Bromo_gcn5_like, Bromodomain; Gcn5_like s	2e-22
pfam00439	84	pfam00439, Bromodomain, Bromodomain	6e-22
cd05512	98	cd05512, Bromo_brd1_like, Bromodomain; brd1_like s	6e-20
cd05498	102	cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_lik	2e-19
cd05513	98	cd05513, Bromo_brd7_like, Bromodomain, brd7_like s	9e-18
cd05528	112	cd05528, Bromo_AAA, Bromodomain; sub-family co-occ	4e-17
cd05511	112	cd05511, Bromo_TFIID, Bromodomain, TFIID-like subf	1e-16
cd05506	99	cd05506, Bromo_plant1, Bromodomain, uncharacterize	4e-16
cd05500	103	cd05500, Bromo_BDF1_2_I, Bromodomain	2e-14
cd05529	128	cd05529, Bromo_WDR9_I_like, Bromodomain; WDR9 repe	1e-13
cd05499	102	cd05499, Bromo_BDF1_2_II, Bromodomain	1e-13
cd05504	115	cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like o	6e-13
cd05516	107	cd05516, Bromo_SNF2L2, Bromodomain, SNF2L2-like su	2e-12
cd05496	119	cd05496, Bromo_WDR9_II, Bromodomain; WDR9 repeat I	4e-12
cd05515	105	cd05515, Bromo_polybromo_V, Bromodomain, polybromo	9e-12
cd05507	104	cd05507, Bromo_brd8_like, Bromodomain, brd8_like s	3e-11
cd05510	112	cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like s	5e-11
cd05517	103	cd05517, Bromo_polybromo_II, Bromodomain, polybrom	1e-10
cd05502	109	cd05502, Bromo_tif1_like, Bromodomain; tif1_like s	2e-10
cd05503	97	cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BA	3e-10
cd05505	97	cd05505, Bromo_WSTF_like, Bromodomain; Williams sy	1e-09
cd05501	102	cd05501, Bromo_SP100C_like, Bromodomain, SP100C_li	1e-09
cd05495	108	cd05495, Bromo_cbp_like, Bromodomain, cbp_like sub	7e-09
COG5076	371	COG5076, COG5076, Transcription factor involved in	1e-08
cd05520	103	cd05520, Bromo_polybromo_III, Bromodomain, polybro	2e-08
cd05497	107	cd05497, Bromo_Brdt_I_like, Bromodomain, Brdt_like	2e-08
cd05518	103	cd05518, Bromo_polybromo_IV, Bromodomain, polybrom	2e-07
cd05524	113	cd05524, Bromo_polybromo_I, Bromodomain, polybromo	2e-07
cd05522	104	cd05522, Bromo_Rsc1_2_II, Bromodomain, repeat II i	3e-07
cd05508	99	cd05508, Bromo_RACK7, Bromodomain, RACK7_like subf	3e-07
cd05521	106	cd05521, Bromo_Rsc1_2_I, Bromodomain, repeat I in	5e-07
cd05519	103	cd05519, Bromo_SNF2, Bromodomain, SNF2-like subfam	2e-06
cd05492	109	cd05492, Bromo_ZMYND11, Bromodomain; ZMYND11_like	3e-04
cd05525	106	cd05525, Bromo_ASH1, Bromodomain; ASH1_like sub-fa	0.004

>gnl|CDD|99922 cd04369, Bromodomain, Bromodomain

 Score =  104 bits (262), Expect = 5e-27
 Identities = 39/89 (43%), Positives = 54/89 (60%), Gaps = 2/89 (2%)

Query: 32  LYQIKSYCCSSSIDFKM--DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVF 89
           L  +K      S  F    DP+E PDY EVI++PMD  T++ KL NG Y +LE+FE DV 
Sbjct: 9   LDALKKLKRDLSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEADVR 68

Query: 90  LICSNAMQYNAPDTIYFRQARSIHELAKK 118
           LI SNA  YN P +  ++ A+ + +L +K
Sbjct: 69  LIFSNAKTYNGPGSPIYKDAKKLEKLFEK 97

Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine. Length = 99

>gnl|CDD|197636 smart00297, BROMO, bromo domain

 Score = 97.0 bits (242), Expect = 4e-24
 Identities = 30/90 (33%), Positives = 52/90 (57%)

Query: 34  QIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICS 93
           ++ S+  S      +  +E PDY ++I+ PMD  T++ KL NG Y+++E+F  D  L+ S
Sbjct: 18  KLDSHPLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFS 77

Query: 94  NAMQYNAPDTIYFRQARSIHELAKKNFENL 123
           NA  YN PD+  ++ A+ + +  +K    L
Sbjct: 78  NARTYNGPDSEVYKDAKKLEKFFEKKLREL 107

Length = 107

>gnl|CDD|99941 cd05509, Bromo_gcn5_like, Bromodomain; Gcn5_like subfamily

 Score = 91.8 bits (229), Expect = 2e-22
 Identities = 34/75 (45%), Positives = 44/75 (58%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           D EE PDY +VI+ PMD  T+  KL NG Y TLE+F  D+ LI  N   YN PDT Y++ 
Sbjct: 27  DKEEAPDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDTEYYKC 86

Query: 109 ARSIHELAKKNFENL 123
           A  + +   K  + L
Sbjct: 87  ANKLEKFFWKKLKEL 101

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. Length = 101

>gnl|CDD|215921 pfam00439, Bromodomain, Bromodomain

 Score = 89.8 bits (223), Expect = 6e-22
 Identities = 33/62 (53%), Positives = 43/62 (69%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           DPEE PDY EVI+ PMD  T+R KL +G Y +L +F KDV LI SNA+ YN  D+  ++ 
Sbjct: 22  DPEEYPDYYEVIKEPMDLSTIRQKLKSGKYKSLAEFLKDVELIFSNAITYNGEDSDIYKD 81

Query: 109 AR 110
           A+
Sbjct: 82  AK 83

Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. Length = 84

>gnl|CDD|99944 cd05512, Bromo_brd1_like, Bromodomain; brd1_like subfamily

 Score = 84.8 bits (210), Expect = 6e-20
 Identities = 32/68 (47%), Positives = 43/68 (63%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           D  E+PDY + I+ PMDF T+R KL +  Y TLE FE D  LI +N + YNA DTI++R 
Sbjct: 27  DLSEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNAKDTIFYRA 86

Query: 109 ARSIHELA 116
           A  + +  
Sbjct: 87  AVRLRDQG 94

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. Length = 98

>gnl|CDD|99930 cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_like subfamily, repeat II

 Score = 83.5 bits (207), Expect = 2e-19
 Identities = 30/72 (41%), Positives = 42/72 (58%), Gaps = 9/72 (12%)

Query: 49  DPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF 106
           DPE   L DY ++I+HPMD  T++ KL N  YA  ++F  DV L+ SN  +YN PD    
Sbjct: 29  DPEALGLHDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYNPPDH--- 85

Query: 107 RQARSIHELAKK 118
                +H +A+K
Sbjct: 86  ----PVHAMARK 93

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. Length = 102

>gnl|CDD|99945 cd05513, Bromo_brd7_like, Bromodomain, brd7_like subgroup

 Score = 78.2 bits (193), Expect = 9e-18
 Identities = 28/59 (47%), Positives = 43/59 (72%)

Query: 54  PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           P Y  +I+HPMDF T++ K+ N  Y ++E+F+ D  L+C NAM+YN PDTIY++ A+ +
Sbjct: 32  PGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYNKPDTIYYKAAKKL 90

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. Length = 98

>gnl|CDD|99957 cd05528, Bromo_AAA, Bromodomain; sub-family co-occurring with AAA domains

 Score = 77.0 bits (190), Expect = 4e-17
 Identities = 36/106 (33%), Positives = 52/106 (49%), Gaps = 16/106 (15%)

Query: 6   RERRLFLVRIQQITTKGLSWNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMD 65
           RE RLFL   + +            RL   K +   ++    +D EE+PDY E+I+ PMD
Sbjct: 2   RELRLFL---RDVLK----------RLASDKRF---NAFTKPVDEEEVPDYYEIIKQPMD 45

Query: 66  FGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
             T+  KL    Y T + F KD+ LI +NA++YN       +  RS
Sbjct: 46  LQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYNPDRDPADKLIRS 91

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. Length = 112

>gnl|CDD|99943 cd05511, Bromo_TFIID, Bromodomain, TFIID-like subfamily

 Score = 75.4 bits (186), Expect = 1e-16
 Identities = 26/73 (35%), Positives = 51/73 (69%)

Query: 46  FKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY 105
             ++ +++PDY ++I+ PMD  T+R K++   Y + E+F +D+ LI  N++ YN PD++Y
Sbjct: 23  TPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDSVY 82

Query: 106 FRQARSIHELAKK 118
            ++A+ + ELA++
Sbjct: 83  TKKAKEMLELAEE 95

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. Length = 112

>gnl|CDD|99938 cd05506, Bromo_plant1, Bromodomain, uncharacterized subfamily specific to plants

 Score = 73.5 bits (181), Expect = 4e-16
 Identities = 29/67 (43%), Positives = 41/67 (61%), Gaps = 7/67 (10%)

Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
            LPDY ++I+ PMD GTV+ KL  G Y++ E+F  DV L  +NAM+YN P          
Sbjct: 31  GLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPPGN-------D 83

Query: 112 IHELAKK 118
           +H +AK+
Sbjct: 84  VHTMAKE 90

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. Length = 99

>gnl|CDD|99932 cd05500, Bromo_BDF1_2_I, Bromodomain

 Score = 68.9 bits (169), Expect = 2e-14
 Identities = 24/83 (28%), Positives = 42/83 (50%), Gaps = 8/83 (9%)

Query: 43  SIDFK--MDPEEL--PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQY 98
           +  F   +DP +L  P Y  +I+ PMD GT+  KL +  Y ++E+F  D  L+  N + +
Sbjct: 22  ARPFLVPVDPVKLNIPHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTF 81

Query: 99  NAPDTIYFRQARSIHELAKKNFE 121
           N P+    +  + +    +  FE
Sbjct: 82  NGPEHPVSQMGKRL----QAAFE 100

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. Length = 103

>gnl|CDD|99958 cd05529, Bromo_WDR9_I_like, Bromodomain; WDR9 repeat I_like subfamily

 Score = 67.7 bits (166), Expect = 1e-13
 Identities = 23/64 (35%), Positives = 36/64 (56%)

Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
             PDY   +  PMD  T+R++L N  Y +LE    DV LI SNA  +N P++   ++A+ 
Sbjct: 57  WYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLILSNAETFNEPNSEIAKKAKR 116

Query: 112 IHEL 115
           + + 
Sbjct: 117 LSDW 120

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. Length = 128

>gnl|CDD|99931 cd05499, Bromo_BDF1_2_II, Bromodomain

 Score = 66.5 bits (163), Expect = 1e-13
 Identities = 26/72 (36%), Positives = 38/72 (52%), Gaps = 2/72 (2%)

Query: 49  DPEEL--PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF 106
           DP  L  P+Y  +I+ PMD GT+  KL NG Y + ++FE+DV LI  N   +N   T  +
Sbjct: 29  DPVALNIPNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFNPEGTDVY 88

Query: 107 RQARSIHELAKK 118
                + E+   
Sbjct: 89  MMGHQLEEVFND 100

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. Length = 102

>gnl|CDD|99936 cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like or BAZ1A_like subfamily

 Score = 65.1 bits (159), Expect = 6e-13
 Identities = 22/48 (45%), Positives = 31/48 (64%)

Query: 52 ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYN 99
          E+PDY ++I+ PMD GT++ KL  G Y   E+F  D+ L+ SN   YN
Sbjct: 41 EVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLVFSNCFLYN 88

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. Length = 115

>gnl|CDD|99947 cd05516, Bromo_SNF2L2, Bromodomain, SNF2L2-like subfamily, specific to animals

 Score = 63.2 bits (154), Expect = 2e-12
 Identities = 23/66 (34%), Positives = 39/66 (59%)

Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
           ELP+Y E+I  P+DF  ++ ++ N  Y +LE  EKDV L+C NA  +N   ++ +  +  
Sbjct: 36  ELPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNAQTFNLEGSLIYEDSIV 95

Query: 112 IHELAK 117
           +  + K
Sbjct: 96  LQSVFK 101

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. Length = 107

>gnl|CDD|99928 cd05496, Bromo_WDR9_II, Bromodomain; WDR9 repeat II_like subfamily

 Score = 62.9 bits (153), Expect = 4e-12
 Identities = 26/62 (41%), Positives = 35/62 (56%), Gaps = 2/62 (3%)

Query: 40 CSSSIDFK--MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQ 97
          C  S  F+  +D  + PDY ++I+ PMD GTV+  L  G Y    +F KDV LI SN+  
Sbjct: 20 CEDSEPFRQPVDLLKYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSNSKS 79

Query: 98 YN 99
          Y 
Sbjct: 80 YT 81

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. Length = 119

>gnl|CDD|99946 cd05515, Bromo_polybromo_V, Bromodomain, polybromo repeat V

 Score = 61.6 bits (150), Expect = 9e-12
 Identities = 21/65 (32%), Positives = 38/65 (58%)

Query: 51  EELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQAR 110
            E PDY +VI+ P+D   +R+K+    Y +L+    D  L+  NA +YN PD+  ++ A 
Sbjct: 34  SEYPDYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNACKYNEPDSQIYKDAL 93

Query: 111 SIHEL 115
           ++ ++
Sbjct: 94  TLQKV 98

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. Length = 105

>gnl|CDD|99939 cd05507, Bromo_brd8_like, Bromodomain, brd8_like subgroup

 Score = 60.1 bits (146), Expect = 3e-11
 Identities = 19/61 (31%), Positives = 32/61 (52%)

Query: 54  PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH 113
           P Y  V+  PMD  T++  + NG   +  +F++DV L+  NA+ YN+ D   +  A  + 
Sbjct: 34  PGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYNSSDHDVYLMAVEMQ 93

Query: 114 E 114
            
Sbjct: 94  R 94

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. Length = 104

>gnl|CDD|99942 cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like subfamily

 Score = 59.4 bits (144), Expect = 5e-11
 Identities = 31/95 (32%), Positives = 49/95 (51%), Gaps = 4/95 (4%)

Query: 32  LYQIKSYCCSSSIDF--KMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVF 89
           L ++K+Y    S  F  K+   E PDY ++I+ PMD GT+  KL N  Y +  +F  D+ 
Sbjct: 16  LNELKTYT-EHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLN 74

Query: 90  LICSNAMQYNA-PDTIYFRQARSIHELAKKNFENL 123
           LI  N + YN+ P     R A  + + A+   + +
Sbjct: 75  LIWKNCLLYNSDPSHPLRRHANFMKKKAEHLLKLI 109

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. Length = 112

>gnl|CDD|99948 cd05517, Bromo_polybromo_II, Bromodomain, polybromo repeat II

 Score = 58.2 bits (141), Expect = 1e-10
 Identities = 23/73 (31%), Positives = 41/73 (56%), Gaps = 2/73 (2%)

Query: 46  FKMDP--EELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDT 103
           F+  P     PDY  VI+ P+D  T+  ++ +G Y ++E  EKD+ L+  NA  +N P +
Sbjct: 27  FQKLPSKVLYPDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDLMVKNAKTFNEPGS 86

Query: 104 IYFRQARSIHELA 116
             ++ A +I ++ 
Sbjct: 87  QVYKDANAIKKIF 99

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. Length = 103

>gnl|CDD|99934 cd05502, Bromo_tif1_like, Bromodomain; tif1_like subfamily

 Score = 58.1 bits (141), Expect = 2e-10
 Identities = 25/84 (29%), Positives = 43/84 (51%), Gaps = 7/84 (8%)

Query: 38  YCCSSSIDF-KMDPEELPDYCEVIEHPMDFGTVRNKLANGA---YATLEQFEKDVFLICS 93
           YC   S+ F +     +P+Y ++I+ PMD   +R KL   +   Y++ E+F  DV L+  
Sbjct: 17  YCHELSLPFHEPVSPSVPNYYKIIKTPMDLSLIRKKLQPKSPQHYSSPEEFVADVRLMFK 76

Query: 94  NAMQYNAPDTIYFRQARSIHELAK 117
           N  ++N  D+     A++  EL  
Sbjct: 77  NCYKFNEEDSEV---AQAGKELEL 97

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. Length = 109

>gnl|CDD|99935 cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BAZ2B_like subfamily

 Score = 57.0 bits (138), Expect = 3e-10
 Identities = 23/55 (41%), Positives = 36/55 (65%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDT 103
           + + +P Y ++I+ PMDF T+R KL +G Y TLE+F +DV L+  N   +N  D+
Sbjct: 26  NTKLVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFNEDDS 80

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. Length = 97

>gnl|CDD|99937 cd05505, Bromo_WSTF_like, Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like)

 Score = 55.6 bits (134), Expect = 1e-09
 Identities = 19/53 (35%), Positives = 35/53 (66%)

Query: 51  EELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDT 103
           +E  DY +VI +PMD  T++ K + G+Y+++++F  D+ L+ SNA +Y    +
Sbjct: 28  DEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYYENGS 80

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. Length = 97

>gnl|CDD|99933 cd05501, Bromo_SP100C_like, Bromodomain, SP100C_like subfamily

 Score = 55.5 bits (134), Expect = 1e-09
 Identities = 28/90 (31%), Positives = 41/90 (45%), Gaps = 4/90 (4%)

Query: 36  KSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNA 95
           K YC S S  F   P  + DYC+ I+ PM    V+ +L    Y T+E F +D+ LI  N 
Sbjct: 13  KVYCMSKSGFFISKPYYIRDYCQGIKEPMWLNKVKERLNERVYHTVEGFVRDMRLIFHNH 72

Query: 96  MQYNAPDTIYFRQARSIHELAKKNFENLRQ 125
             +   D       +    L KK  +N ++
Sbjct: 73  KLFYKDD----DFGQVGITLEKKFEKNFKE 98

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. Length = 102

>gnl|CDD|99927 cd05495, Bromo_cbp_like, Bromodomain, cbp_like subfamily

 Score = 53.6 bits (129), Expect = 7e-09
 Identities = 23/53 (43%), Positives = 33/53 (62%), Gaps = 2/53 (3%)

Query: 49 DPEEL--PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYN 99
          DP+ L  PDY +++++PMD  T+R KL  G Y    Q+  DV+L+  NA  YN
Sbjct: 30 DPKLLGIPDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLYN 82

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. Length = 108

>gnl|CDD|227408 COG5076, COG5076, Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription]

 Score = 56.7 bits (137), Expect = 1e-08
 Identities = 24/54 (44%), Positives = 32/54 (59%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPD 102
              E PDY E+I+ PMD  T++ KL NG Y + E+F  D+ L+  N   YN PD
Sbjct: 174 SKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNCKLYNGPD 227

Length = 371

>gnl|CDD|99951 cd05520, Bromo_polybromo_III, Bromodomain, polybromo repeat III

 Score = 52.0 bits (125), Expect = 2e-08
 Identities = 24/65 (36%), Positives = 40/65 (61%)

Query: 54  PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH 113
           PDY + I++P+    +R KL NG Y TLE+ E D+ L+  NA +YN P++  ++ A  + 
Sbjct: 37  PDYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYNVPNSRIYKDAEKLQ 96

Query: 114 ELAKK 118
           +L + 
Sbjct: 97  KLMQA 101

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. Length = 103

>gnl|CDD|99929 cd05497, Bromo_Brdt_I_like, Bromodomain, Brdt_like subfamily, repeat I

 Score = 52.0 bits (125), Expect = 2e-08
 Identities = 21/68 (30%), Positives = 38/68 (55%), Gaps = 2/68 (2%)

Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP-DTIYFRQAR 110
            LPDY ++I+ PMD GT++ +L N  Y +  +  +D   + +N   YN P D +    A+
Sbjct: 36  NLPDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIYNKPGDDVVL-MAQ 94

Query: 111 SIHELAKK 118
           ++ +L  +
Sbjct: 95  TLEKLFLQ 102

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. Length = 107

>gnl|CDD|99949 cd05518, Bromo_polybromo_IV, Bromodomain, polybromo repeat IV

 Score = 49.4 bits (118), Expect = 2e-07
 Identities = 18/48 (37%), Positives = 27/48 (56%)

Query: 52 ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYN 99
          + PDY ++I  P+D  T+ + + N  YAT E+   D  L+  NA  YN
Sbjct: 35 DYPDYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNARHYN 82

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. Length = 103

>gnl|CDD|99954 cd05524, Bromo_polybromo_I, Bromodomain, polybromo repeat I

 Score = 49.3 bits (118), Expect = 2e-07
 Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 4/78 (5%)

Query: 54  PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH 113
           P+Y EV+ +P+D   ++ KL    Y  ++    D  L+ +NA  Y  PD+   + A  + 
Sbjct: 39  PEYYEVVSNPIDLLKIQQKLKTEEYDDVDDLTADFELLINNAKAYYKPDSPEHKDACKLW 98

Query: 114 ELAKKNFENLRQDSDDNE 131
           EL    F + R +     
Sbjct: 99  EL----FLSARNEVLSGG 112

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. Length = 113

>gnl|CDD|99953 cd05522, Bromo_Rsc1_2_II, Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi

 Score = 48.4 bits (116), Expect = 3e-07
 Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 4/72 (5%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           D    P+Y + I +P+    ++ K+    Y + +QF  D+ L+  NA  YN  D+  ++ 
Sbjct: 33  DKAREPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAKLYNENDSQEYKD 92

Query: 109 A----RSIHELA 116
           A    +    LA
Sbjct: 93  AVLLEKEARLLA 104

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. Length = 104

>gnl|CDD|99940 cd05508, Bromo_RACK7, Bromodomain, RACK7_like subfamily

 Score = 48.1 bits (115), Expect = 3e-07
 Identities = 21/70 (30%), Positives = 36/70 (51%)

Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +D E+ PDY + +  PMD  T+   +   AY + + F  D   I  NA+ YN  D    +
Sbjct: 27  VDLEQFPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNAIIYNGGDHKLTQ 86

Query: 108 QARSIHELAK 117
            A++I ++ +
Sbjct: 87  AAKAIVKICE 96

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. Length = 99

>gnl|CDD|99952 cd05521, Bromo_Rsc1_2_I, Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi

 Score = 48.1 bits (115), Expect = 5e-07
 Identities = 17/58 (29%), Positives = 33/58 (56%), Gaps = 2/58 (3%)

Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQA 109
           + PDY ++I++P+   TV+ +L +  Y   ++F  D+  I  NA  YN   ++ ++ A
Sbjct: 36  DYPDYYKIIKNPLSLNTVKKRLPH--YTNAQEFVNDLAQIPWNARLYNTKGSVIYKYA 91

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. Length = 106

>gnl|CDD|99950 cd05519, Bromo_SNF2, Bromodomain, SNF2-like subfamily, specific to fungi

 Score = 46.2 bits (110), Expect = 2e-06
 Identities = 20/67 (29%), Positives = 37/67 (55%)

Query: 54  PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH 113
           PDY  +I+ P+    ++ ++   AY +LE+F +D  L+ +NA  YN   +I +  A  + 
Sbjct: 37  PDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANARTYNQEGSIVYEDAVEME 96

Query: 114 ELAKKNF 120
           +  KK +
Sbjct: 97  KAFKKKY 103

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. Length = 103

>gnl|CDD|99924 cd05492, Bromo_ZMYND11, Bromodomain; ZMYND11_like sub-family

 Score = 40.4 bits (95), Expect = 3e-04
 Identities = 19/99 (19%), Positives = 39/99 (39%), Gaps = 17/99 (17%)

Query: 31  RLYQIKSYCCSSS----IDFKMDPEELPDYCEV--IEHPMDFGTVRNKLANGAYATLEQF 84
            + ++KS+    +    I      +          I   +D   ++ K+ +  Y +LE+F
Sbjct: 8   IVSRMKSWLPPDTTNRAIVLNKRGKATKLPKRRRLIHTHLDVADIQEKINSEKYTSLEEF 67

Query: 85  EKDVFLICSN--------AMQYNAPDTIYFRQARSIHEL 115
           + D  L+  N        + QY+A   +Y     + H+L
Sbjct: 68  KADALLLLHNTAIFHGADSEQYDAARWLY---RDTCHDL 103

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. Length = 109

>gnl|CDD|99955 cd05525, Bromo_ASH1, Bromodomain; ASH1_like sub-family

 Score = 37.0 bits (86), Expect = 0.004
 Identities = 17/46 (36%), Positives = 25/46 (54%)

Query: 54 PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYN 99
          PDY E I  P+D  T+  ++  G Y T E F+ D+  +  NA +Y 
Sbjct: 39 PDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRNAEKYY 84

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. Length = 106

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	594
cd05505	97	Bromo_WSTF_like Bromodomain; Williams syndrome tra	99.92
cd05497	107	Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily	99.92
cd05503	97	Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like s	99.91
cd05496	119	Bromo_WDR9_II Bromodomain; WDR9 repeat II_like sub	99.91
cd05504	115	Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_li	99.91
cd05495	108	Bromo_cbp_like Bromodomain, cbp_like subfamily. Cb	99.91
cd05507	104	Bromo_brd8_like Bromodomain, brd8_like subgroup. I	99.91
cd05510	112	Bromo_SPT7_like Bromodomain; SPT7_like subfamily.	99.91
cd05509	101	Bromo_gcn5_like Bromodomain; Gcn5_like subfamily.	99.91
cd05508	99	Bromo_RACK7 Bromodomain, RACK7_like subfamily. RAC	99.9
cd05513	98	Bromo_brd7_like Bromodomain, brd7_like subgroup. T	99.9
cd05499	102	Bromo_BDF1_2_II Bromodomain. BDF1/BDF2 like subfam	99.9
cd05502	109	Bromo_tif1_like Bromodomain; tif1_like subfamily.	99.9
KOG1474	640	consensus Transcription initiation factor TFIID, s	99.9
cd05506	99	Bromo_plant1 Bromodomain, uncharacterized subfamil	99.9
cd05512	98	Bromo_brd1_like Bromodomain; brd1_like subfamily.	99.9
cd05498	102	Bromo_Brdt_II_like Bromodomain, Brdt_like subfamil	99.89
cd05500	103	Bromo_BDF1_2_I Bromodomain. BDF1/BDF2 like subfami	99.89
cd05528	112	Bromo_AAA Bromodomain; sub-family co-occurring wit	99.89
cd05511	112	Bromo_TFIID Bromodomain, TFIID-like subfamily. Hum	99.89
cd05501	102	Bromo_SP100C_like Bromodomain, SP100C_like subfami	99.89
cd05516	107	Bromo_SNF2L2 Bromodomain, SNF2L2-like subfamily, s	99.88
cd05524	113	Bromo_polybromo_I Bromodomain, polybromo repeat I.	99.87
cd05519	103	Bromo_SNF2 Bromodomain, SNF2-like subfamily, speci	99.87
cd05529	128	Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like	99.86
cd05515	105	Bromo_polybromo_V Bromodomain, polybromo repeat V.	99.86
smart00297	107	BROMO bromo domain.	99.86
cd05520	103	Bromo_polybromo_III Bromodomain, polybromo repeat	99.86
cd05517	103	Bromo_polybromo_II Bromodomain, polybromo repeat I	99.85
cd05525	106	Bromo_ASH1 Bromodomain; ASH1_like sub-family. ASH1	99.84
cd05518	103	Bromo_polybromo_IV Bromodomain, polybromo repeat I	99.84
PF00439	84	Bromodomain: Bromodomain; InterPro: IPR001487 Brom	99.84
KOG0955	1051	consensus PHD finger protein BR140/LIN-49 [General	99.84
cd04369	99	Bromodomain Bromodomain. Bromodomains are found in	99.83
cd05522	104	Bromo_Rsc1_2_II Bromodomain, repeat II in Rsc1/2_l	99.82
cd05521	106	Bromo_Rsc1_2_I Bromodomain, repeat I in Rsc1/2_lik	99.81
cd05492	109	Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family	99.8
cd05526	110	Bromo_polybromo_VI Bromodomain, polybromo repeat V	99.66
COG5076	371	Transcription factor involved in chromatin remodel	99.65
KOG1245	1404	consensus Chromatin remodeling complex WSTF-ISWI,	99.62
KOG1472	720	consensus Histone acetyltransferase SAGA/ADA, cata	99.39
cd05494	114	Bromodomain_1 Bromodomain; uncharacterized subfami	99.19
cd05491	119	Bromo_TBP7_like Bromodomain; TBP7_like subfamily,	98.95
KOG0008	1563	consensus Transcription initiation factor TFIID, s	98.89
KOG0386	1157	consensus Chromatin remodeling complex SWI/SNF, co	98.74
KOG1827	629	consensus Chromatin remodeling complex RSC, subuni	98.69
KOG1828	418	consensus IRF-2-binding protein CELTIX-1, contains	98.62
KOG0008	1563	consensus Transcription initiation factor TFIID, s	98.53
KOG1472	720	consensus Histone acetyltransferase SAGA/ADA, cata	98.46
PF12024	245	DUF3512: Domain of unknown function (DUF3512); Int	98.33
KOG1828	418	consensus IRF-2-binding protein CELTIX-1, contains	98.27
KOG1474	640	consensus Transcription initiation factor TFIID, s	98.17
COG5076	371	Transcription factor involved in chromatin remodel	96.86
cd05493	131	Bromo_ALL-1 Bromodomain, ALL-1 like proteins. ALL-	95.86
KOG0644	1113	consensus Uncharacterized conserved protein, conta	90.06
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	85.87

>cd05505 Bromo_WSTF_like Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like)

Probab=99.92  E-value=2e-25  Score=196.17  Aligned_cols=95  Identities=25%  Similarity=0.349  Sum_probs=91.7

Q ss_pred             ccchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCH
Q 007651           25 WNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTI  104 (594)
Q Consensus        25 ~~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~  104 (594)
                      +.+|.+||.+|++++.+++|.+|||+..+|||+++|++||||+||++||+++.|.++++|.+||+|||.||+.||++++.
T Consensus         2 ~~~c~~il~~l~~~~~s~~F~~pv~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~~s~   81 (97)
T cd05505           2 LQKCEEILSKILKYRFSWPFREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYYENGSY   81 (97)
T ss_pred             HHHHHHHHHHHHhCCCcccccCCCChhhcccHHHHcCCcCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHCCCCCH
Confidence            35789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHH
Q 007651          105 YFRQARSIHELAKKN  119 (594)
Q Consensus       105 i~k~Ak~Le~lfek~  119 (594)
                      ++++|.+|++.|...
T Consensus        82 i~~~a~~le~~f~~~   96 (97)
T cd05505          82 VLSCMRKTEQCCVNL   96 (97)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999999765

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.

>cd05497 Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily, repeat I

Probab=99.92  E-value=2.8e-25  Score=198.27  Aligned_cols=98  Identities=22%  Similarity=0.368  Sum_probs=92.7

Q ss_pred             cch-HHHHHHHHhCCCCCCCcCCCCCC--CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCC
Q 007651           26 NWD-PQRLYQIKSYCCSSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPD  102 (594)
Q Consensus        26 ~wc-~qIL~kLk~~~~A~~F~ePVD~~--e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pd  102 (594)
                      +|+ ..||.+|.+++.+++|.+|||+.  .+||||+||++||||+||++||+++.|.++++|.+||+|||.||+.||+++
T Consensus         7 ~~~~~~il~~l~~~~~s~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~D~~li~~Na~~yN~~~   86 (107)
T cd05497           7 QYLLKVVLKALWKHKFAWPFQQPVDAVKLNLPDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIYNKPG   86 (107)
T ss_pred             HHHHHHHHHHHHhCCcCccccCCCCcccccCCcHHHHHcCcccHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHCCCC
Confidence            445 37899999999999999999987  699999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHhh
Q 007651          103 TIYFRQARSIHELAKKNFENL  123 (594)
Q Consensus       103 S~i~k~Ak~Le~lfek~~~~L  123 (594)
                      +.++++|..|++.|++.++++
T Consensus        87 s~i~~~A~~l~~~f~~~l~~~  107 (107)
T cd05497          87 DDVVLMAQTLEKLFLQKLAQM  107 (107)
T ss_pred             CHHHHHHHHHHHHHHHHHHcC
Confidence            999999999999999998764

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.

>cd05503 Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like subfamily

Probab=99.91  E-value=7.4e-25  Score=191.75  Aligned_cols=96  Identities=27%  Similarity=0.435  Sum_probs=92.7

Q ss_pred             ccchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCH
Q 007651           25 WNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTI  104 (594)
Q Consensus        25 ~~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~  104 (594)
                      +.+|..||.+|.+++.+.+|.+||++..+|+|+++|++||||+||++||+++.|+++++|..||+|||.||+.||++++.
T Consensus         2 ~~~c~~il~~l~~~~~~~~F~~pv~~~~~p~Y~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~~s~   81 (97)
T cd05503           2 LALCETILDEMEAHEDAWPFLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFNEDDSE   81 (97)
T ss_pred             HHHHHHHHHHHHcCCCchhhcCCCCccccCCHHHHhCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHCCCCCH
Confidence            35799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHH
Q 007651          105 YFRQARSIHELAKKNF  120 (594)
Q Consensus       105 i~k~Ak~Le~lfek~~  120 (594)
                      ++++|..|++.|++.|
T Consensus        82 i~~~a~~l~~~f~~~~   97 (97)
T cd05503          82 VGRAGHNMRKFFEKRW   97 (97)
T ss_pred             HHHHHHHHHHHHHHhC
Confidence            9999999999998864

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.

>cd05496 Bromo_WDR9_II Bromodomain; WDR9 repeat II_like subfamily

Probab=99.91  E-value=1.3e-24  Score=197.64  Aligned_cols=100  Identities=25%  Similarity=0.381  Sum_probs=95.5

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCC-CCH
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP-DTI  104 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~p-dS~  104 (594)
                      +.|.+||..|++++.+++|.+|||+..+|||++||++||||+||++||+++.|.++++|..||+|||.||+.||++ ++.
T Consensus         8 ~~c~~il~~l~~~~~s~~F~~PVd~~~~pdY~~iIk~PmDL~tIk~kL~~~~Y~~~~ef~~D~~lif~Na~~yN~~~~s~   87 (119)
T cd05496           8 KQCKELVNLMWDCEDSEPFRQPVDLLKYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSNSKSYTPNKRSR   87 (119)
T ss_pred             HHHHHHHHHHHhCCccccccCCCChhhcCcHHHHhCCcccHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCH
Confidence            3578999999999999999999999999999999999999999999999999999999999999999999999985 899


Q ss_pred             HHHHHHHHHHHHHHHHHhhhc
Q 007651          105 YFRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       105 i~k~Ak~Le~lfek~~~~L~~  125 (594)
                      +|.+|..|+..|++.+.++..
T Consensus        88 i~~~a~~L~~~F~~~~~~l~~  108 (119)
T cd05496          88 IYSMTLRLSALFEEHIKKIIS  108 (119)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999988754

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.

>cd05504 Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_like subfamily

Probab=99.91  E-value=8.9e-25  Score=197.29  Aligned_cols=103  Identities=29%  Similarity=0.418  Sum_probs=98.8

Q ss_pred             CCcccchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCC
Q 007651           22 GLSWNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP  101 (594)
Q Consensus        22 gLs~~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~p  101 (594)
                      ...+.+|.+||.+|++++.+++|.+|||...+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||++
T Consensus        11 ~~~~~~c~~il~~l~~~~~s~~F~~pvd~~~~pdY~~vI~~PmDL~tI~~kL~~~~Y~s~~~f~~Dv~LI~~Na~~yN~~   90 (115)
T cd05504          11 PLNLSALEQLLVEIVKHKDSWPFLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLVFSNCFLYNPE   90 (115)
T ss_pred             HHHHHHHHHHHHHHHhCCCchhhcCCCCccccccHHHHhcCcccHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHCCC
Confidence            44567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHhhh
Q 007651          102 DTIYFRQARSIHELAKKNFENLR  124 (594)
Q Consensus       102 dS~i~k~Ak~Le~lfek~~~~L~  124 (594)
                      ++.++++|..|+..|++.++++.
T Consensus        91 ~s~i~~~A~~l~~~f~~~~~~~~  113 (115)
T cd05504          91 HTSVYKAGTRLQRFFIKRCRKLG  113 (115)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999999999998874

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.

>cd05495 Bromo_cbp_like Bromodomain, cbp_like subfamily

Probab=99.91  E-value=2e-24  Score=192.94  Aligned_cols=98  Identities=26%  Similarity=0.443  Sum_probs=93.0

Q ss_pred             chHHHHHHHHhC-CCCCCCcCCCCCC--CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCC
Q 007651           27 WDPQRLYQIKSY-CCSSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDT  103 (594)
Q Consensus        27 wc~qIL~kLk~~-~~A~~F~ePVD~~--e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS  103 (594)
                      .|..||++|+++ +.+++|.+|||++  ++||||++|++||||+||++||+++.|.++.+|.+||+|||.||+.||++++
T Consensus         7 ~~~~il~~l~~~~~~s~~F~~PV~~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~D~~li~~Na~~yN~~~s   86 (108)
T cd05495           7 ALMPTLEKLYKQDPESLPFRQPVDPKLLGIPDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLYNRKTS   86 (108)
T ss_pred             HHHHHHHHHHHcCcccchhcCCCCccccCCCcHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Confidence            356889999999 9999999999998  6999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhh
Q 007651          104 IYFRQARSIHELAKKNFENLR  124 (594)
Q Consensus       104 ~i~k~Ak~Le~lfek~~~~L~  124 (594)
                      .++++|.+|++.|++.++.+.
T Consensus        87 ~i~~~a~~l~~~F~~~~~~~~  107 (108)
T cd05495          87 RVYKYCTKLAEVFEQEIDPVM  107 (108)
T ss_pred             HHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999988653

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.

>cd05507 Bromo_brd8_like Bromodomain, brd8_like subgroup

Probab=99.91  E-value=1.7e-24  Score=191.99  Aligned_cols=96  Identities=23%  Similarity=0.362  Sum_probs=92.2

Q ss_pred             hHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHH
Q 007651           28 DPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR  107 (594)
Q Consensus        28 c~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k  107 (594)
                      |..||.+|++++.+++|.+|||.+.+|+|+++|++||||+||++||+++.|.++++|.+||+|||.||++||++++.++.
T Consensus         8 ~~~il~~l~~~~~a~~F~~pV~~~~~p~Y~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~~s~v~~   87 (104)
T cd05507           8 ILLVYRTLASHRYASVFLKPVTEDIAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYNSSDHDVYL   87 (104)
T ss_pred             HHHHHHHHHcCCCCHhhcCCCCccccCCHHHHhCCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHH
Confidence            56899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhh
Q 007651          108 QARSIHELAKKNFENL  123 (594)
Q Consensus       108 ~Ak~Le~lfek~~~~L  123 (594)
                      +|+.|++.+.+.++.+
T Consensus        88 ~A~~l~~~~~~~~~~~  103 (104)
T cd05507          88 MAVEMQREVMSQIQQL  103 (104)
T ss_pred             HHHHHHHHHHHHhhcc
Confidence            9999999998887653

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.

>cd05510 Bromo_SPT7_like Bromodomain; SPT7_like subfamily

Probab=99.91  E-value=3.8e-24  Score=192.68  Aligned_cols=101  Identities=29%  Similarity=0.439  Sum_probs=95.2

Q ss_pred             ccchHHHHHHHHhC-CCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCC
Q 007651           25 WNWDPQRLYQIKSY-CCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDT  103 (594)
Q Consensus        25 ~~wc~qIL~kLk~~-~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS  103 (594)
                      ...|.+||.+|+++ +.+++|.+||+++++|||+++|++||||+||++||+++.|+++++|.+||+|||.||+.||++++
T Consensus         9 ~~~~~~il~~l~~~~~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~Li~~N~~~yN~~~s   88 (112)
T cd05510           9 YESLDKVLNELKTYTEHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWKNCLLYNSDPS   88 (112)
T ss_pred             HHHHHHHHHHHHhcCccccchhcCCChhhcCCHHHHhcCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Confidence            35688999999999 89999999999999999999999999999999999999999999999999999999999999765


Q ss_pred             -HHHHHHHHHHHHHHHHHHhhhc
Q 007651          104 -IYFRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       104 -~i~k~Ak~Le~lfek~~~~L~~  125 (594)
                       .++++|..|++.|++.+..+++
T Consensus        89 ~~~~~~A~~l~~~~~~~~~~~~~  111 (112)
T cd05510          89 HPLRRHANFMKKKAEHLLKLIPD  111 (112)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCC
Confidence             7889999999999999998853

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.

>cd05509 Bromo_gcn5_like Bromodomain; Gcn5_like subfamily

Probab=99.91  E-value=4.6e-24  Score=187.12  Aligned_cols=98  Identities=37%  Similarity=0.541  Sum_probs=94.5

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHH
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY  105 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i  105 (594)
                      ..|..||..|++++.+++|.+||++..+|+|+++|++||||+||++||+++.|.++++|..||+|||+||+.||++++.+
T Consensus         4 ~~~~~il~~l~~~~~a~~F~~pv~~~~~p~Y~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yN~~~s~~   83 (101)
T cd05509           4 TQLKKVLDSLKNHKSAWPFLEPVDKEEAPDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDTEY   83 (101)
T ss_pred             HHHHHHHHHHHhCCCchhhcCCCChhhcCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence            35779999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhh
Q 007651          106 FRQARSIHELAKKNFENL  123 (594)
Q Consensus       106 ~k~Ak~Le~lfek~~~~L  123 (594)
                      +++|..|++.|++.++++
T Consensus        84 ~~~a~~l~~~f~~~~~~~  101 (101)
T cd05509          84 YKCANKLEKFFWKKLKEL  101 (101)
T ss_pred             HHHHHHHHHHHHHHHhhC
Confidence            999999999999998864

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.

>cd05508 Bromo_RACK7 Bromodomain, RACK7_like subfamily

Probab=99.90  E-value=5.9e-24  Score=187.66  Aligned_cols=89  Identities=26%  Similarity=0.402  Sum_probs=85.1

Q ss_pred             HHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHH
Q 007651           30 QRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQA  109 (594)
Q Consensus        30 qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~A  109 (594)
                      .++.+++ ++.+++|.+||+++.+|||+++|++||||+||++||+++.|+++++|.+||+|||.||+.||++++.++.+|
T Consensus        10 ~~~~~~~-~~~s~~F~~PV~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~LI~~Na~~YN~~~s~i~~~A   88 (99)
T cd05508          10 FALERMK-QPGAEPFLKPVDLEQFPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNAIIYNGGDHKLTQAA   88 (99)
T ss_pred             HHHHHHh-CcCcchhcCCCChhhCCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
Confidence            5578888 899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 007651          110 RSIHELAKKN  119 (594)
Q Consensus       110 k~Le~lfek~  119 (594)
                      +.|.+.|++.
T Consensus        89 ~~l~~~~~~e   98 (99)
T cd05508          89 KAIVKICEQE   98 (99)
T ss_pred             HHHHHHHHhh
Confidence            9999988764

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.

>cd05513 Bromo_brd7_like Bromodomain, brd7_like subgroup

Probab=99.90  E-value=5.5e-24  Score=187.57  Aligned_cols=93  Identities=34%  Similarity=0.601  Sum_probs=88.4

Q ss_pred             chHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHH
Q 007651           27 WDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF  106 (594)
Q Consensus        27 wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~  106 (594)
                      .|.+||.+|++++.+++|..||+..++|||+++|++||||+||++||+++.|.++++|++||+|||.||+.||++++.+|
T Consensus         5 ~l~~il~~l~~~~~~~~F~~PV~~~~~pdY~~vIk~PmDL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yN~~~s~~~   84 (98)
T cd05513           5 ALEQLIRQLQRKDPHGFFAFPVTDFIAPGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYNKPDTIYY   84 (98)
T ss_pred             HHHHHHHHHHcCCccccccCcCCccccccHHHHHcCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            35689999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 007651          107 RQARSIHELAKKN  119 (594)
Q Consensus       107 k~Ak~Le~lfek~  119 (594)
                      ++|.+|.+...++
T Consensus        85 ~~A~~L~~~~~~~   97 (98)
T cd05513          85 KAAKKLLHSGMKI   97 (98)
T ss_pred             HHHHHHHHhhhhh
Confidence            9999998876554

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.

>cd05499 Bromo_BDF1_2_II Bromodomain

Probab=99.90  E-value=5.6e-24  Score=187.22  Aligned_cols=96  Identities=27%  Similarity=0.502  Sum_probs=91.2

Q ss_pred             ccchHHHHHHHHhC---CCCCCCcCCCCCC--CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhc
Q 007651           25 WNWDPQRLYQIKSY---CCSSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYN   99 (594)
Q Consensus        25 ~~wc~qIL~kLk~~---~~A~~F~ePVD~~--e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN   99 (594)
                      +++|.+||.+|.+.   +.+++|++|||+.  .+|||+++|++||||++|++||+++.|+++++|..||+|||.||+.||
T Consensus         2 ~~~c~~Il~~l~~~~~~~~s~~F~~pvd~~~~~~pdY~~~I~~P~dL~~I~~kl~~~~Y~s~~ef~~D~~li~~N~~~yn   81 (102)
T cd05499           2 LKFCEEVLKELMKPKHSAYNWPFLDPVDPVALNIPNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFN   81 (102)
T ss_pred             hHHHHHHHHHHHcccCCcccchhcCCCCccccCCCCHHHHhcCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            46899999999884   5799999999998  999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHH
Q 007651          100 APDTIYFRQARSIHELAKKNF  120 (594)
Q Consensus       100 ~pdS~i~k~Ak~Le~lfek~~  120 (594)
                      ++++.++++|..|++.|++.|
T Consensus        82 ~~~s~~~~~a~~l~~~fe~~~  102 (102)
T cd05499          82 PEGTDVYMMGHQLEEVFNDKW  102 (102)
T ss_pred             CCCCHHHHHHHHHHHHHHHhC
Confidence            999999999999999998864

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.

>cd05502 Bromo_tif1_like Bromodomain; tif1_like subfamily

Probab=99.90  E-value=1.4e-23  Score=187.11  Aligned_cols=99  Identities=21%  Similarity=0.375  Sum_probs=94.7

Q ss_pred             ccchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhC---CCCCCHHHHHHHHHHHHHHhhhhcCC
Q 007651           25 WNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLAN---GAYATLEQFEKDVFLICSNAMQYNAP  101 (594)
Q Consensus        25 ~~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~---g~Y~SieEF~~DVrLIf~NA~~YN~p  101 (594)
                      ..+|.+||.+|.+++.+++|.+||++ .+|+|+++|++||||+||++||++   +.|.++++|.+||+|||+||+.||++
T Consensus         6 ~~~c~~il~~l~~~~~s~~F~~pv~~-~~p~Y~~iI~~PmdL~tI~~kL~~~~~~~Y~s~~~f~~D~~li~~Na~~yN~~   84 (109)
T cd05502           6 QRKCERLLLELYCHELSLPFHEPVSP-SVPNYYKIIKTPMDLSLIRKKLQPKSPQHYSSPEEFVADVRLMFKNCYKFNEE   84 (109)
T ss_pred             HHHHHHHHHHHHhCCCChhhcCCCCC-CCCCHHHHCCCCccHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHCCC
Confidence            35688999999999999999999999 899999999999999999999998   59999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHhhh
Q 007651          102 DTIYFRQARSIHELAKKNFENLR  124 (594)
Q Consensus       102 dS~i~k~Ak~Le~lfek~~~~L~  124 (594)
                      ++.++++|..|++.|++.+.++-
T Consensus        85 ~s~i~~~a~~l~~~f~~~~~~~~  107 (109)
T cd05502          85 DSEVAQAGKELELFFEEQLKEIL  107 (109)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHC
Confidence            99999999999999999998763

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.

>KOG1474 consensus Transcription initiation factor TFIID, subunit BDF1 and related bromodomain proteins [Transcription]

Probab=99.90  E-value=5.1e-24  Score=239.20  Aligned_cols=108  Identities=26%  Similarity=0.450  Sum_probs=101.6

Q ss_pred             CcccchHHHHHHHHhCCCCCCCcCCCCCC--CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcC
Q 007651           23 LSWNWDPQRLYQIKSYCCSSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNA  100 (594)
Q Consensus        23 Ls~~wc~qIL~kLk~~~~A~~F~ePVD~~--e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~  100 (594)
                      -.++.|..||.+|+.|..+|+|.+|||+.  .+||||+||++||||+||++||.++.|.++++|..||+|||+|||+||+
T Consensus       222 ~~lk~C~~iLk~l~~~k~awpF~~PVD~v~LgLpDY~~IIK~PMDLgTIK~kL~~~~Y~~~~eF~~DVRL~F~Ncm~YNp  301 (640)
T KOG1474|consen  222 ELLKQCLSILKRLMKHKHAWPFNEPVDVVKLGLPDYHDIIKHPMDLGTIKKKLEKGEYKSAEEFAADVRLTFDNCMTYNP  301 (640)
T ss_pred             HHHHHHHHHHHHHHhccCCCCcCCCcCHHhcCCcchhhhcCCCccHHHHHhhhcccccCCHHHHHHHHHHHHHHHHhcCC
Confidence            34567889999999999999999999998  7999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhhhcCCCCC
Q 007651          101 PDTIYFRQARSIHELAKKNFENLRQDSDDN  130 (594)
Q Consensus       101 pdS~i~k~Ak~Le~lfek~~~~L~~d~e~~  130 (594)
                      ++++||.+|+.|+++|+.+|..+....+..
T Consensus       302 ~g~dV~~Ma~~L~~~Fe~rw~~~~~~~~~~  331 (640)
T KOG1474|consen  302 EGSDVYAMAKKLQEVFEERWASMPLEIEES  331 (640)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhhcccccccc
Confidence            999999999999999999999987665443

>cd05506 Bromo_plant1 Bromodomain, uncharacterized subfamily specific to plants

Probab=99.90  E-value=1.4e-23  Score=183.25  Aligned_cols=95  Identities=31%  Similarity=0.493  Sum_probs=91.5

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCC--CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCC
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDT  103 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~--e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS  103 (594)
                      ..|.+||.+|++++.+++|..||++.  .+|+|+++|++||||+||++||+++.|.++++|..||+|||.||+.||++++
T Consensus         3 ~~c~~il~~l~~~~~~~~F~~pv~~~~~~~p~Y~~~I~~P~dl~tI~~kL~~~~Y~s~~ef~~D~~li~~Na~~yn~~~s   82 (99)
T cd05506           3 KQCGTLLRKLMKHKWGWVFNAPVDVVALGLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPPGN   82 (99)
T ss_pred             HHHHHHHHHHHhCCCCccccCCCCccccCCCCHHHHHcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Confidence            46899999999999999999999987  6999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 007651          104 IYFRQARSIHELAKKNF  120 (594)
Q Consensus       104 ~i~k~Ak~Le~lfek~~  120 (594)
                      .++++|..|+..|++.|
T Consensus        83 ~i~~~a~~l~~~fe~~w   99 (99)
T cd05506          83 DVHTMAKELLKIFETRW   99 (99)
T ss_pred             HHHHHHHHHHHHHHHhC
Confidence            99999999999998864

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.

>cd05512 Bromo_brd1_like Bromodomain; brd1_like subfamily

Probab=99.90  E-value=1.1e-23  Score=185.33  Aligned_cols=90  Identities=38%  Similarity=0.590  Sum_probs=86.5

Q ss_pred             hHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHH
Q 007651           28 DPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR  107 (594)
Q Consensus        28 c~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k  107 (594)
                      +..+|.+|++++.+++|.+|||..++|||+++|++||||+||++||+++.|.++++|..||+|||.||+.||++++.+|+
T Consensus         6 l~~il~~l~~~~~~~~F~~pVd~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~~s~~~~   85 (98)
T cd05512           6 LRKTLDQLQEKDTAEIFSEPVDLSEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNAKDTIFYR   85 (98)
T ss_pred             HHHHHHHHHhCCCchhhcCCCCccccCCHHHHhcCCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHH
Confidence            45789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 007651          108 QARSIHELAK  117 (594)
Q Consensus       108 ~Ak~Le~lfe  117 (594)
                      +|.+|++..+
T Consensus        86 ~A~~l~~~~~   95 (98)
T cd05512          86 AAVRLRDQGG   95 (98)
T ss_pred             HHHHHHHhhc
Confidence            9999988654

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.

>cd05498 Bromo_Brdt_II_like Bromodomain, Brdt_like subfamily, repeat II

Probab=99.89  E-value=1.9e-23  Score=183.54  Aligned_cols=95  Identities=33%  Similarity=0.542  Sum_probs=91.1

Q ss_pred             cchHHHHHHHHhC---CCCCCCcCCCCCC--CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcC
Q 007651           26 NWDPQRLYQIKSY---CCSSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNA  100 (594)
Q Consensus        26 ~wc~qIL~kLk~~---~~A~~F~ePVD~~--e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~  100 (594)
                      ..|.+||..|+++   +.+++|.+||++.  .+|+|+++|++||||++|++||+++.|.++++|..||+|||.||+.||+
T Consensus         3 ~~c~~il~~l~~~~~~~~a~~F~~pv~~~~~~~p~Y~~~I~~Pmdl~~I~~kl~~~~Y~s~~ef~~D~~li~~Na~~yn~   82 (102)
T cd05498           3 KFCSGILKELFSKKHKAYAWPFYKPVDPEALGLHDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYNP   82 (102)
T ss_pred             hHHHHHHHHHHhCCCccccCcccCcCCccccCCCcHHHHccCCCcHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHCC
Confidence            5689999999999   8899999999987  5999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHHH
Q 007651          101 PDTIYFRQARSIHELAKKNF  120 (594)
Q Consensus       101 pdS~i~k~Ak~Le~lfek~~  120 (594)
                      +++.++.+|..|++.|++.|
T Consensus        83 ~~s~i~~~a~~l~~~fe~~~  102 (102)
T cd05498          83 PDHPVHAMARKLQDVFEDRW  102 (102)
T ss_pred             CCCHHHHHHHHHHHHHHHhC
Confidence            99999999999999999865

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.

>cd05500 Bromo_BDF1_2_I Bromodomain

Probab=99.89  E-value=1.8e-23  Score=184.65  Aligned_cols=95  Identities=23%  Similarity=0.474  Sum_probs=91.4

Q ss_pred             ccchHHHHHHHHhCCCCCCCcCCCCCC--CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCC
Q 007651           25 WNWDPQRLYQIKSYCCSSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPD  102 (594)
Q Consensus        25 ~~wc~qIL~kLk~~~~A~~F~ePVD~~--e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pd  102 (594)
                      .++|.+||.+|++++.+++|.+|||+.  .+|+|+++|++||||+||++||+++.|.++++|..||+|||.||+.||+++
T Consensus         6 ~~~~~~ii~~l~~~~~a~~F~~pv~~~~~~~p~Y~~~I~~P~dL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yN~~~   85 (103)
T cd05500           6 HKFLLSSIRSLKRLKDARPFLVPVDPVKLNIPHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTFNGPE   85 (103)
T ss_pred             HHHHHHHHHHHHcCCCChhhcCCCCcccccCCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCC
Confidence            457889999999999999999999987  799999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHH
Q 007651          103 TIYFRQARSIHELAKKN  119 (594)
Q Consensus       103 S~i~k~Ak~Le~lfek~  119 (594)
                      +.++.+|+.|++.|++.
T Consensus        86 s~~~~~A~~l~~~fe~~  102 (103)
T cd05500          86 HPVSQMGKRLQAAFEKH  102 (103)
T ss_pred             CHHHHHHHHHHHHHHHh
Confidence            99999999999999875

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.

>cd05528 Bromo_AAA Bromodomain; sub-family co-occurring with AAA domains

Probab=99.89  E-value=3.2e-23  Score=186.59  Aligned_cols=97  Identities=30%  Similarity=0.409  Sum_probs=91.7

Q ss_pred             hHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCC----C
Q 007651           28 DPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPD----T  103 (594)
Q Consensus        28 c~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pd----S  103 (594)
                      +.+||.+|++++.+++|.+|||+.++||||++|++||||+||++||+++.|.++++|.+||+|||.||+.||+++    +
T Consensus         8 L~~il~~l~~~~~~~~F~~pv~~~~~pdY~~vI~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~yN~~~s~~~s   87 (112)
T cd05528           8 LRDVLKRLASDKRFNAFTKPVDEEEVPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYNPDRDPADK   87 (112)
T ss_pred             HHHHHHHHHhCCCchhhcCCCCccccCcHHHHHcCCCCHHHHHHHHcCCCcCCHHHHHHHHHHHHHHHHHHCCCCCcccc
Confidence            346689999999999999999999999999999999999999999999999999999999999999999999995    6


Q ss_pred             HHHHHHHHHHHHHHHHHHhhh
Q 007651          104 IYFRQARSIHELAKKNFENLR  124 (594)
Q Consensus       104 ~i~k~Ak~Le~lfek~~~~L~  124 (594)
                      .++.+|..|++.|++++++..
T Consensus        88 ~i~~~A~~L~~~~~~~~~~~~  108 (112)
T cd05528          88 LIRSRACELRDEVHAMIEAEL  108 (112)
T ss_pred             HHHHHHHHHHHHHHHHHHhcC
Confidence            999999999999999998754

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

>cd05511 Bromo_TFIID Bromodomain, TFIID-like subfamily

Probab=99.89  E-value=4.6e-23  Score=185.26  Aligned_cols=99  Identities=28%  Similarity=0.537  Sum_probs=95.4

Q ss_pred             hHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHH
Q 007651           28 DPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR  107 (594)
Q Consensus        28 c~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k  107 (594)
                      ..+||.+|++++.+.+|.+|||+..+|+||++|++||||+||++||+++.|+++++|..||+|||.||+.||++++.+++
T Consensus         5 l~~ii~~l~~~~~s~~F~~pv~~~~~p~Y~~~I~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~yN~~~s~i~~   84 (112)
T cd05511           5 LDEIVNELKNLPDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDSVYTK   84 (112)
T ss_pred             HHHHHHHHHhCCCchhhcCCCChhhcccHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHH
Confidence            35889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhcC
Q 007651          108 QARSIHELAKKNFENLRQD  126 (594)
Q Consensus       108 ~Ak~Le~lfek~~~~L~~d  126 (594)
                      +|..|+..|++.++.+++.
T Consensus        85 ~A~~l~~~~~~~~~~~~~~  103 (112)
T cd05511          85 KAKEMLELAEELLAEREEK  103 (112)
T ss_pred             HHHHHHHHHHHHHHHhHHH
Confidence            9999999999999988654

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.

>cd05501 Bromo_SP100C_like Bromodomain, SP100C_like subfamily

Probab=99.89  E-value=7.9e-23  Score=181.78  Aligned_cols=95  Identities=24%  Similarity=0.324  Sum_probs=89.8

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHH
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY  105 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i  105 (594)
                      ..|..||.+|.+++.+++|..  ++..+|||+++|++||||+||++||.++.|.++++|.+||+|||+||+.||+++ .+
T Consensus         5 ~~ce~il~~l~~~~~s~~f~~--~p~~~pdY~~iIk~PMDL~tI~~kL~~~~Y~s~~ef~~D~~Lif~N~~~yN~~~-~~   81 (102)
T cd05501           5 LKCEFLLLKVYCMSKSGFFIS--KPYYIRDYCQGIKEPMWLNKVKERLNERVYHTVEGFVRDMRLIFHNHKLFYKDD-DF   81 (102)
T ss_pred             HHHHHHHHHHHhCcccccccC--CCCCCCchHHHcCCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHcCCC-HH
Confidence            458899999999999999966  356899999999999999999999999999999999999999999999999999 99


Q ss_pred             HHHHHHHHHHHHHHHHhh
Q 007651          106 FRQARSIHELAKKNFENL  123 (594)
Q Consensus       106 ~k~Ak~Le~lfek~~~~L  123 (594)
                      +++|..|++.|++.++++
T Consensus        82 ~~~a~~L~~~Fek~~~~~   99 (102)
T cd05501          82 GQVGITLEKKFEKNFKEV   99 (102)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            999999999999999875

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.

>cd05516 Bromo_SNF2L2 Bromodomain, SNF2L2-like subfamily, specific to animals

Probab=99.88  E-value=1.1e-22  Score=181.33  Aligned_cols=96  Identities=25%  Similarity=0.484  Sum_probs=89.9

Q ss_pred             hHHHHHHHHhCCC------CCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCC
Q 007651           28 DPQRLYQIKSYCC------SSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP  101 (594)
Q Consensus        28 c~qIL~kLk~~~~------A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~p  101 (594)
                      |..||..|.++.+      +++|.+||+...+||||++|++||||+||++||+++.|.++++|..||.|||.||+.||.+
T Consensus         6 ~~~il~~v~~~~d~~g~~~s~~F~~~p~~~~~pdYy~iI~~Pmdl~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~   85 (107)
T cd05516           6 MNKIVDVVIKYKDSDGRQLAEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNAQTFNLE   85 (107)
T ss_pred             HHHHHHHHHhhhCcCCCEeeHHhhcCCCcccCCCHHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHCCC
Confidence            4577777777776      8999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHhh
Q 007651          102 DTIYFRQARSIHELAKKNFENL  123 (594)
Q Consensus       102 dS~i~k~Ak~Le~lfek~~~~L  123 (594)
                      ++.+|++|..|++.|+..++++
T Consensus        86 ~s~i~~~a~~l~~~f~~~~~~~  107 (107)
T cd05516          86 GSLIYEDSIVLQSVFKSARQKI  107 (107)
T ss_pred             CCHHHHHHHHHHHHHHHHHhcC
Confidence            9999999999999999888753

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.

>cd05524 Bromo_polybromo_I Bromodomain, polybromo repeat I

Probab=99.87  E-value=2.4e-22  Score=181.00  Aligned_cols=101  Identities=22%  Similarity=0.311  Sum_probs=93.5

Q ss_pred             cchHHHHHHHHhCC------CCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhc
Q 007651           26 NWDPQRLYQIKSYC------CSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYN   99 (594)
Q Consensus        26 ~wc~qIL~kLk~~~------~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN   99 (594)
                      ..|.+||..|+++.      .+.+|.++++...+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||
T Consensus         5 ~~c~~il~~l~~~~~~~g~~l~~~F~~~p~~~~~PdYy~iI~~Pmdl~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~~yN   84 (113)
T cd05524           5 AVCQELYDTIRNYKSEDGRILCESFIRVPKRRNEPEYYEVVSNPIDLLKIQQKLKTEEYDDVDDLTADFELLINNAKAYY   84 (113)
T ss_pred             HHHHHHHHHHHhhcccCCCchhHHHhcCCCcccCCCHHHHhCCccCHHHHHHHhCcCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            46788999998654      457899999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhhhcC
Q 007651          100 APDTIYFRQARSIHELAKKNFENLRQD  126 (594)
Q Consensus       100 ~pdS~i~k~Ak~Le~lfek~~~~L~~d  126 (594)
                      ++++.+|++|..|++.|++.++++...
T Consensus        85 ~~~s~~~~~A~~L~~~f~~~~~~~~~~  111 (113)
T cd05524          85 KPDSPEHKDACKLWELFLSARNEVLSG  111 (113)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHhhcc
Confidence            999999999999999999999888654

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.

>cd05519 Bromo_SNF2 Bromodomain, SNF2-like subfamily, specific to fungi

Probab=99.87  E-value=5.2e-22  Score=175.37  Aligned_cols=93  Identities=24%  Similarity=0.381  Sum_probs=86.1

Q ss_pred             hHHHHHHHHh------CCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCC
Q 007651           28 DPQRLYQIKS------YCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP  101 (594)
Q Consensus        28 c~qIL~kLk~------~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~p  101 (594)
                      |.+|+..|..      +..+++|.+||+...+|+||++|++||||++|++||+++.|.++++|..||+|||.||+.||++
T Consensus         5 ~~~i~~~v~~~~~~~~~~~~~~F~~~p~~~~~pdYy~iIk~Pmdl~~I~~kl~~~~Y~s~~~f~~D~~li~~Na~~yn~~   84 (103)
T cd05519           5 MLEIYDAVLNCEDETGRKLSELFLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANARTYNQE   84 (103)
T ss_pred             HHHHHHHHHHhcCcCCCchhHHhcCCCCCCCCcCHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHCCC
Confidence            5677777774      4458999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHH
Q 007651          102 DTIYFRQARSIHELAKKNF  120 (594)
Q Consensus       102 dS~i~k~Ak~Le~lfek~~  120 (594)
                      ++.++.+|..|++.|++++
T Consensus        85 ~s~i~~~A~~l~~~f~~~~  103 (103)
T cd05519          85 GSIVYEDAVEMEKAFKKKY  103 (103)
T ss_pred             CCHHHHHHHHHHHHHHHhC
Confidence            9999999999999998764

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.

>cd05529 Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like subfamily

Probab=99.86  E-value=9.5e-22  Score=180.66  Aligned_cols=96  Identities=26%  Similarity=0.410  Sum_probs=90.8

Q ss_pred             chHHHHHHHH---hCCCCCCCcCCCCCC-CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCC
Q 007651           27 WDPQRLYQIK---SYCCSSSIDFKMDPE-ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPD  102 (594)
Q Consensus        27 wc~qIL~kLk---~~~~A~~F~ePVD~~-e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pd  102 (594)
                      .|+++|.+|.   +++.+++|.+||+.. .+|+|+++|++||||+||++||+++.|+++++|..||+|||.||+.||+++
T Consensus        28 ~i~~~l~~l~~~~~~~~~~~F~~pv~~~~~~p~Y~~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~Li~~Na~~yN~~~  107 (128)
T cd05529          28 RLISGLDKLLLSLQLEIAEYFEYPVDLRAWYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLILSNAETFNEPN  107 (128)
T ss_pred             HHHHHHHHHHhcccCcccccccCCCCccccCCcHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCC
Confidence            3457788888   899999999999999 999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHh
Q 007651          103 TIYFRQARSIHELAKKNFEN  122 (594)
Q Consensus       103 S~i~k~Ak~Le~lfek~~~~  122 (594)
                      +.++++|+.|+..|++++..
T Consensus       108 s~i~~~A~~l~~~~~~~l~~  127 (128)
T cd05529         108 SEIAKKAKRLSDWLLRILSS  127 (128)
T ss_pred             CHHHHHHHHHHHHHHHHhcc
Confidence            99999999999999988754

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.

>cd05515 Bromo_polybromo_V Bromodomain, polybromo repeat V

Probab=99.86  E-value=1.1e-21  Score=174.37  Aligned_cols=94  Identities=26%  Similarity=0.445  Sum_probs=84.4

Q ss_pred             hHHHHHHHHhC------CCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCC
Q 007651           28 DPQRLYQIKSY------CCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP  101 (594)
Q Consensus        28 c~qIL~kLk~~------~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~p  101 (594)
                      |.+++..|..+      ..+++|.+||+.+++||||++|++||||+||++||+++.|.++++|..||.|||.||+.||++
T Consensus         5 ~~~~~~~i~~~~d~~~~~~a~~F~~~p~~~~~pdYy~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~l~~~Na~~yN~~   84 (105)
T cd05515           5 LWELYNAVKNYTDGRGRRLSLIFMRLPSKSEYPDYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNACKYNEP   84 (105)
T ss_pred             HHHHHHHHHHhhCcCCCcccHHhccCCCcccCCcHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHCCC
Confidence            34455544443      558999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHH
Q 007651          102 DTIYFRQARSIHELAKKNFE  121 (594)
Q Consensus       102 dS~i~k~Ak~Le~lfek~~~  121 (594)
                      ++.+|++|..|++.|.+..+
T Consensus        85 ~s~i~~~A~~L~~~~~~~~~  104 (105)
T cd05515          85 DSQIYKDALTLQKVLLETKR  104 (105)
T ss_pred             CCHHHHHHHHHHHHHHHHHc
Confidence            99999999999999877653

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.

>smart00297 BROMO bromo domain

Probab=99.86  E-value=1.8e-21  Score=169.76  Aligned_cols=96  Identities=33%  Similarity=0.562  Sum_probs=92.1

Q ss_pred             chHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHH
Q 007651           27 WDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF  106 (594)
Q Consensus        27 wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~  106 (594)
                      .|..|+..+.+++.+++|.+||+...+|+|+++|++||||.+|++||+++.|.++++|..||++||.||+.||++++.++
T Consensus        11 ~~~~i~~~~~~~~~~~~F~~~~~~~~~p~Y~~~i~~P~dl~~I~~kl~~~~Y~s~~ef~~D~~li~~Na~~~n~~~s~~~   90 (107)
T smart00297       11 LLKAVLDKLDSHRLSWPFLKPVDRKEAPDYYDIIKKPMDLSTIKKKLENGKYSSVEEFVADVQLMFSNAKTYNGPDSEVY   90 (107)
T ss_pred             HHHHHHHHHHhCccchhhccCCChhhccCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            45688999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHh
Q 007651          107 RQARSIHELAKKNFEN  122 (594)
Q Consensus       107 k~Ak~Le~lfek~~~~  122 (594)
                      ++|..|++.|++.+++
T Consensus        91 ~~a~~l~~~f~~~~~~  106 (107)
T smart00297       91 KDAKKLEKFFEKKLRE  106 (107)
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            9999999999998875

>cd05520 Bromo_polybromo_III Bromodomain, polybromo repeat III

Probab=99.86  E-value=1.3e-21  Score=173.62  Aligned_cols=81  Identities=30%  Similarity=0.554  Sum_probs=77.9

Q ss_pred             CCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHH
Q 007651           39 CCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKK  118 (594)
Q Consensus        39 ~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~Le~lfek  118 (594)
                      ..+++|.++|+...+||||++|++||||+||++||+++.|.++++|+.||+|||.||+.||++++.+|++|..|+.+|++
T Consensus        22 ~~s~pF~~~p~~~~~PdYy~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~~yN~~~s~i~~~A~~L~~~f~~  101 (103)
T cd05520          22 LLAEPFLKLPSKRKYPDYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYNVPNSRIYKDAEKLQKLMQA  101 (103)
T ss_pred             CccHhhhcCCCcccCCCHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH
Confidence            46889999999999999999999999999999999999999999999999999999999999999999999999999876


Q ss_pred             H
Q 007651          119 N  119 (594)
Q Consensus       119 ~  119 (594)
                      .
T Consensus       102 ~  102 (103)
T cd05520         102 K  102 (103)
T ss_pred             h
Confidence            3

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.

>cd05517 Bromo_polybromo_II Bromodomain, polybromo repeat II

Probab=99.85  E-value=2e-21  Score=172.51  Aligned_cols=92  Identities=26%  Similarity=0.416  Sum_probs=85.0

Q ss_pred             chHHHHHHHHhCCC------CCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcC
Q 007651           27 WDPQRLYQIKSYCC------SSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNA  100 (594)
Q Consensus        27 wc~qIL~kLk~~~~------A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~  100 (594)
                      .|.+++..|.++.+      +.+|.++++..++||||++|++||||+||++||+++.|.++++|..||+|||.||+.||+
T Consensus         4 ~~~~l~~~i~~~~d~~gr~~~~~F~~lp~~~~~pdYy~vI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~~yN~   83 (103)
T cd05517           4 ILEQLLEAVMTATDPSGRLISELFQKLPSKVLYPDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDLMVKNAKTFNE   83 (103)
T ss_pred             HHHHHHHHHHHhhCcCCCChhHHHhcCCCCCCCCCHHHHcCCCcCHHHHHHHHCcCCCCCHHHHHHHHHHHHHHHHHHCC
Confidence            45677777766554      699999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHH
Q 007651          101 PDTIYFRQARSIHELAKK  118 (594)
Q Consensus       101 pdS~i~k~Ak~Le~lfek  118 (594)
                      +++.++++|..|++.|+.
T Consensus        84 ~~s~i~~~A~~l~~~f~~  101 (103)
T cd05517          84 PGSQVYKDANAIKKIFTA  101 (103)
T ss_pred             CCCHHHHHHHHHHHHHHh
Confidence            999999999999999875

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.

>cd05525 Bromo_ASH1 Bromodomain; ASH1_like sub-family

Probab=99.84  E-value=5.7e-21  Score=170.56  Aligned_cols=91  Identities=22%  Similarity=0.310  Sum_probs=82.7

Q ss_pred             HHHHHHHHhCC------CCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCC
Q 007651           29 PQRLYQIKSYC------CSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPD  102 (594)
Q Consensus        29 ~qIL~kLk~~~------~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pd  102 (594)
                      .+||..|....      .+++|.++++...+||||++|++||||+||++||+++.|.++++|..||.|||.||+.||+++
T Consensus         8 ~~i~~~i~~~kd~~g~~~s~~F~~lp~k~~~pdYy~~I~~P~dL~tI~~kl~~~~Y~s~~ef~~D~~l~f~Na~~yn~~~   87 (106)
T cd05525           8 KEICDAIITYKDSNGQSLAIPFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRNAEKYYGRK   87 (106)
T ss_pred             HHHHHHHHHhhccCCCcccHhhccCCCcccCCchhhhCCCCcCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHCCCC
Confidence            35555555543      479999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHH
Q 007651          103 TIYFRQARSIHELAKKN  119 (594)
Q Consensus       103 S~i~k~Ak~Le~lfek~  119 (594)
                      +.++++|..|++.|++.
T Consensus        88 S~i~~~A~~L~~~f~~~  104 (106)
T cd05525          88 SPIGRDVCRLRKAYYQA  104 (106)
T ss_pred             CHHHHHHHHHHHHHHHc
Confidence            99999999999998753

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.

>cd05518 Bromo_polybromo_IV Bromodomain, polybromo repeat IV

Probab=99.84  E-value=4.4e-21  Score=170.39  Aligned_cols=82  Identities=26%  Similarity=0.415  Sum_probs=78.7

Q ss_pred             hCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHH
Q 007651           37 SYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELA  116 (594)
Q Consensus        37 ~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~Le~lf  116 (594)
                      .+..+.+|..+|+...+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||++++.+|++|..|+.+|
T Consensus        20 gr~~~~~F~~~p~~~~~pdYy~iIk~Pmdl~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~A~~le~~~   99 (103)
T cd05518          20 GRRLCDLFMEKPSKKDYPDYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNARHYNEEGSQVYEDANILEKVL   99 (103)
T ss_pred             CCcccHHHhcCCCcccCccHHHHcCCCcCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             HH
Q 007651          117 KK  118 (594)
Q Consensus       117 ek  118 (594)
                      ++
T Consensus       100 ~~  101 (103)
T cd05518         100 KE  101 (103)
T ss_pred             Hh
Confidence            75

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.

>PF00439 Bromodomain: Bromodomain; InterPro: IPR001487 Bromodomains are found in a variety of mammalian, invertebrate and yeast DNA-binding proteins []

Probab=99.84  E-value=5e-21  Score=160.24  Aligned_cols=84  Identities=42%  Similarity=0.686  Sum_probs=80.2

Q ss_pred             hHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHH
Q 007651           28 DPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR  107 (594)
Q Consensus        28 c~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k  107 (594)
                      |.+||..|.+++.+.+|..||+...+|+|+++|++||||++|++||+++.|+++++|..||++||.||+.||++++.+|+
T Consensus         1 C~~il~~l~~~~~~~~F~~~~~~~~~p~y~~~i~~P~dL~~I~~kl~~~~Y~s~~~f~~Dv~~i~~Na~~yn~~~s~~~~   80 (84)
T PF00439_consen    1 CREILEELMKHPISSPFSKPVDPKEYPDYYEIIKNPMDLSTIRKKLENGKYKSIEEFEADVRLIFQNARRYNPPDSPIYK   80 (84)
T ss_dssp             HHHHHHHHHTSTTGGGGSSSTHTTTSTTHHHHSSSS--HHHHHHHHHTTSSSSHHHHHHHHHHHHHHHHHHSCTTSHHHH
T ss_pred             CHHHHHHHHcCCCchhhcCCCChhhCCCHHHHHhhccchhhhhHHhhccchhhHHHHHHHHHHHHHHHHHHCCCcCHHHH
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHH
Q 007651          108 QARS  111 (594)
Q Consensus       108 ~Ak~  111 (594)
                      +|++
T Consensus        81 ~A~~   84 (84)
T PF00439_consen   81 AAEK   84 (84)
T ss_dssp             HHHH
T ss_pred             HhcC
Confidence            9974

Bromodomains can interact with acetylated lysine []. In some proteins, the classical bromodomain has diverged to such an extent that parts of the region are either missing or contain an insertion (e.g., mammalian protein HRX, Caenorhabditis elegans hypothetical protein ZK783.4, yeast protein YTA7). The bromodomain may occur as a single copy, or in duplicate. The precise function of the domain is unclear, but it may be involved in protein-protein interactions and may play a role in assembly or activity of multi-component complexes involved in transcriptional activation [].; GO: 0005515 protein binding; PDB: 3P1C_A 4A9K_B 3SVH_A 3P1E_B 3P1F_A 1JSP_B 2L85_A 3P1D_B 3DWY_B 2D82_A ....

>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]

Probab=99.84  E-value=3.4e-21  Score=223.09  Aligned_cols=283  Identities=27%  Similarity=0.316  Sum_probs=193.4

Q ss_pred             HHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHH
Q 007651           30 QRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQA  109 (594)
Q Consensus        30 qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~A  109 (594)
                      .+|.+++..+..++|.+|||+.++|||.+||++||||.||+.+++.+.|+++++|+.|+.||+.||+.||..++.+|++|
T Consensus       572 ~~l~~lq~kD~~gif~~pvd~~e~pdy~~iik~pmd~~t~~~kl~s~~y~tle~ieed~~l~~~nc~~yn~~dtv~~r~a  651 (1051)
T KOG0955|consen  572 KSLDKLQKKDSYGIFAEPVDPSELPDYIDIIKKPMDFFTMRLKLESGAYSTLEPIEEDVNLIVSNCMEYNAKDTVYYRAA  651 (1051)
T ss_pred             HHHHHhhcccccCceeeccChhhcccHHHHhcCccchhhhhhhccccchhhhhHHHHhHhHhHhHHHHhhccCeehHhhh
Confidence            66889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcCCCCCC-cccc--------ccccCCCCCCCCCCCCCCCccccccCCCCCccccccCCCCCcccc
Q 007651          110 RSIHELAKKNFENLRQDSDDNE-PETK--------VVRRGRPPTKNFKKPLGRPSLERARSDFSSDVTLASGAENTALTN  180 (594)
Q Consensus       110 k~Le~lfek~~~~L~~d~e~~E-~epk--------v~rr~Rpp~k~~KK~~~rps~e~~~sd~SsdatlA~gge~~~~s~  180 (594)
                      ..++++..+.+.+.+.+.+... .+..        +.+..++.................-.+.+.+.-+...-+..    
T Consensus       652 v~~~e~~~~~~~~arke~e~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~e~~~v~~e~~~~~~~e~~~~~~~~~~----  727 (1051)
T KOG0955|consen  652 VRLRELIKKDFRNARKEPESEGLLDRESLSHHDHLVKKLERPYRPNLWAPEEPQVDLETFINLSKEHDLKIPLDKN----  727 (1051)
T ss_pred             HHHHhhhhhHHHhcccchhhhcccchhhhcccchhhhhhccCCccccccccccccccccccccChhhhhccccccc----
Confidence            9999999999999988766544 2221        11223333333322222211111112222211111100000    


Q ss_pred             cccC-CCCCCCCCCcccCccccCCCCCCCccccccccccccc--cccc--ccccCCccCCCCcccccccccccccccccc
Q 007651          181 RDLG-NGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLER--NDEV--SLSKGYSMKHGKKQVVLDENRRNTYKQFHQ  255 (594)
Q Consensus       181 ~d~r-~~~~~~~k~g~~~~~~~~~g~~~~~~~~~~~~~~~e~--~~e~--s~~~g~~~K~G~k~~~~de~RR~TY~~~~~  255 (594)
                       +.+ .+.....+.......+ ++-++   ..-|.+ ..-|.  ..+.  +..+++ .|+|.+.    .+++.+|.+..+
T Consensus       728 -~~~~a~~~~~~~~~~~~~~~-~~~s~---~r~~~~-~~~e~~~~~~~p~~~~~~~-~~~~~~~----~~~~~~~~~~~s  796 (1051)
T KOG0955|consen  728 -EKKKATKLSIPRNRDSRIIR-KEKSR---LRKCGI-VDTETSGSPSIPSGGEKTV-KKDGLNS----KNLKMSSDQALS  796 (1051)
T ss_pred             -hhhhhhhcccccccccccch-hhHHH---HhhccC-cCccccCCCCCCCccccch-hcccccc----cccccccchhhc
Confidence             000 0000000000000000 00000   000111 00010  0000  112232 3455553    689999999877


Q ss_pred             cccCCcccccccccccceeEeccCCcchhHHHHHHHHHhhChHHHHHHHHHhhhhCCCCCccCCcccccCCC
Q 007651          256 SLRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDL  327 (594)
Q Consensus       256 ~~~~~sv~~~~~~e~K~Lv~vg~~~e~~YArSLarFaa~lGp~aw~iAs~rI~~~Lp~g~~FG~GWVge~e~  327 (594)
                      +-.++++++.+..+.|++-|+++-.+.+|+||+++.+++.+++||.+|+.+++..++.+..||.||+++...
T Consensus       797 ~p~~~~~~sp~~~~~~~~~p~~l~~~s~~~~sn~~l~~n~t~~~~~~~~~~~~~~~~~~~~~g~g~~~~tP~  868 (1051)
T KOG0955|consen  797 SPPSEPLGSPYNDSVKGVKPSVLLEKSGLLRSNANLSQNPTASANNLASTSCSVTKATFTGNGVGGDVKTPK  868 (1051)
T ss_pred             CCCCCCCCCCccccccccCchhhHhhccccccccccccCCCcccccccccccccccCCccCCCCCccccCCC
Confidence            788999999999999999999999999999999999999999999999999999999999999999666544

>cd04369 Bromodomain Bromodomain

Probab=99.83  E-value=1e-20  Score=159.24  Aligned_cols=94  Identities=40%  Similarity=0.606  Sum_probs=90.0

Q ss_pred             cchHHHHHHHHhC--CCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCC
Q 007651           26 NWDPQRLYQIKSY--CCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDT  103 (594)
Q Consensus        26 ~wc~qIL~kLk~~--~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS  103 (594)
                      .+|..++..+..+  +.+.+|..||++..+|+|+++|++||||.+|++||+++.|.++++|..||+|||.||+.||+.++
T Consensus         3 ~~~~~i~~~l~~~~~~~~~~F~~~~~~~~~~~Y~~~i~~P~~l~~I~~kl~~~~Y~s~~~f~~D~~li~~Na~~~n~~~~   82 (99)
T cd04369           3 KKLRSLLDALKKLKRDLSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEADVRLIFSNAKTYNGPGS   82 (99)
T ss_pred             HHHHHHHHHHHhhcccccHHHhcCCChhcCCCHHHHHhCcccHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Confidence            3577899999999  99999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHH
Q 007651          104 IYFRQARSIHELAKKN  119 (594)
Q Consensus       104 ~i~k~Ak~Le~lfek~  119 (594)
                      .++++|..|+..|++.
T Consensus        83 ~~~~~a~~l~~~~~~~   98 (99)
T cd04369          83 PIYKDAKKLEKLFEKL   98 (99)
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            9999999999998875

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

>cd05522 Bromo_Rsc1_2_II Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi

Probab=99.82  E-value=4.4e-20  Score=163.97  Aligned_cols=82  Identities=22%  Similarity=0.376  Sum_probs=78.6

Q ss_pred             CCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHH
Q 007651           38 YCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAK  117 (594)
Q Consensus        38 ~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~Le~lfe  117 (594)
                      +..+.+|.++|+.+.+||||++|++||||++|++||+++.|.++++|..||+|||.||+.||++++.+|.+|..|+..|+
T Consensus        22 ~~l~~~F~~~p~~~~~pdYy~~I~~Pmdl~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yn~~~s~i~~~A~~l~~~f~  101 (104)
T cd05522          22 RLLTLHFEKLPDKAREPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAKLYNENDSQEYKDAVLLEKEAR  101 (104)
T ss_pred             CcccHHHhcCCCccccCcHHHHhCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence            35789999999999999999999999999999999999999999999999999999999999999999999999999987


Q ss_pred             HH
Q 007651          118 KN  119 (594)
Q Consensus       118 k~  119 (594)
                      +.
T Consensus       102 ~l  103 (104)
T cd05522         102 LL  103 (104)
T ss_pred             Hh
Confidence            63

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.

>cd05521 Bromo_Rsc1_2_I Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi

Probab=99.81  E-value=1.2e-19  Score=162.21  Aligned_cols=92  Identities=20%  Similarity=0.311  Sum_probs=81.9

Q ss_pred             hHHHHHHHHhCCC------CCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCC
Q 007651           28 DPQRLYQIKSYCC------SSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP  101 (594)
Q Consensus        28 c~qIL~kLk~~~~------A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~p  101 (594)
                      |.+++..|++..+      +.+|..+++.+.+||||++|++||||+||++||++  |.++++|+.||.|||+||+.||++
T Consensus         6 ~~~l~~~i~~~~~~~g~~~~~~F~~lp~~~~~pdYy~iI~~PmdL~tI~~kl~~--Y~s~~ef~~D~~li~~Na~~yN~~   83 (106)
T cd05521           6 LKPLYDGIYTLKEENGIEIHPIFNVLPLRKDYPDYYKIIKNPLSLNTVKKRLPH--YTNAQEFVNDLAQIPWNARLYNTK   83 (106)
T ss_pred             HHHHHHHHHhhcCcCCCCchHhhhcCCccccCccHHHHhcCCCCHHHHHHHHHc--CCCHHHHHHHHHHHHHHHHHHcCC
Confidence            3455555555544      56999999999999999999999999999999998  999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHH
Q 007651          102 DTIYFRQARSIHELAKKNFE  121 (594)
Q Consensus       102 dS~i~k~Ak~Le~lfek~~~  121 (594)
                      ++.+|++|..|++.|.+.+.
T Consensus        84 ~s~i~~~A~~le~~~~~~~~  103 (106)
T cd05521          84 GSVIYKYALILEKYINDVII  103 (106)
T ss_pred             CCHHHHHHHHHHHHHHHhhc
Confidence            99999999999999987653

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.

>cd05492 Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family

Probab=99.80  E-value=3e-19  Score=160.59  Aligned_cols=95  Identities=20%  Similarity=0.328  Sum_probs=85.8

Q ss_pred             HHHHHHHh-CCCCCCCcCCCCCC-----CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCC
Q 007651           30 QRLYQIKS-YCCSSSIDFKMDPE-----ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDT  103 (594)
Q Consensus        30 qIL~kLk~-~~~A~~F~ePVD~~-----e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS  103 (594)
                      .++..+++ .+.+.+|..||...     .+|+|+++|++||||+||++||+++.|++++||..||.|||+||+.||++++
T Consensus         7 f~~~~~k~~lp~~~~~~~~v~~~~~~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~LI~~N~~~yNg~~s   86 (109)
T cd05492           7 FIVSRMKSWLPPDTTNRAIVLNKRGKATKLPKRRRLIHTHLDVADIQEKINSEKYTSLEEFKADALLLLHNTAIFHGADS   86 (109)
T ss_pred             HHHHHHHhcCcccccccccccccCchhccCCCHHHHhCCCCcHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Confidence            45677777 66789999999633     5999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhh
Q 007651          104 IYFRQARSIHELAKKNFENLR  124 (594)
Q Consensus       104 ~i~k~Ak~Le~lfek~~~~L~  124 (594)
                      .++.+|+.|.......+.+|.
T Consensus        87 ~~~~~A~~l~~d~~~el~Ei~  107 (109)
T cd05492          87 EQYDAARWLYRDTCHDLRELR  107 (109)
T ss_pred             HHHHHHHHHHHHHHHHHHHHh
Confidence            999999999888877777764

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.

>cd05526 Bromo_polybromo_VI Bromodomain, polybromo repeat VI

Probab=99.66  E-value=3.8e-16  Score=140.90  Aligned_cols=93  Identities=16%  Similarity=0.254  Sum_probs=81.3

Q ss_pred             HHHHHHHhCC------CCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCC
Q 007651           30 QRLYQIKSYC------CSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDT  103 (594)
Q Consensus        30 qIL~kLk~~~------~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS  103 (594)
                      .++..++++.      .+.+|.+.+.  ..++|+.+|++||||.+|++||++|.|+++++|.+||.|||.||++||.+++
T Consensus        10 ~l~~~V~~~~D~~Gr~~s~~f~~LP~--~~~~~~~~ik~Pi~l~~Ik~ki~~~~Y~~ld~~~~D~~lmf~NAr~yN~~~S   87 (110)
T cd05526          10 TLFVSVMNHQDEEGRCYSDSLAELPE--LAVDGVGPKKIPLTLDIIKRNVDKGRYRRLDKFQEDMFEVLERARRLSRTDS   87 (110)
T ss_pred             HHHHHHHhccCCCCCCchHHHHHCCC--cccCchhhhcCCccHHHHHHHHHcCCcCcHHHHHHHHHHHHHHHHHhCcccC
Confidence            3345555554      3788888877  4567889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhh
Q 007651          104 IYFRQARSIHELAKKNFENLR  124 (594)
Q Consensus       104 ~i~k~Ak~Le~lfek~~~~L~  124 (594)
                      .+|++|..|+..|.+...++-
T Consensus        88 ~iy~dA~eLq~~f~~~rd~~~  108 (110)
T cd05526          88 EIYEDAVELQQFFIKIRDELC  108 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999988877664

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.

>COG5076 Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription]

Probab=99.65  E-value=1.9e-16  Score=167.58  Aligned_cols=90  Identities=32%  Similarity=0.500  Sum_probs=85.2

Q ss_pred             CCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHH
Q 007651           38 YCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAK  117 (594)
Q Consensus        38 ~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~Le~lfe  117 (594)
                      .....+|..+|+...+|+||.||+.||||.+|++||+.+.|+++++|..|+.|||+||..||.+++.+|.+|+.|+..|.
T Consensus       163 ~~~s~~F~~~p~k~~~PdYy~iIk~Pm~L~~i~kkl~~~~Y~s~eef~~D~~lM~~N~~~yN~~~s~v~~~a~~l~~~~~  242 (371)
T COG5076         163 RFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFL  242 (371)
T ss_pred             cccccccccCCccccCCChheeecchhhHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhccCCCcchhhhhHHHHHHHH
Confidence            34588999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhcCC
Q 007651          118 KNFENLRQDS  127 (594)
Q Consensus       118 k~~~~L~~d~  127 (594)
                      +.++.+....
T Consensus       243 ~~i~~~~~~~  252 (371)
T COG5076         243 KLIEEIPEEM  252 (371)
T ss_pred             HHHHhccccc
Confidence            9999886543

>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]

Probab=99.62  E-value=4.8e-16  Score=186.18  Aligned_cols=95  Identities=26%  Similarity=0.459  Sum_probs=91.5

Q ss_pred             hHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHH
Q 007651           28 DPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR  107 (594)
Q Consensus        28 c~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k  107 (594)
                      |..||.+|..|+.||||++||++.++||||+||++||||+||+.|+..+.|.+.++|..||.|||.||..||.. +.+++
T Consensus      1306 ~e~il~e~~~~~~awPFlepVn~~~vp~Y~~IIk~Pmdl~tir~k~~~~~Y~~~eef~~Di~lvf~Nc~~yN~~-s~i~~ 1384 (1404)
T KOG1245|consen 1306 CEDILHELVVHKAAWPFLEPVNPKEVPDYYDIIKKPMDLSTIREKLSKGIYPSPEEFATDIELVFDNCETYNED-SEIGR 1384 (1404)
T ss_pred             HHHHHHHHHHhhhcchhhccCChhhcccHHHHhcChhHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHhccc-hhhhh
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHHHHHHHHHhh
Q 007651          108 QARSIHELAKKNFENL  123 (594)
Q Consensus       108 ~Ak~Le~lfek~~~~L  123 (594)
                      +...|..+|++.+...
T Consensus      1385 ag~~l~~ff~~~~~~~ 1400 (1404)
T KOG1245|consen 1385 AGTCLRRFFHKRWRKK 1400 (1404)
T ss_pred             hcchHHHHHHHHHHhh
Confidence            9999999999866543

>KOG1472 consensus Histone acetyltransferase SAGA/ADA, catalytic subunit PCAF/GCN5 and related proteins [Chromatin structure and dynamics; Transcription]

Probab=99.39  E-value=1.9e-13  Score=154.22  Aligned_cols=97  Identities=29%  Similarity=0.476  Sum_probs=92.3

Q ss_pred             hHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHH
Q 007651           28 DPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR  107 (594)
Q Consensus        28 c~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k  107 (594)
                      ...+|.+|..|..+|+|.+||+.+++||||++|++||||.||+.+|.++.|...+.|+.|+.+||.||++||+.++.+|+
T Consensus       611 ~~~il~~l~~h~~awPf~~Pv~~~e~pdyy~~I~~pmDl~tM~~~l~~~~y~~~~~f~ad~~~vf~ncr~yn~~~~~y~k  690 (720)
T KOG1472|consen  611 IQNILDQLQNHGDAWPFLKPVNKKEVPDYYDVIKHPMDLRTMQNRLKDNQYTEVELFMADVVRVFANCRMYNGSDTQYYK  690 (720)
T ss_pred             HHhHHhhhhcCCccCCccCccccccCCcHHHHhcccccHHHHhhhccccchhhHHHHHHHHHHHHhhhhccCCccchhee
Confidence            34789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhh
Q 007651          108 QARSIHELAKKNFENLR  124 (594)
Q Consensus       108 ~Ak~Le~lfek~~~~L~  124 (594)
                      .|..|...|...+....
T Consensus       691 ~~~~le~~~~~k~~~~i  707 (720)
T KOG1472|consen  691 CAQALEKFFLFKLNELI  707 (720)
T ss_pred             cccchhhhhcchhhhhh
Confidence            99999999988777653

>cd05494 Bromodomain_1 Bromodomain; uncharacterized subfamily

Probab=99.19  E-value=6e-12  Score=114.11  Aligned_cols=77  Identities=19%  Similarity=0.155  Sum_probs=65.2

Q ss_pred             ccchHHHHHHHHhCCCCCCCcCCCCC--CCCCCcccccCCccCHHHHHHHHhCC-------CCCCHHHHHHHHHHHHHHh
Q 007651           25 WNWDPQRLYQIKSYCCSSSIDFKMDP--EELPDYCEVIEHPMDFGTVRNKLANG-------AYATLEQFEKDVFLICSNA   95 (594)
Q Consensus        25 ~~wc~qIL~kLk~~~~A~~F~ePVD~--~e~PDY~dIIK~PMDLsTIkkKL~~g-------~Y~SieEF~~DVrLIf~NA   95 (594)
                      +.||+++|+++.++..+++|.+|||+  ..+|||+++||+||||+||++||.++       .|..-+.+.+++..++.||
T Consensus         5 ~~~~l~~l~~~~~~~~~~pF~~PVd~~~~~~pdY~~iIK~PMDL~ti~~kl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (114)
T cd05494           5 LERVLRELKRHRRNEDAWPFLEPVNPPRRGAPDYRDVIKRPMSFGTKVNNIVETGARDLEDLQIVQEDPADKQIDDEGRR   84 (114)
T ss_pred             HHHHHHHHHHhhhCCCCCCcCCCCCchhcCCCChhhhcCCCCChHHHHHHHHcccccccccccccccccccccccccccc
Confidence            46788889999999999999999999  78999999999999999999999997       4555555667777777777


Q ss_pred             hhhcCC
Q 007651           96 MQYNAP  101 (594)
Q Consensus        96 ~~YN~p  101 (594)
                      ..+|..
T Consensus        85 ~~~~~~   90 (114)
T cd05494          85 SPSNIY   90 (114)
T ss_pred             Cccccc
Confidence            777664

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

>cd05491 Bromo_TBP7_like Bromodomain; TBP7_like subfamily, limited to fungi

Probab=98.95  E-value=1e-09  Score=100.49  Aligned_cols=42  Identities=33%  Similarity=0.449  Sum_probs=40.1

Q ss_pred             CccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCC
Q 007651           62 HPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDT  103 (594)
Q Consensus        62 ~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS  103 (594)
                      .||||+||++||.+|.|.++++|++||+|||+||+.||.++.
T Consensus        63 y~MDL~tIe~RL~ng~Y~tp~~F~~DiklI~~Nc~~ynd~dr  104 (119)
T cd05491          63 YNMDLDTIEERLWNGYYATPKDFLKDIKRIVRDAKTIGDRER  104 (119)
T ss_pred             eccCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCHHH
Confidence            689999999999999999999999999999999999998754

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.

>KOG0008 consensus Transcription initiation factor TFIID, subunit TAF1 [Transcription]

Probab=98.89  E-value=1.4e-09  Score=127.98  Aligned_cols=93  Identities=28%  Similarity=0.457  Sum_probs=86.6

Q ss_pred             HHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHH
Q 007651           30 QRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQA  109 (594)
Q Consensus        30 qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~A  109 (594)
                      .|+.++++...+|+|.+||+.+.+|+||.+|++||||.+|.+++..+.|.+..+|.+||++|+.||..||+.++.|.+-|
T Consensus      1389 ~~vs~~~~ipes~~f~~~v~~k~~~~yy~kik~pmdl~~i~~n~~~~~y~s~~e~l~dv~~i~~n~~~~ng~e~~y~~k~ 1468 (1563)
T KOG0008|consen 1389 NIVSQMKEIPESWPFHEPVNKKRVPDYYKKIKNPMDLETILKNIPPHKYDSRSEFLDDVNLIYVNSVEYNGAESAYTKKA 1468 (1563)
T ss_pred             hHHHHHHhcchhcccccccchhhchHHHHHhcChhhHHHHhhcCCccccccHHHHhhhhHhhcccceeecCccccccHHH
Confidence            56778899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 007651          110 RSIHELAKKNFEN  122 (594)
Q Consensus       110 k~Le~lfek~~~~  122 (594)
                      +++-++....+.+
T Consensus      1469 ~k~~ev~~~~~~e 1481 (1563)
T KOG0008|consen 1469 RKIGEVGLANLLE 1481 (1563)
T ss_pred             HHHHHHHHHHHHH
Confidence            9988877655544

>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]

Probab=98.74  E-value=1.2e-08  Score=118.24  Aligned_cols=98  Identities=21%  Similarity=0.349  Sum_probs=88.7

Q ss_pred             hHHHHHHHH------hCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCC
Q 007651           28 DPQRLYQIK------SYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP  101 (594)
Q Consensus        28 c~qIL~kLk------~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~p  101 (594)
                      |..|+...+      .+..+..|...+..+.+||||+||++||++..|+++|++..|.+..+...|+.++|.||+.||..
T Consensus      1029 ~~~i~~~~~~~~~~~~r~~~~~~~~~~s~k~~~d~~~~i~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~na~~~~~e 1108 (1157)
T KOG0386|consen 1029 ALKIASTSIKYKDSAGRELSEVFLKLPSRKEYPDYYEIIKKPVAIDKIKKRIENHKYNSLKELEKDFMLLFNNARTYNEE 1108 (1157)
T ss_pred             HHHHHHHHHhcccccccccchhcccCcccccccchHHHhcchhhHHHHhhhccccccchHHHHHHHHHhhcchhhhhccC
Confidence            455655555      34457899999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHhhhc
Q 007651          102 DTIYFRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       102 dS~i~k~Ak~Le~lfek~~~~L~~  125 (594)
                      ++.+|..|..|+.++......+..
T Consensus      1109 gs~~y~d~~~l~~~~~~~~~~~~~ 1132 (1157)
T KOG0386|consen 1109 GSRVYEDAIVLQSVFKSARQEISK 1132 (1157)
T ss_pred             CceechhHHHHHHHHhhhHHHHhc
Confidence            999999999999999988888765

>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]

Probab=98.69  E-value=3.4e-08  Score=110.91  Aligned_cols=81  Identities=23%  Similarity=0.489  Sum_probs=76.8

Q ss_pred             CCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHHHH
Q 007651           41 SSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNF  120 (594)
Q Consensus        41 A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~Le~lfek~~  120 (594)
                      ...|.+..+..+.|+||.+|..||.|..|++|+..+.|.+++.|+.|++||+.||..||.+++.+|+++..|+..|....
T Consensus        76 ~d~feklp~~~~~p~yy~~i~~pisl~~ik~kv~k~~y~~~~~f~~D~~lm~ena~~~n~~ds~~~~~s~~l~~~~~~~~  155 (629)
T KOG1827|consen   76 FDKFEKLPSRKEFPEYYYVIQQPISLDQIKRKVKKGRYKRLSFFQLDFLLMTENARLYNRPDSLIYKDSGELEKYFISLE  155 (629)
T ss_pred             chhHhhccccccCCCcceeecCcccHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhcCcchhhhhhhhhhhcchhhhh
Confidence            67799999999999999999999999999999999999999999999999999999999999999999999999887655


Q ss_pred             H
Q 007651          121 E  121 (594)
Q Consensus       121 ~  121 (594)
                      .
T Consensus       156 ~  156 (629)
T KOG1827|consen  156 D  156 (629)
T ss_pred             c
Confidence            4

>KOG1828 consensus IRF-2-binding protein CELTIX-1, contains BROMO domain [Transcription]

Probab=98.62  E-value=4.2e-09  Score=111.80  Aligned_cols=97  Identities=26%  Similarity=0.268  Sum_probs=90.3

Q ss_pred             ccchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCH
Q 007651           25 WNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTI  104 (594)
Q Consensus        25 ~~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~  104 (594)
                      ..|..++++++-+.+.-..|..||...-.|+|.+||+.|||+.|++.|++.++|.++.+|..|.++|+.||..||..++.
T Consensus        21 ~~~~ehhlrkl~sKdp~q~fafplt~~map~y~~iis~Pmd~~t~r~kidd~~yl~L~~m~~d~kl~~~na~~yn~~~Tv  100 (418)
T KOG1828|consen   21 SGDAEHHLRKLPSKDPKQKFAFPLTDKMAPNYLEIISEPMDRITKRSKIDDTRYLVLSQMEFDRKLPDGNATLYNLHPTV  100 (418)
T ss_pred             hhhHHHHHHhccccChhhhhccccchhhccchHhhhhcccccccccccCCCccceechhhhhhhcccccchhhhhcCCcc
Confidence            34667899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 007651          105 YFRQARSIHELAKKNFE  121 (594)
Q Consensus       105 i~k~Ak~Le~lfek~~~  121 (594)
                      ++..|++|..+....+.
T Consensus       101 ~~~aaKrL~~v~~~~~q  117 (418)
T KOG1828|consen  101 PIVAAKRLCPVRLGMTQ  117 (418)
T ss_pred             ccccccccchhhcchhh
Confidence            99999999887655553

>KOG0008 consensus Transcription initiation factor TFIID, subunit TAF1 [Transcription]

Probab=98.53  E-value=1.1e-07  Score=112.64  Aligned_cols=87  Identities=29%  Similarity=0.413  Sum_probs=82.0

Q ss_pred             HHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHH
Q 007651           30 QRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQA  109 (594)
Q Consensus        30 qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~A  109 (594)
                      .|+.++.......+|..||+.++++|||.||+.||||.++|+.|....|.+-++|..|+.||++|..+||++.+.+..++
T Consensus      1268 ~i~n~~~~~~~t~~f~~Pv~~k~v~dyy~vi~~P~~lq~~kk~v~kr~y~~r~~fle~~~~~~~ns~~yng~~~~~t~~~ 1347 (1563)
T KOG0008|consen 1268 TIINQARSSPNTYPFPTPVNAKEVKDYYRVITPPMDLQTQKKLVRKRLYESREHFLEELPLIVSNSTKYNGPLASLTRQQ 1347 (1563)
T ss_pred             HHHHHHhcCCCCcCCCCccchhhccchhhccCCCcchHHHHHHHHHHHHHHHHHHHHHhHHHhhchhhhcCchHHHHHHH
Confidence            66788999999999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             HHHHHHH
Q 007651          110 RSIHELA  116 (594)
Q Consensus       110 k~Le~lf  116 (594)
                      ..+..++
T Consensus      1348 q~mls~~ 1354 (1563)
T KOG0008|consen 1348 QSMLSLC 1354 (1563)
T ss_pred             HHHHHHH
Confidence            8776654

>KOG1472 consensus Histone acetyltransferase SAGA/ADA, catalytic subunit PCAF/GCN5 and related proteins [Chromatin structure and dynamics; Transcription]

Probab=98.46  E-value=1.1e-07  Score=108.18  Aligned_cols=72  Identities=31%  Similarity=0.504  Sum_probs=66.5

Q ss_pred             hCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHH
Q 007651           37 SYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ  108 (594)
Q Consensus        37 ~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~  108 (594)
                      ++..+++|.++|+.+..|+||.||+.||||.++.+|+..+.|.+.++|+.|+.+||.||..||.........
T Consensus       300 ~~~~s~~~~~kvs~~~a~~y~~i~k~pmdl~t~~~k~~~~~y~~~~~fv~d~~~~~~n~~~~n~ee~~~~~~  371 (720)
T KOG1472|consen  300 RTEHSTPFLEKVSKEDAPNYYQIIKAPMDLSTELKKLKSGPYCSKEEFVNDLMLIWRNCEKYNSEESHGLIE  371 (720)
T ss_pred             ccccccccccCCChhhCcchHHhhhcchHHHHHHHHhccccccchhHHHHHHHHHHhcchhhccccchhhhh
Confidence            467899999999999999999999999999999999999999999999999999999999999986554443

>PF12024 DUF3512: Domain of unknown function (DUF3512); InterPro: IPR021900 This presumed domain is functionally uncharacterised

Probab=98.33  E-value=1.9e-07  Score=94.83  Aligned_cols=125  Identities=18%  Similarity=0.222  Sum_probs=89.1

Q ss_pred             ccCCCCCCCCCCcccCccccCCCCCCCccccccccccccccccc----ccccCCccCCCCccc-cccccccccccccc--
Q 007651          182 DLGNGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDEV----SLSKGYSMKHGKKQV-VLDENRRNTYKQFH--  254 (594)
Q Consensus       182 d~r~~~~~~~k~g~~~~~~~~~g~~~~~~~~~~~~~~~e~~~e~----s~~~g~~~K~G~k~~-~~de~RR~TY~~~~--  254 (594)
                      +...+..+..++||...-  .+|+...... ...++..+.+++.    +.+.|+ +..|-..+ +|.|+||+..+|..  
T Consensus        44 ~rl~~~~~~~k~gFlr~~--~DGtt~l~vl-n~~~~~~~~~~~~pV~Lg~l~gk-L~~G~~tL~gfkEdrrnkvtpv~yl  119 (245)
T PF12024_consen   44 DRLNRRLPNSKMGFLRRK--KDGTTTLNVL-NPVDPEAGEEEYRPVDLGSLSGK-LQSGTNTLQGFKEDRRNKVTPVSYL  119 (245)
T ss_pred             HHHhhcccccccchhccc--CCCCEEEEEe-ecCCCCCCCCCCceeeHHHhhcc-ccCCcccccccchhhccceeeeccc
Confidence            344444566778887653  3676422111 1123332222222    788898 45898777 89999999988842  


Q ss_pred             ----cc---ccCCcccccccccccceeEeccCCcch--hHHHHHHHHHhhChHHHHHHHHHhhhh
Q 007651          255 ----QS---LRESSVLTTFDADKKQLMTVGLHSEHG--YTRSLARFAANLGPVAWKIAARRIERC  310 (594)
Q Consensus       255 ----~~---~~~~sv~~~~~~e~K~Lv~vg~~~e~~--YArSLarFaa~lGp~aw~iAs~rI~~~  310 (594)
                          .+   -...|.|+++..|.-+||+..|+.+++  ||.||.+|++++|-++.+||..-|...
T Consensus       120 ~YGpfsS~AP~yDStfa~lskeesdLiystYGd~t~~~~a~Si~eFv~~~~~y~~~~vd~LLD~l  184 (245)
T PF12024_consen  120 NYGPFSSFAPTYDSTFANLSKEESDLIYSTYGDETGVQYAFSIQEFVKDCGSYAYKMVDDLLDVL  184 (245)
T ss_pred             ccCccccccccccccccccCcchhhHHHhhcCCccCCchhHHHHHHhhcCchHHHHHHhhhhhhh
Confidence                12   445588888888999999999999998  999999999999999999998777654

This domain is found in eukaryotes. This domain is typically between 231 to 249 amino acids in length. This domain is found associated with PF00439 from PFAM.

>KOG1828 consensus IRF-2-binding protein CELTIX-1, contains BROMO domain [Transcription]

Probab=98.27  E-value=4.2e-07  Score=96.91  Aligned_cols=82  Identities=17%  Similarity=0.190  Sum_probs=77.6

Q ss_pred             HHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHH
Q 007651           32 LYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS  111 (594)
Q Consensus        32 L~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~  111 (594)
                      +.++...+...+|..++....+|.|..+|++++|+.|+++|+.++.|.+ -+|..|..|||.||++||.+++.+|..|++
T Consensus       217 ~~kl~~~~p~~~lnyg~tas~aP~YSm~Ik~~~~~~Tygdk~~andy~S-~~f~~D~kl~~l~amT~gehsk~yyelank  295 (418)
T KOG1828|consen  217 EDKLNRVDPVAYLNYGPTASFAPGYSMTITEVEPPGTYGDKSSANDYES-LSFTQDRKLIALKAVTNGEHSKSYYELANK  295 (418)
T ss_pred             HHHhcccCchhhhcccchhhhcccccccccccCCCcchhhhhhhhhhhh-hhhhcccchhhHHHHhcCCcchHHHHHHHh
Confidence            5677777889999999999999999999999999999999999999999 899999999999999999999999999998


Q ss_pred             HHH
Q 007651          112 IHE  114 (594)
Q Consensus       112 Le~  114 (594)
                      +..
T Consensus       296 ~lh  298 (418)
T KOG1828|consen  296 QLH  298 (418)
T ss_pred             hhh
Confidence            877

>KOG1474 consensus Transcription initiation factor TFIID, subunit BDF1 and related bromodomain proteins [Transcription]

Probab=98.17  E-value=5e-07  Score=102.92  Aligned_cols=95  Identities=24%  Similarity=0.374  Sum_probs=86.4

Q ss_pred             HhCCCCCCCcCCCCCC--CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHH
Q 007651           36 KSYCCSSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH  113 (594)
Q Consensus        36 k~~~~A~~F~ePVD~~--e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~Le  113 (594)
                      ..+..+++|..||+..  .+|+||.+|++|||+.||+.++.+..|....+..+|+..+|.||..||.+...++.++..++
T Consensus         5 ~~~~~~~~f~~~v~~v~l~~~~~~~~~~~~~d~~~~~~~~e~n~~~~~~~~~~~f~~~~sn~~~~~~~~~~v~~~~~~~~   84 (640)
T KOG1474|consen    5 RKHKLAWPFLEPVDAVALNLPAYYEIIKRPMDIGTIEKRVENNYYFSASECIADFKTKFSNCYLFNDSGDDVVRMKQSLE   84 (640)
T ss_pred             ccccccccccCccchhhccchhhhcccCCCCCchhhhhhhccCccccHhhhhhhccccccchhcccCCccchhhccccch
Confidence            3567899999999976  68999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhcCCCCC
Q 007651          114 ELAKKNFENLRQDSDDN  130 (594)
Q Consensus       114 ~lfek~~~~L~~d~e~~  130 (594)
                      ..|.+....+..+..+.
T Consensus        85 ~~~~~~~~~~~~~~~d~  101 (640)
T KOG1474|consen   85 KLFPKKLRSMPSDEEDK  101 (640)
T ss_pred             hhcccccccccccccCC
Confidence            99988888777665444

>COG5076 Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription]

Probab=96.86  E-value=0.00028  Score=75.51  Aligned_cols=91  Identities=29%  Similarity=0.414  Sum_probs=82.6

Q ss_pred             HHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHH
Q 007651           34 QIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH  113 (594)
Q Consensus        34 kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~Le  113 (594)
                      ....+..+|+|..++.....|+|+++|..+|++.+.+.++..+.|+..++|..|..++++||..||.....+++.+..+.
T Consensus       274 ~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  353 (371)
T COG5076         274 NSQAHVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTKELKLRNNYYRPEETFVRDAKLFFDNCVMYNGEVTDYYKNANVLE  353 (371)
T ss_pred             ccccccccccccccCCcccccchhhhhhcccccccchhhhhcccCCCccccccccchhhhcccccchhhhhhhhhccchh
Confidence            33555668999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhh
Q 007651          114 ELAKKNFENLR  124 (594)
Q Consensus       114 ~lfek~~~~L~  124 (594)
                      +.+.+.+...+
T Consensus       354 ~~~~~~~~~~~  364 (371)
T COG5076         354 DFVIKKTRLIR  364 (371)
T ss_pred             hhHhhhhhhhh
Confidence            88877665543

>cd05493 Bromo_ALL-1 Bromodomain, ALL-1 like proteins

Probab=95.86  E-value=0.014  Score=55.00  Aligned_cols=64  Identities=20%  Similarity=0.300  Sum_probs=51.7

Q ss_pred             CccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHHHHHhhhc
Q 007651           62 HPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus        62 ~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~Le~lfek~~~~L~~  125 (594)
                      .|.||.-|++||+.|.|+++.+|.+||-.|+.-++.-.+...++-++-..++-+|.+.++.+-.
T Consensus        58 ~p~dL~~V~kkl~~G~Y~sv~~F~~DvvkIiqa~l~~e~~~pe~~ka~s~~Ksf~ik~me~vf~  121 (131)
T cd05493          58 PPLDLEAVGKKLEAGFYTSVLDFSDDIVKIIQAALNSEGGQPEIKKANSMAKSFFIKLMESVFP  121 (131)
T ss_pred             CcccHHHHHHHHhccceehHHHHHHHHHHHHHHHHhhccCCccccCcchHHHHHHHHHHHHhcc
Confidence            3899999999999999999999999999999998877665555555545556677777776643

ALL-1 is a vertebrate homologue of Drosophila trithorax and is often affected in chromosomal rearrangements that are linked to acute leukemias, such as acute lymphocytic leukemia (ALL). Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.

>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]

Probab=90.06  E-value=0.25  Score=58.33  Aligned_cols=64  Identities=17%  Similarity=0.243  Sum_probs=51.5

Q ss_pred             cccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHHH
Q 007651           56 YCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKN  119 (594)
Q Consensus        56 Y~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~Le~lfek~  119 (594)
                      |..--.-|..|..|+.+|++..|++.+.|..|+..|..||.+|-+-+.-+-..+..|...|.+.
T Consensus      1046 ~~~~fpvpls~evi~~rlEn~yYrs~e~~~hdvs~mlsnae~~fg~~~~~~~ki~~l~~~~~~T 1109 (1113)
T KOG0644|consen 1046 VDNRFPVPLSLEVIRSRLENNYYRSQEALRHDVSVMLSNAETFFGRNKNVAIKISFLSPWFDRT 1109 (1113)
T ss_pred             cCCCCCCcccHHHHHHHHHhhhhhhhHhhhcchhhhhcccceeecccccHHHHhhhcchhhhhh
Confidence            3344567899999999999999999999999999999999999888765555555555555443

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=85.87  E-value=0.58  Score=56.87  Aligned_cols=63  Identities=21%  Similarity=0.227  Sum_probs=57.2

Q ss_pred             CCCCCcCCCCCCC-----CCCcccccCCccCHHHHHHHHhCCCCCCHHHHHH--HHHHHHHHhhhhcCCC
Q 007651           40 CSSSIDFKMDPEE-----LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEK--DVFLICSNAMQYNAPD  102 (594)
Q Consensus        40 ~A~~F~ePVD~~e-----~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~--DVrLIf~NA~~YN~pd  102 (594)
                      ....|..|+++..     +++|..+|+.+||+...-.|+..+.|.++.+|+.  ++.|||.|++.||+..
T Consensus       532 ~~~~~s~Pl~~~~~~ll~~~~~~~~iq~~~~va~~~~k~~e~~~~~v~~~e~~~~i~lic~~~lli~~~~  601 (1080)
T KOG0732|consen  532 SSVIFSRPLSTYLKPLLPFQDALEDIQGLMDVASSMAKIEEHLKLLVRSFESNFAIRLICRPRLLINGGK  601 (1080)
T ss_pred             cccCCCCCCCcceecccchHHHHHHhhcchhHHhhhhhHHHHhHHHHHhhhcccchhhhcCcHHhcCCCc
Confidence            3678888888653     5689999999999999999999999999999999  9999999999999974

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	594
3hme_A	123	Crystal Structure Of Human Bromodomain Containing 9		3e-12
3rcw_A	135	Crystal Structure Of The Bromodomain Of Human Brd1		8e-12
2i7k_A	117	Solution Structure Of The Bromodomain Of Human Brd7		1e-10
2d9e_A	121	Solution Structure Of The Bromodomain Of Peregrin L		3e-10
2i8n_A	114	Solution Structure Of The Second Bromodomain Of Brd		2e-09
3jvl_A	120	Crystal Structure Of Bromodomain 2 Of Mouse Brd4 Le		4e-09
3dai_A	130	Crystal Structure Of The Bromodomain Of The Human A		7e-09
3lxj_A	136	Crystal Structure Of The Bromodomain Of Human Aaa D		1e-08
2grc_A	129	1.5 A Structure Of Bromodomain From Human Brg1 Prot		3e-08
2lsp_B	128	Solution Structures Of Brd4 Second Bromodomain With		3e-08
2ouo_A	130	Crystal Structure Of The Bromo Domain 2 In Human Br		3e-08
3uvd_A	124	Crystal Structure Of The Bromodomain Of Human Trans		7e-08
2h60_A	128	Solution Structure Of Human Brg1 Bromodomain Length		8e-08
3aad_A	292	Structure Of The Histone Chaperone Cia/asf1-double		1e-07
3uv5_A	265	Crystal Structure Of The Tandem Bromodomains Of Hum		1e-07
2g4a_A	116	Solution Structure Of A Bromodomain From Ring3 Prot		1e-07
2e7n_A	117	Solution Structure Of The Second Bromodomain From H		1e-07
1eqf_A	280	Crystal Structure Of The Double Bromodomain Module		1e-07
3uv4_A	158	Crystal Structure Of The Second Bromodomain Of Huma		2e-07
2dvv_A	112	Crystal Structure Of The Second Bromodomain Of The		2e-07
3oni_A	114	Crystal Structure Of The Second Bromodomain Of Huma		2e-07
2dww_A	114	Crystal Structure Of Bromodomain-Containing Protein		2e-07
2oo1_A	113	Crystal Structure Of The Bromo Domain 2 Of Human Br		2e-07
3hmf_A	116	Crystal Structure Of The Second Bromodomain Of Huma		2e-07
3ljw_A	120	Crystal Structure Of The Second Bromodomain Of Huma		2e-07
2dat_A	123	Solution Structure Of The Bromodomain Of Human SwiS		2e-07
2ktb_B	121	Solution Structure Of The Second Bromodomain Of Hum		3e-07
2dkw_A	131	Solution Structure Of The Bromodomain Of Human Prot		7e-07
2e7o_A	112	Solution Structure Of The Bromodomain From Human Br		1e-06
3hmh_A	155	Crystal Structure Of The Second Bromodomain Of Huma		1e-06
3q2e_A	123	Crystal Structure Of The Second Bromodomain Of Huma		1e-06
3g0l_A	117	Crystal Structure Of Human Bromodomain Adjacent To		1e-06
3d7c_A	112	Crystal Structure Of The Bromodomain Of Human Gcn5,		1e-06
3dwy_A	119	Crystal Structure Of The Bromodomain Of Human Crebb		2e-06
1jsp_B	121	Nmr Structure Of Cbp Bromodomain In Complex With P5		2e-06
1e6i_A	121	Bromodomain From Gcn5 Complexed With Acetylated H4		2e-06
2wp1_A	126	Structure Of Brdt Bromodomain 2 Bound To An Acetyla		2e-06
1f68_A	103	Nmr Solution Structure Of The Bromodomain From Huma		3e-06
3i3j_A	124	Crystal Structure Of The Bromodomain Of Human Ep300		3e-06
2r10_A	361	Structure Of An Acetylated Rsc4 Tandem Bromodomain		8e-06
3k2j_A	130	Crystal Structure Of The 3rd Bromodomain Of Human P		9e-06
2r0v_A	346	Structure Of The Rsc4 Tandem Bromodomain Acetylated		1e-05
3mb3_A	135	Crystal Structure Of The Second Bromodomain Of Plec		2e-05
3g0j_A	124	Crystal Structure Of The Fifth Bromodomain Of Human		2e-05
2yqd_A	120	Solution Structure Of The Fifth Bromodomain From Mo		2e-05
3fkm_X	166	Plasmodium Falciparum Bromodomain-Containing Protei		4e-05
3gg3_A	119	Crystal Structure Of The Bromodomain Of Human Pcaf		4e-05
1n72_A	118	Structure And Ligand Of A Histone Acetyltransferase		4e-05
3o33_A	184	Crystal Structure Of Trim24 Phd-Bromo In The Free S		4e-05
3qzv_A	174	Crystal Structure Of Bptf Phd-Linker-Bromo In Compl		7e-05
2ri7_A	174	Crystal Structure Of Phd Finger-Linker-Bromodomain		8e-05
3qzs_A	115	Crystal Structure Of Bptf Bromo In Complex With His		1e-04
2rfj_A	119	Crystal Structure Of The Bromo Domain 1 In Human Br		1e-04
2yyn_A	135	Crystal Sturcture Of Human Bromodomain Protein Leng		1e-04
3qzt_A	115	Crystal Structure Of Bptf Bromo In Complex With His		1e-04
2r0y_A	311	Structure Of The Rsc4 Tandem Bromodomain In Complex		2e-04
2r0s_A	285	Crystal Structure Of The Rsc4 Tandem Bromodomain Le		2e-04
3uv2_A	126	Crystal Structure Of The Bromodomain Of Human Nucle		2e-04
2ydw_A	153	Crystal Structure Of The First Bromodomain Of Human		4e-04
2l5e_A	128	Complex Between Bd1 Of Brd3 And Gata-1 C-Tail Lengt		4e-04
4a9e_A	154	N-Terminal Bromodomain Of Human Brd2 With 3-Methyl-		5e-04
2nxb_A	123	Crystal Structure Of Human Bromodomain Containing P		5e-04
2yw5_A	138	Solution Structure Of The Bromodomain From Human Br		6e-04
3nxb_A	116	Crystal Structure Of The Bromodomain Of Human Cecr2		7e-04
3tlp_A	150	Crystal Structure Of The Fourth Bromodomain Of Huma		8e-04

>pdb|3HME|A Chain A, Crystal Structure Of Human Bromodomain Containing 9 Isoform 1 (Brd9) Length = 123

Iteration: 1
 Score = 70.1 bits (170), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 27/59 (45%), Positives = 42/59 (71%)
Query: 54  PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           P Y  +I+HPMDFGT+++K+    Y ++ +F+ D  L+C NAM YN PDT+Y++ A+ I
Sbjct: 44  PGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKI 102

>pdb|3RCW|A Chain A, Crystal Structure Of The Bromodomain Of Human Brd1 Length = 135

Iteration: 1
 Score = 68.9 bits (167), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 31/78 (39%), Positives = 47/78 (60%)
Query: 51  EELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQAR 110
           +E+PDY + I+HPMDF T+R +L    Y  L +FE+D  LI  N M+YNA DT+++R A 
Sbjct: 41  KEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNARDTVFYRAAV 100
Query: 111 SIHELAKKNFENLRQDSD 128
            + +         R++ D
Sbjct: 101 RLRDQGGVVLRQARREVD 118

>pdb|2I7K|A Chain A, Solution Structure Of The Bromodomain Of Human Brd7 Protein Length = 117

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 29/83 (34%), Positives = 51/83 (61%)
Query: 30  QRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVF 89
           Q + Q++    S+   F +     P Y  +I+HPMDF T++ K+ N  Y ++E+ + +  
Sbjct: 15  QLMRQLQRKDPSAFFSFPVTDFIAPGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFK 74
Query: 90  LICSNAMQYNAPDTIYFRQARSI 112
           L+C+NAM YN P+TIY++ A+ +
Sbjct: 75  LMCTNAMIYNKPETIYYKAAKKL 97

>pdb|2D9E|A Chain A, Solution Structure Of The Bromodomain Of Peregrin Length = 121

Iteration: 1
 Score = 63.5 bits (153), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 28/63 (44%), Positives = 40/63 (63%)
Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
           E+PDY + I+ PMDF T++  L    Y   + FE+D  LI SN ++YNA DTI++R A  
Sbjct: 36  EVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVR 95
Query: 112 IHE 114
           + E
Sbjct: 96  LRE 98

>pdb|2I8N|A Chain A, Solution Structure Of The Second Bromodomain Of Brd4 Length = 114

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 27/73 (36%), Positives = 42/73 (57%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           L DYC++I+HPMD  T+++KL    Y   ++F  DV L+ SN  +YN PD      AR +
Sbjct: 36  LHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKL 95
Query: 113 HELAKKNFENLRQ 125
            ++ +  F  + Q
Sbjct: 96  QDVFEMRFAKMLQ 108

>pdb|3JVL|A Chain A, Crystal Structure Of Bromodomain 2 Of Mouse Brd4 Length = 120

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 29/81 (35%), Positives = 46/81 (56%), Gaps = 5/81 (6%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           L DYC++I+HPMD  T+++KL +  Y   ++F  DV L+ SN  +YN PD      AR +
Sbjct: 44  LHDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKL 103
Query: 113 HELAKKNFENLRQDSDDNEPE 133
            ++ +  F  +      +EPE
Sbjct: 104 QDVFEMRFAKM-----PDEPE 119

>pdb|3DAI|A Chain A, Crystal Structure Of The Bromodomain Of The Human Atad2 Length = 130

Iteration: 1
 Score = 59.3 bits (142), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 26/55 (47%), Positives = 40/55 (72%), Gaps = 1/55 (1%)
Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPD 102
           +DP+E+PDY  VI+ PMD  +V +K+    Y T++ + +D+ LICSNA++YN PD
Sbjct: 35  VDPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYN-PD 88

>pdb|3LXJ|A Chain A, Crystal Structure Of The Bromodomain Of Human Aaa Domain Containing 2b (Atad2b) Length = 136

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 29/55 (52%), Positives = 37/55 (67%), Gaps = 1/55 (1%)
Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPD 102
           +D EE+ DY EVI+ PMD  TV  K+    Y T + F KD+ LICSNA++YN PD
Sbjct: 37  VDIEEVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYN-PD 90

>pdb|2GRC|A Chain A, 1.5 A Structure Of Bromodomain From Human Brg1 Protein, A Central Atpase Of SwiSNF REMODELING COMPLEX Length = 129

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/86 (32%), Positives = 48/86 (55%), Gaps = 7/86 (8%)
Query: 51  EELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQAR 110
           +ELP+Y E+I  P+DF  ++ ++ N  Y +L   EKDV L+C NA  +N   ++ +  + 
Sbjct: 46  KELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSI 105
Query: 111 SIHELAKKNFENLRQ---DSDDNEPE 133
            +  +    F ++RQ     DD+E E
Sbjct: 106 VLQSV----FTSVRQKIEKEDDSEGE 127

>pdb|2LSP|B Chain B, Solution Structures Of Brd4 Second Bromodomain With Nf-Kb-K310ac Peptide Length = 128

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 26/71 (36%), Positives = 41/71 (57%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           L DYC++I+HPMD  T+++KL    Y   ++F  DV L+ SN  +YN PD      AR +
Sbjct: 55  LHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKL 114
Query: 113 HELAKKNFENL 123
            ++ +  F  +
Sbjct: 115 QDVFEMRFAKM 125

>pdb|2OUO|A Chain A, Crystal Structure Of The Bromo Domain 2 In Human Bromodomain Containing Protein 4 (Brd4) Length = 130

Iteration: 1
 Score = 56.6 bits (135), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 26/71 (36%), Positives = 41/71 (57%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           L DYC++I+HPMD  T+++KL    Y   ++F  DV L+ SN  +YN PD      AR +
Sbjct: 57  LHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKL 116
Query: 113 HELAKKNFENL 123
            ++ +  F  +
Sbjct: 117 QDVFEMRFAKM 127

>pdb|3UVD|A Chain A, Crystal Structure Of The Bromodomain Of Human Transcription Activator Brg1 (Smarca4) In Complex With N-Methyl-2-Pyrrolidone Length = 124

Iteration: 1
 Score = 55.8 bits (133), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 21/56 (37%), Positives = 35/56 (62%)
Query: 51  EELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF 106
           +ELP+Y E+I  P+DF  ++ ++ N  Y +L   EKDV L+C NA  +N   ++ +
Sbjct: 47  KELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIY 102

>pdb|2H60|A Chain A, Solution Structure Of Human Brg1 Bromodomain Length = 128

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 21/56 (37%), Positives = 35/56 (62%)
Query: 51  EELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF 106
           +ELP+Y E+I  P+DF  ++ ++ N  Y +L   EKDV L+C NA  +N   ++ +
Sbjct: 42  KELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIY 97

>pdb|3AAD|A Chain A, Structure Of The Histone Chaperone Cia/asf1-double Bromodomain Complex Linking Histone Modifications And Site-specific Histone Eviction Length = 292

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 39/60 (65%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           +PDY +VI +PMD  T+R  ++   Y + E F  DV LI +N+++YN P++ Y + A+ I
Sbjct: 200 VPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEI 259

>pdb|3UV5|A Chain A, Crystal Structure Of The Tandem Bromodomains Of Human Transcription Initiation Factor Tfiid Subunit 1 (Taf1) Length = 265

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 39/60 (65%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           +PDY +VI +PMD  T+R  ++   Y + E F  DV LI +N+++YN P++ Y + A+ I
Sbjct: 167 VPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEI 226

>pdb|2G4A|A Chain A, Solution Structure Of A Bromodomain From Ring3 Protein Length = 116

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 25/63 (39%), Positives = 37/63 (58%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           L DY ++I+HPMD  TV+ K+ N  Y   ++F  DV L+ SN  +YN PD      AR +
Sbjct: 36  LHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKL 95
Query: 113 HEL 115
            ++
Sbjct: 96  QDV 98

>pdb|2E7N|A Chain A, Solution Structure Of The Second Bromodomain From Human Bromodomain-Containing Protein 3 Length = 117

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 26/72 (36%), Positives = 39/72 (54%)
Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
           EL DY ++I+HPMD  TV+ K+    Y   + F  DV L+ SN  +YN PD      AR 
Sbjct: 46  ELHDYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYNPPDHEVVAMARK 105
Query: 112 IHELAKKNFENL 123
           + ++ +  F  +
Sbjct: 106 LQDVFEMRFAKM 117

>pdb|1EQF|A Chain A, Crystal Structure Of The Double Bromodomain Module From Human Tafii250 Length = 280

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 39/60 (65%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           +PDY +VI +PMD  T+R  ++   Y + E F  DV LI +N+++YN P++ Y + A+ I
Sbjct: 179 VPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEI 238

>pdb|3UV4|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Transcription Initiation Factor Tfiid Subunit 1 (Taf1) Length = 158

Iteration: 1
 Score = 54.7 bits (130), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/60 (40%), Positives = 39/60 (65%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           +PDY +VI +PMD  T+R  ++   Y + E F  DV LI +N+++YN P++ Y + A+ I
Sbjct: 60  VPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEI 119

>pdb|2DVV|A Chain A, Crystal Structure Of The Second Bromodomain Of The Human Brd2 Protein Length = 112

Iteration: 1
 Score = 54.7 bits (130), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 25/63 (39%), Positives = 37/63 (58%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           L DY ++I+HPMD  TV+ K+ N  Y   ++F  DV L+ SN  +YN PD      AR +
Sbjct: 40  LHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKL 99
Query: 113 HEL 115
            ++
Sbjct: 100 QDV 102

>pdb|3ONI|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Brd2 In Complex With The Inhibitor Jq1 Length = 114

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 25/63 (39%), Positives = 37/63 (58%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           L DY ++I+HPMD  TV+ K+ N  Y   ++F  DV L+ SN  +YN PD      AR +
Sbjct: 42  LHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKL 101
Query: 113 HEL 115
            ++
Sbjct: 102 QDV 104

>pdb|2DWW|A Chain A, Crystal Structure Of Bromodomain-Containing Protein 4 Length = 114

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 39/68 (57%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           L DYC++I+HP D  T+++KL +  Y   ++F  DV L  SN  +YN PD      AR +
Sbjct: 42  LHDYCDIIKHPXDXSTIKSKLESREYRDAQEFGADVRLXFSNCYKYNPPDHEVVAXARKL 101
Query: 113 HELAKKNF 120
            ++ +  F
Sbjct: 102 QDVFEXRF 109

>pdb|2OO1|A Chain A, Crystal Structure Of The Bromo Domain 2 Of Human Bromodomain Containing Protein 3 (Brd3) Length = 113

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 26/72 (36%), Positives = 39/72 (54%)
Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
           EL DY ++I+HPMD  TV+ K+    Y   + F  DV L+ SN  +YN PD      AR 
Sbjct: 41  ELHDYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYNPPDHEVVAMARK 100
Query: 112 IHELAKKNFENL 123
           + ++ +  F  +
Sbjct: 101 LQDVFEMRFAKM 112

>pdb|3HMF|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Poly-Bromodomain Containing Protein 1 (Pb1) Length = 116

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/64 (34%), Positives = 38/64 (59%)
Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
           + PDY  +I+ P+D  T+  ++ NG+Y ++    KD+ L+  NA  YN P +  F+ A S
Sbjct: 41  QYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANS 100
Query: 112 IHEL 115
           I ++
Sbjct: 101 IKKI 104

>pdb|3LJW|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Polybromo Length = 120

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/64 (34%), Positives = 38/64 (59%)
Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
           + PDY  +I+ P+D  T+  ++ NG+Y ++    KD+ L+  NA  YN P +  F+ A S
Sbjct: 43  QYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANS 102
Query: 112 IHEL 115
           I ++
Sbjct: 103 IKKI 106

>pdb|2DAT|A Chain A, Solution Structure Of The Bromodomain Of Human SwiSNF Related Matrix Associated Actin Dependent Regulator Of Cromatin Subfamily A Member 2 Length = 123

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 21/49 (42%), Positives = 32/49 (65%)
Query: 51 EELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYN 99
          +ELP+Y E+I  P+DF  ++ ++ N  Y +L   EKDV L+C NA  +N
Sbjct: 47 KELPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCHNAQTFN 95

>pdb|2KTB|B Chain B, Solution Structure Of The Second Bromodomain Of Human Polybr Complex With An Acetylated Peptide From Histone 3 Length = 121

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 22/64 (34%), Positives = 38/64 (59%)
Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
           + PDY  +I+ P+D  T+  ++ NG+Y ++    KD+ L+  NA  YN P +  F+ A S
Sbjct: 44  QYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANS 103
Query: 112 IHEL 115
           I ++
Sbjct: 104 IKKI 107

>pdb|2DKW|A Chain A, Solution Structure Of The Bromodomain Of Human Protein Kiaa1240 Length = 131

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 27/57 (47%), Positives = 36/57 (63%), Gaps = 1/57 (1%)
Query: 46  FKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPD 102
           F +  + + DY EVI+ PMD  TV  K+    Y T + F KD+ LICSNA++YN PD
Sbjct: 30  FNIFSKPVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYN-PD 85

>pdb|2E7O|A Chain A, Solution Structure Of The Bromodomain From Human Bromodomain Adjacent To Zinc Finger Domain 2b Length = 112

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/70 (35%), Positives = 40/70 (57%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           +P Y +VI+ PMDF T+R KL++G Y  LE F  DV L+  N   +N  D+   R   ++
Sbjct: 40  VPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNM 99
Query: 113 HELAKKNFEN 122
            +  +K + +
Sbjct: 100 RKYFEKKWTD 109

>pdb|3HMH|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Tbp-Associated Factor Rna Polymerase 1-Like (Taf1l) Length = 155

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/60 (36%), Positives = 39/60 (65%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           +PDY ++I +P+D  T+R  ++   Y + E F  DV LI +N+++YN P++ Y + A+ I
Sbjct: 57  VPDYYKMIVNPVDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEI 116

>pdb|3Q2E|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Bromodomain And Wd Repeat-Containing Protein 1 Isoform A (Wdr9) Length = 123

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 29/63 (46%), Positives = 38/63 (60%), Gaps = 2/63 (3%)
Query: 38 YCCSSSIDFK--MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNA 95
          + C  S  F+  +D  E PDY ++I+ PMDFGTVR  L  G Y +  +F KD+ LI SNA
Sbjct: 23 FQCEDSEPFRQPVDLVEYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNA 82
Query: 96 MQY 98
            Y
Sbjct: 83 KAY 85

>pdb|3G0L|A Chain A, Crystal Structure Of Human Bromodomain Adjacent To Zinc Finger Domain 2b (Baz2b) Length = 117

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 25/70 (35%), Positives = 40/70 (57%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           +P Y +VI+ PMDF T+R KL++G Y  LE F  DV L+  N   +N  D+   R   ++
Sbjct: 43  VPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNM 102
Query: 113 HELAKKNFEN 122
            +  +K + +
Sbjct: 103 RKYFEKKWTD 112

>pdb|3D7C|A Chain A, Crystal Structure Of The Bromodomain Of Human Gcn5, The General Control Of Amino-Acid Synthesis Protein 5-Like 2 Length = 112

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 31/96 (32%), Positives = 48/96 (50%), Gaps = 8/96 (8%)
Query: 28  DPQRLY--------QIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYA 79
           DP +LY        QIKS+  +      +   E PDY EVI  P+D  T+  +L +  Y 
Sbjct: 4   DPDQLYTTLKNLLAQIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYV 63
Query: 80  TLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHEL 115
           T + F  D+  + +N  +YN PD+ Y R A ++ + 
Sbjct: 64  TRKLFVADLQRVIANCREYNPPDSEYCRCASALEKF 99

>pdb|3DWY|A Chain A, Crystal Structure Of The Bromodomain Of Human Crebbp Length = 119

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 9/83 (10%)
Query: 48  MDPEEL--PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY 105
           +DP+ L  PDY +++++PMD  T++ KL  G Y    Q+  DV+L+ +NA  YN      
Sbjct: 37  VDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYN------ 90
Query: 106 FRQARSIHELAKKNFENLRQDSD 128
            R+   +++   K  E   Q+ D
Sbjct: 91  -RKTSRVYKFCSKLAEVFEQEID 112

>pdb|1JSP|B Chain B, Nmr Structure Of Cbp Bromodomain In Complex With P53 Peptide Length = 121

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 9/83 (10%)
Query: 48  MDPEEL--PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY 105
           +DP+ L  PDY +++++PMD  T++ KL  G Y    Q+  DV+L+ +NA  YN      
Sbjct: 39  VDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYN------ 92
Query: 106 FRQARSIHELAKKNFENLRQDSD 128
            R+   +++   K  E   Q+ D
Sbjct: 93  -RKTSRVYKFCSKLAEVFEQEID 114

>pdb|1E6I|A Chain A, Bromodomain From Gcn5 Complexed With Acetylated H4 Peptide Length = 121

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/68 (33%), Positives = 38/68 (55%)
Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           ++ EE+PDY + I+ PMD  T+  KL +  Y  +E F  D  L+ +N   YN  +T Y++
Sbjct: 38  VNKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYK 97
Query: 108 QARSIHEL 115
            A  + + 
Sbjct: 98  YANRLEKF 105

>pdb|2WP1|A Chain A, Structure Of Brdt Bromodomain 2 Bound To An Acetylated Histone H3 Peptide Length = 126

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/71 (32%), Positives = 41/71 (57%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           L +Y +V+++PMD GT++ K+ N  Y    +F  DV L+  N  +YN PD      AR++
Sbjct: 49  LHNYYDVVKNPMDLGTIKGKMDNQEYKDAYEFAADVRLMFMNCYKYNPPDHEVVAMARTL 108
Query: 113 HELAKKNFENL 123
            ++ + +F  +
Sbjct: 109 QDVFELHFAKI 119

>pdb|1F68|A Chain A, Nmr Solution Structure Of The Bromodomain From Human Gcn5 Length = 103

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 28/84 (33%), Positives = 44/84 (52%)
Query: 32  LYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLI 91
           L QIKS+  +      +   E PDY EVI  P+D  T+  +L +  Y T + F  D+  +
Sbjct: 12  LAQIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRV 71
Query: 92  CSNAMQYNAPDTIYFRQARSIHEL 115
            +N  +YN PD+ Y R A ++ + 
Sbjct: 72  IANCREYNPPDSEYCRCASALEKF 95

>pdb|3I3J|A Chain A, Crystal Structure Of The Bromodomain Of Human Ep300 Length = 124

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 23/80 (28%), Positives = 45/80 (56%), Gaps = 2/80 (2%)
Query: 48  MDPEEL--PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY 105
           +DP+ L  PDY ++++ PMD  T++ KL  G Y    Q+  D++L+ +NA  YN   +  
Sbjct: 42  VDPQLLGIPDYFDIVKSPMDLSTIKRKLDTGQYQEPWQYVDDIWLMFNNAWLYNRKTSRV 101
Query: 106 FRQARSIHELAKKNFENLRQ 125
           ++    + E+ ++  + + Q
Sbjct: 102 YKYCSKLSEVFEQEIDPVMQ 121

>pdb|2R10|A Chain A, Structure Of An Acetylated Rsc4 Tandem Bromodomain Histone Chimera Length = 361

Iteration: 1
 Score = 48.9 bits (115), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 36/65 (55%)
Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +D +ELP+Y E++  PM    V+  L  G Y+ +  F  D+ L+  NA  +N P  + ++
Sbjct: 238 VDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYK 297
Query: 108 QARSI 112
            A ++
Sbjct: 298 DATTL 302

>pdb|3K2J|A Chain A, Crystal Structure Of The 3rd Bromodomain Of Human Poly-Bromodomain Containing Protein 1 (Pb1) Length = 130

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 22/78 (28%), Positives = 43/78 (55%)
Query: 51  EELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQAR 110
           ++ PDY + I+ P+    +R KL N  Y TL+  E D+ L+  NA +YN P++  +++  
Sbjct: 51  KKYPDYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVL 110
Query: 111 SIHELAKKNFENLRQDSD 128
            + ++ +   + L +  D
Sbjct: 111 KLQQVMQAKKKELARRDD 128

>pdb|2R0V|A Chain A, Structure Of The Rsc4 Tandem Bromodomain Acetylated At K25 Length = 346

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 36/65 (55%)
Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +D +ELP+Y E++  PM    V+  L  G Y+ +  F  D+ L+  NA  +N P  + ++
Sbjct: 223 VDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYK 282
Query: 108 QARSI 112
            A ++
Sbjct: 283 DATTL 287

>pdb|3MB3|A Chain A, Crystal Structure Of The Second Bromodomain Of Pleckstrin Homology Domain Interacting Protein (Phip) Length = 135

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 27/61 (44%), Positives = 35/61 (57%), Gaps = 2/61 (3%)
Query: 40 CSSSIDFK--MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQ 97
          C  S  F+  +D  E PDY ++I+ PMDF TVR  L  G Y +  +  KDV LI SN+  
Sbjct: 36 CEDSEPFRQPVDLLEYPDYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSNSKA 95
Query: 98 Y 98
          Y
Sbjct: 96 Y 96

>pdb|3G0J|A Chain A, Crystal Structure Of The Fifth Bromodomain Of Human Poly-Bromodomain Containing Protein 1 (Pb1) Length = 124

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/75 (28%), Positives = 41/75 (54%)
Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
           ELPDY   I+ PMD   +R+ +    Y  ++   +D  ++ +NA  YN P+++ ++ A  
Sbjct: 50  ELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDALV 109
Query: 112 IHELAKKNFENLRQD 126
           +H++  +   +L  D
Sbjct: 110 LHKVLLETRRDLEGD 124

>pdb|2YQD|A Chain A, Solution Structure Of The Fifth Bromodomain From Mouse Polybromo-1 Length = 120

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 37/64 (57%)
Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
           ELPDY   I+ PMD   +R+ +    Y  ++   +D  ++ +NA  YN P+++ ++ A  
Sbjct: 50  ELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDALV 109
Query: 112 IHEL 115
           +H++
Sbjct: 110 LHKV 113

>pdb|3FKM|X Chain X, Plasmodium Falciparum Bromodomain-Containing Protein Pf10_0328 Length = 166

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/54 (38%), Positives = 31/54 (57%)
Query: 51  EELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTI 104
           +  PDY +VI++P  F  ++ KL  G YA   +F KDV LI  N   YN  +++
Sbjct: 51  QNCPDYYDVIKNPXSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSV 104

>pdb|3GG3|A Chain A, Crystal Structure Of The Bromodomain Of Human Pcaf Length = 119

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 32/99 (32%), Positives = 51/99 (51%), Gaps = 14/99 (14%)
Query: 28  DPQRLY--------QIKSYCCSSSIDFKMDP---EELPDYCEVIEHPMDFGTVRNKLANG 76
           DP +LY        Q+KS+   S+  F M+P    E P Y EVI  PMD  T+  +L N 
Sbjct: 12  DPDQLYSTLKSILQQVKSH--QSAWPF-MEPVKRTEAPGYYEVIRFPMDLKTMSERLKNR 68
Query: 77  AYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHEL 115
            Y + + F  D+  + +N  +YN P++ Y++ A  + + 
Sbjct: 69  YYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKF 107

>pdb|1N72|A Chain A, Structure And Ligand Of A Histone Acetyltransferase Bromodomain Length = 118

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 32/99 (32%), Positives = 51/99 (51%), Gaps = 14/99 (14%)
Query: 28  DPQRLY--------QIKSYCCSSSIDFKMDP---EELPDYCEVIEHPMDFGTVRNKLANG 76
           DP +LY        Q+KS+   S+  F M+P    E P Y EVI  PMD  T+  +L N 
Sbjct: 10  DPDQLYSTLKSILQQVKSH--QSAWPF-MEPVKRTEAPGYYEVIRFPMDLKTMSERLKNR 66
Query: 77  AYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHEL 115
            Y + + F  D+  + +N  +YN P++ Y++ A  + + 
Sbjct: 67  YYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKF 105

>pdb|3O33|A Chain A, Crystal Structure Of Trim24 Phd-Bromo In The Free State Length = 184

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 26/70 (37%), Positives = 39/70 (55%), Gaps = 5/70 (7%)
Query: 38  YCCSSSIDFKMDPEEL--PDYCEVIEHPMDFGTVRNKLAN--GAYATLEQFEKDVFLICS 93
           YC   S+ F+ DP  L  PDY ++I++PMD  T++ +L      Y+  E F  D  LI  
Sbjct: 94  YCHEMSLAFQ-DPVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQ 152
Query: 94  NAMQYNAPDT 103
           N  ++N PD+
Sbjct: 153 NCAEFNEPDS 162

>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With Histone H4k12ac Peptide Length = 174

Iteration: 1
 Score = 45.8 bits (107), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +DP + PDY  VI+ PMD  T+  ++    Y  L +F  D+  I  N   YN  D+ +++
Sbjct: 97  VDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQ 156
Query: 108 QA 109
            A
Sbjct: 157 CA 158

>pdb|2RI7|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain Y17e Mutant From Human Bptf In The H3(1-9)k4me2 Bound State Length = 174

Iteration: 1
 Score = 45.4 bits (106), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +DP + PDY  VI+ PMD  T+  ++    Y  L +F  D+  I  N   YN  D+ +++
Sbjct: 97  VDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQ 156
Query: 108 QA 109
            A
Sbjct: 157 CA 158

>pdb|3QZS|A Chain A, Crystal Structure Of Bptf Bromo In Complex With Histone H4k16ac - Form I Length = 115

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +DP + PDY  VI+ PMD  T+  ++    Y  L +F  D+  I  N   YN  D+ +++
Sbjct: 38  VDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTAIFDNCRYYNPSDSPFYQ 97
Query: 108 QA 109
            A
Sbjct: 98  CA 99

>pdb|2RFJ|A Chain A, Crystal Structure Of The Bromo Domain 1 In Human Bromodomain Containing Protein, Testis Specific (Brdt) Length = 119

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/75 (29%), Positives = 39/75 (52%)
Query: 52  ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS 111
           +LPDY  +I++PMD  T++ +L N  YA   +  +D   + SN   YN P       A++
Sbjct: 44  QLPDYYTIIKNPMDLNTIKKRLENKYYAKASECIEDFNTMFSNCYLYNKPGDDIVLMAQA 103
Query: 112 IHELAKKNFENLRQD 126
           + +L  +    + Q+
Sbjct: 104 LEKLFMQKLSQMPQE 118

>pdb|2YYN|A Chain A, Crystal Sturcture Of Human Bromodomain Protein Length = 135

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 26/70 (37%), Positives = 39/70 (55%), Gaps = 5/70 (7%)
Query: 38  YCCSSSIDFKMDPEEL--PDYCEVIEHPMDFGTVRNKLAN--GAYATLEQFEKDVFLICS 93
           YC   S+ F+ DP  L  PDY ++I++PMD  T++ +L      Y+  E F  D  LI  
Sbjct: 33  YCHEMSLAFQ-DPVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQ 91
Query: 94  NAMQYNAPDT 103
           N  ++N PD+
Sbjct: 92  NCAEFNEPDS 101

>pdb|3QZT|A Chain A, Crystal Structure Of Bptf Bromo In Complex With Histone H4k16ac - Form Ii Length = 115

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +DP + PDY  VI+ PMD  T+  ++    Y  L +F  D+  I  N   YN  D+ +++
Sbjct: 38  VDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQ 97
Query: 108 QA 109
            A
Sbjct: 98  CA 99

>pdb|2R0Y|A Chain A, Structure Of The Rsc4 Tandem Bromodomain In Complex With An Acetylated H3 Peptide Length = 311

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 19/65 (29%), Positives = 34/65 (52%)
Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +D +ELP+Y E++  P     V+  L  G Y+ +  F  D  L+  NA  +N P  + ++
Sbjct: 188 VDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIFNDPSALIYK 247
Query: 108 QARSI 112
            A ++
Sbjct: 248 DATTL 252

>pdb|2R0S|A Chain A, Crystal Structure Of The Rsc4 Tandem Bromodomain Length = 285

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 19/65 (29%), Positives = 34/65 (52%)
Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +D +ELP+Y E++  P     V+  L  G Y+ +  F  D  L+  NA  +N P  + ++
Sbjct: 182 VDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIFNDPSALIYK 241
Query: 108 QARSI 112
            A ++
Sbjct: 242 DATTL 246

>pdb|3UV2|A Chain A, Crystal Structure Of The Bromodomain Of Human Nucleosome-Remodeling Factor Subunit Bptf Length = 126

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 21/77 (27%), Positives = 37/77 (48%)
Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +DP + PDY  VI+ PMD  T+  ++    Y  L +F  D+  I  N   YN  D+ +++
Sbjct: 45  VDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQ 104
Query: 108 QARSIHELAKKNFENLR 124
            A  +     +  +  +
Sbjct: 105 CAEVLESFFVQKLKGFK 121

>pdb|2YDW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd2 With The Inhibitor Gw841819x Length = 153

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 40/77 (51%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           LPDY ++I+ PMD GT++ +L N  Y    +  +D   + +N   YN P       A+++
Sbjct: 64  LPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTL 123
Query: 113 HELAKKNFENLRQDSDD 129
            ++  +   ++ Q+  +
Sbjct: 124 EKIFLQKVASMPQEEQE 140

>pdb|2L5E|A Chain A, Complex Between Bd1 Of Brd3 And Gata-1 C-Tail Length = 128

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP--DTIYFRQA 109
           LPDY ++I++PMD GT++ +L N  Y +  +  +D   + +N   YN P  D +   QA
Sbjct: 51  LPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQA 109

>pdb|4A9E|A Chain A, N-Terminal Bromodomain Of Human Brd2 With 3-Methyl-1,2,3,4- Tetrahydroquinazolin-2-One Length = 154

Iteration: 1
 Score = 43.1 bits (100), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 40/77 (51%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSI 112
           LPDY ++I+ PMD GT++ +L N  Y    +  +D   + +N   YN P       A+++
Sbjct: 64  LPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTL 123
Query: 113 HELAKKNFENLRQDSDD 129
            ++  +   ++ Q+  +
Sbjct: 124 EKIFLQKVASMPQEEQE 140

>pdb|2NXB|A Chain A, Crystal Structure Of Human Bromodomain Containing Protein 3 (Brd3) Length = 123

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP--DTIYFRQA 109
           LPDY ++I++PMD GT++ +L N  Y +  +  +D   + +N   YN P  D +   QA
Sbjct: 49  LPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQA 107

>pdb|2YW5|A Chain A, Solution Structure Of The Bromodomain From Human Bromodomain Containing Protein 3 Length = 138

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 53  LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP--DTIYFRQA 109
           LPDY ++I++PMD GT++ +L N  Y +  +  +D   + +N   YN P  D +   QA
Sbjct: 53  LPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQA 111

>pdb|3NXB|A Chain A, Crystal Structure Of The Bromodomain Of Human Cecr2 Length = 116

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 35/65 (53%)
Query: 48  MDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFR 107
           +D    P+Y ++I+ PMD  ++  KL  G Y T E+F  D+  +  N  +YN   + Y +
Sbjct: 41  VDESYAPNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNGESSEYTK 100
Query: 108 QARSI 112
            + ++
Sbjct: 101 MSDNL 105

>pdb|3TLP|A Chain A, Crystal Structure Of The Fourth Bromodomain Of Human Poly-Bromodomain Containing Protein 1 (Pb1) Length = 150

Iteration: 1
 Score = 42.4 bits (98), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 24/85 (28%), Positives = 42/85 (49%)
Query: 47  KMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF 106
           K   ++ PDY ++I  PMD   + + + N  YA  E   +D+ L+  NA  YN   +  +
Sbjct: 55  KPSKKDYPDYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQVY 114
Query: 107 RQARSIHELAKKNFENLRQDSDDNE 131
             A  + +L K+  + L    DD++
Sbjct: 115 NDAHILEKLLKEKRKELGPLPDDDD 139

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	594
2d9e_A	121	Peregrin; four-helix bundle, transcription activat	2e-34
2i7k_A	117	Bromodomain-containing protein 7; helix, LEFT-hand	5e-34
3rcw_A	135	Bromodomain-containing protein 1; transcription, s	1e-33
3hme_A	123	Bromodomain-containing protein 9; BRD9, bromodomai	9e-33
2grc_A	129	Probable global transcription activator SNF2L4; br	8e-31
3g0l_A	117	Hwalp4, bromodomain adjacent to zinc finger domain	1e-30
3uv4_A	158	Second bromodomain of human transcription initiat	4e-30
1e6i_A	121	Transcriptional activator GCN5; gene regulation, b	4e-30
3dai_A	130	ATPase family AAA domain-containing protein 2; anc	5e-29
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	1e-28
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	4e-22
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	6e-28
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	9e-22
3mb4_A	124	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	7e-28
3iu5_A	116	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	8e-28
3p1f_A	119	CREB-binding protein; structural genomics consorti	1e-27
3q2e_A	123	Bromodomain and WD repeat-containing protein 1; st	6e-27
2dat_A	123	Possible global transcription activator SNF2L2; br	1e-26
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	2e-26
3d7c_A	112	General control of amino acid synthesis protein 5;	3e-26
3k2j_A	130	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	4e-26
3ljw_A	120	Protein polybromo-1; alpha helix, alternative spli	8e-26
3jvl_A	120	Bromodomain-containing protein 4; alpha helical, N	3e-25
3nxb_A	116	CAT eye syndrome critical region protein 2; struct	5e-25
3tlp_A	150	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	8e-25
3mb3_A	135	PH-interacting protein; PHIP, pleckstrin homology	8e-25
2ouo_A	130	HUNK1 protein, bromodomain-containing protein 4; B	2e-24
3mqm_A	126	Probable histone-lysine N-methyltransferase ASH1L;	2e-24
2dkw_A	131	Hypothetical protein KIAA1240; bromodomain-like, f	3e-24
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	8e-23
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	1e-18
2oss_A	127	HUNK1 protein, bromodomain-containing protein 4; B	2e-22
4alg_A	154	Bromodomain-containing protein 2; signaling protei	2e-22
3fkm_X	166	Signaling protein; bromodomain, malaria, structura	4e-22
2r10_A	361	Chromatin structure-remodeling complex protein RSC	4e-22
2r10_A	361	Chromatin structure-remodeling complex protein RSC	2e-16
3iu6_A	147	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	1e-21
2yyn_A	135	Transcription intermediary factor 1-alpha; bromo d	1e-21
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	4e-21
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	4e-16
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	6e-11
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	8e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07

>2d9e_A Peregrin; four-helix bundle, transcription activator, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 121

 Score =  125 bits (317), Expect = 2e-34
 Identities = 29/85 (34%), Positives = 44/85 (51%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
              E+PDY + I+ PMDF T++  L    Y   + FE+D  LI SN ++YNA DTI++R 
Sbjct: 33  PLSEVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRA 92

Query: 109 ARSIHELAKKNFENLRQDSDDNEPE 133
           A  + E         R+ ++     
Sbjct: 93  AVRLREQGGAVLRQARRQAEKMGSG 117

>2i7k_A Bromodomain-containing protein 7; helix, LEFT-handed four-helix bundle, transcription; NMR {Homo sapiens} Length = 117

 Score =  124 bits (313), Expect = 5e-34
 Identities = 27/83 (32%), Positives = 46/83 (55%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
                P Y  +I+HPMDF T++ K+ N  Y ++E+ + +  L+C+NAM YN P+TIY++ 
Sbjct: 34  TDFIAPGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKA 93

Query: 109 ARSIHELAKKNFENLRQDSDDNE 131
           A+ +     K     R +   + 
Sbjct: 94  AKKLLHSGMKILSQERLEHHHHH 116

>3rcw_A Bromodomain-containing protein 1; transcription, structural genomics, structural consortium, SGC; 2.21A {Homo sapiens} Length = 135

 Score =  124 bits (312), Expect = 1e-33
 Identities = 34/96 (35%), Positives = 52/96 (54%), Gaps = 2/96 (2%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
             +E+PDY + I+HPMDF T+R +L    Y  L +FE+D  LI  N M+YNA DT+++R 
Sbjct: 39  SLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNARDTVFYRA 98

Query: 109 ARSIHELAKKNFENLRQDSDDN--EPETKVVRRGRP 142
           A  + +         R++ D    E  + +    RP
Sbjct: 99  AVRLRDQGGVVLRQARREVDSIGLEEASGMHLPERP 134

>3hme_A Bromodomain-containing protein 9; BRD9, bromodomain containing 9 isoform 1, LAVS3040, rhabdomyosarcoma antigen MU-RMS-40.8; 2.23A {Homo sapiens} Length = 123

 Score =  121 bits (305), Expect = 9e-33
 Identities = 29/76 (38%), Positives = 44/76 (57%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
                P Y  +I+HPMDFGT+++K+    Y ++ +F+ D  L+C NAM YN PDT+Y++ 
Sbjct: 39  TDAIAPGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKL 98

Query: 109 ARSIHELAKKNFENLR 124
           A+ I     K     R
Sbjct: 99  AKKILHAGFKMMSKER 114

>2grc_A Probable global transcription activator SNF2L4; bromodomain, BRG1, chromatin remodelling, acely-lysine binding, protein-protein interactions; 1.50A {Homo sapiens} PDB: 3uvd_A 2h60_A Length = 129

 Score =  115 bits (291), Expect = 8e-31
 Identities = 23/86 (26%), Positives = 45/86 (52%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
             +ELP+Y E+I  P+DF  ++ ++ N  Y +L   EKDV L+C NA  +N   ++ +  
Sbjct: 44  SRKELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYED 103

Query: 109 ARSIHELAKKNFENLRQDSDDNEPET 134
           +  +  +     + + ++ D    E+
Sbjct: 104 SIVLQSVFTSVRQKIEKEDDSEGEES 129

>3g0l_A Hwalp4, bromodomain adjacent to zinc finger domain protei; BAZB2, KIAA1 WALP4, structural genomics consortium, SGC, transcription; 2.03A {Homo sapiens} PDB: 3q2f_A* 2e7o_A Length = 117

 Score =  115 bits (289), Expect = 1e-30
 Identities = 26/79 (32%), Positives = 44/79 (55%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           + + +P Y +VI+ PMDF T+R KL++G Y  LE F  DV L+  N   +N  D+   R 
Sbjct: 39  NLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRA 98

Query: 109 ARSIHELAKKNFENLRQDS 127
             ++ +  +K + +  + S
Sbjct: 99  GHNMRKYFEKKWTDTFKVS 117

>3uv4_A Second bromodomain of human transcription initiat TFIID subunit 1 (TAF1); structural genomics consortium, SGC; 1.89A {Homo sapiens} PDB: 3hmh_A Length = 158

 Score =  114 bits (288), Expect = 4e-30
 Identities = 25/91 (27%), Positives = 47/91 (51%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           + + +PDY +VI +PMD  T+R  ++   Y + E F  DV LI +N+++YN P++ Y + 
Sbjct: 56  NKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKT 115

Query: 109 ARSIHELAKKNFENLRQDSDDNEPETKVVRR 139
           A+ I  +  +      +     E +    + 
Sbjct: 116 AQEIVNVCYQTLTEYDEHLTQLEKDICTAKE 146

>1e6i_A Transcriptional activator GCN5; gene regulation, bromodomain, histone binding, N-acetyl lysine; HET: ALY; 1.87A {Saccharomyces cerevisiae} SCOP: a.29.2.1 Length = 121

 Score =  113 bits (285), Expect = 4e-30
 Identities = 24/83 (28%), Positives = 42/83 (50%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           + EE+PDY + I+ PMD  T+  KL +  Y  +E F  D  L+ +N   YN  +T Y++ 
Sbjct: 39  NKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYKY 98

Query: 109 ARSIHELAKKNFENLRQDSDDNE 131
           A  + +      + + + S   +
Sbjct: 99  ANRLEKFFNNKVKEIPEYSHLID 121

>3dai_A ATPase family AAA domain-containing protein 2; ancca, AAA+ nuclear coregulator cancer-associated Pro2000 protein, two AAA DOMA containing protein; 1.95A {Homo sapiens} PDB: 3lxj_A Length = 130

 Score =  110 bits (278), Expect = 5e-29
 Identities = 29/95 (30%), Positives = 50/95 (52%), Gaps = 4/95 (4%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP----DTI 104
           DP+E+PDY  VI+ PMD  +V +K+    Y T++ + +D+ LICSNA++YN      D +
Sbjct: 36  DPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYNPDRDPGDRL 95

Query: 105 YFRQARSIHELAKKNFENLRQDSDDNEPETKVVRR 139
              +A ++ + A    +    +  +   E     R
Sbjct: 96  IRHRACALRDTAYAIIKEELDEDFEQLCEEIQESR 130

>3uv5_A Transcription initiation factor TFIID subunit 1; tandem bromodomain, TAF1, cell cycle gene 1 protein, TBP-ASS factor 250 kDa; 2.03A {Homo sapiens} PDB: 1eqf_A Length = 265

 Score =  114 bits (286), Expect = 1e-28
 Identities = 25/91 (27%), Positives = 47/91 (51%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           + + +PDY +VI +PMD  T+R  ++   Y + E F  DV LI +N+++YN P++ Y + 
Sbjct: 163 NKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKT 222

Query: 109 ARSIHELAKKNFENLRQDSDDNEPETKVVRR 139
           A+ I  +  +      +     E +    + 
Sbjct: 223 AQEIVNVCYQTLTEYDEHLTQLEKDICTAKE 253

>3uv5_A Transcription initiation factor TFIID subunit 1; tandem bromodomain, TAF1, cell cycle gene 1 protein, TBP-ASS factor 250 kDa; 2.03A {Homo sapiens} PDB: 1eqf_A Length = 265

 Score = 95.4 bits (237), Expect = 4e-22
 Identities = 21/116 (18%), Positives = 43/116 (37%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           + + + DY ++I  PMD  T+R  +    Y + E+F + + LI  N+  YN P     + 
Sbjct: 40  NAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQI 99

Query: 109 ARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFS 164
           ++S+ +L  +  +         E     +                 + +      S
Sbjct: 100 SQSMLDLCDEKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKMMAVPDS 155

>3aad_A Transcription initiation factor TFIID subunit 1; protein-protein complex, bromodomain, transcription, transcr regulation, chromatin regulator, transcription-C complex; 3.30A {Homo sapiens} Length = 292

 Score =  112 bits (282), Expect = 6e-28
 Identities = 25/91 (27%), Positives = 47/91 (51%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           + + +PDY +VI +PMD  T+R  ++   Y + E F  DV LI +N+++YN P++ Y + 
Sbjct: 196 NKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKT 255

Query: 109 ARSIHELAKKNFENLRQDSDDNEPETKVVRR 139
           A+ I  +  +      +     E +    + 
Sbjct: 256 AQEIVNVCYQTLTEYDEHLTQLEKDICTAKE 286

>3aad_A Transcription initiation factor TFIID subunit 1; protein-protein complex, bromodomain, transcription, transcr regulation, chromatin regulator, transcription-C complex; 3.30A {Homo sapiens} Length = 292

 Score = 95.1 bits (236), Expect = 9e-22
 Identities = 20/101 (19%), Positives = 40/101 (39%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           + + + DY ++I  PMD  T+R  +    Y + E+F + + LI  N+  YN P     + 
Sbjct: 73  NAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQI 132

Query: 109 ARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKK 149
           ++S+ +L  +  +         E     +            
Sbjct: 133 SQSMLDLCDEKLKEKEDKLARLEKAINPLLDDDDQVAFSFI 173

>3mb4_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo-1D, PBRM1, BRG associated factor 180, structural genomics consortium, SGC; 1.66A {Homo sapiens} PDB: 3g0j_A 2yqd_A Length = 124

 Score =  107 bits (269), Expect = 7e-28
 Identities = 21/78 (26%), Positives = 41/78 (52%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
              ELPDY   I+ PMD   +R+ +    Y  ++   +D  ++ +NA  YN P+++ ++ 
Sbjct: 47  SRSELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKD 106

Query: 109 ARSIHELAKKNFENLRQD 126
           A  +H++  +   +L  D
Sbjct: 107 ALVLHKVLLETRRDLEGD 124

>3iu5_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo0ID, PBRM1, BRG associated factor 180, structural genomics, SGC; 1.63A {Homo sapiens} Length = 116

 Score =  107 bits (268), Expect = 8e-28
 Identities = 20/80 (25%), Positives = 34/80 (42%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
                PDY EV+  P+D   ++ KL    Y  +     D  L+ +NA  Y  PD+  ++ 
Sbjct: 37  KRRNQPDYYEVVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKA 96

Query: 109 ARSIHELAKKNFENLRQDSD 128
           A  + +L  +      Q  +
Sbjct: 97  ACKLWDLYLRTRNEFVQKGE 116

>3p1f_A CREB-binding protein; structural genomics consortium, SGC, CBP, crebbp, CREB bindi protein isoform A, KAT3A, RSTS, RST, bromodomain, transcrip; HET: 3PF; 1.63A {Homo sapiens} PDB: 3dwy_A 3p1d_A 3p1c_A 3p1e_A* 3svh_A* 4a9k_A* 1jsp_B* 2d82_A* 2l84_A* 2l85_A* 2rny_A* 3i3j_A Length = 119

 Score =  106 bits (267), Expect = 1e-27
 Identities = 23/79 (29%), Positives = 45/79 (56%), Gaps = 2/79 (2%)

Query: 49  DPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF 106
           DP+   +PDY +++++PMD  T++ KL  G Y    Q+  DV+L+ +NA  YN   +  +
Sbjct: 38  DPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVY 97

Query: 107 RQARSIHELAKKNFENLRQ 125
           +    + E+ ++  + + Q
Sbjct: 98  KFCSKLAEVFEQEIDPVMQ 116

>3q2e_A Bromodomain and WD repeat-containing protein 1; structural genomics consortium, SGC, cell cycle progression, signal transduction, apoptosis; 1.74A {Homo sapiens} Length = 123

 Score =  104 bits (262), Expect = 6e-27
 Identities = 28/79 (35%), Positives = 41/79 (51%), Gaps = 1/79 (1%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNA-PDTIYFR 107
           D  E PDY ++I+ PMDFGTVR  L  G Y +  +F KD+ LI SNA  Y     +  + 
Sbjct: 36  DLVEYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAKAYTPNKRSKIYS 95

Query: 108 QARSIHELAKKNFENLRQD 126
               +  L ++  + +  D
Sbjct: 96  MTLRLSALFEEKMKKISSD 114

>2dat_A Possible global transcription activator SNF2L2; bromodomain, all alpha protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 123

 Score =  103 bits (259), Expect = 1e-26
 Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 4/82 (4%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
             +ELP+Y E+I  P+DF  ++ ++ N  Y +L   EKDV L+C NA  +N   +  +  
Sbjct: 45  SRKELPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCHNAQTFNLEGSQIYED 104

Query: 109 ARSIHELAKKNFENLRQDSDDN 130
           +  +  +    F++ RQ    +
Sbjct: 105 SIVLQSV----FKSARQSGPSS 122

>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger, alpha-helical bundle, dimethyl-lysine, bromodom chromatin regulator, metal-binding, nucleus; HET: MLY; 1.45A {Homo sapiens} PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A* 3uv2_A* 3qzt_A* 3qzs_A* 2fui_A 2fuu_A* Length = 174

 Score =  104 bits (262), Expect = 2e-26
 Identities = 21/76 (27%), Positives = 36/76 (47%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           DP + PDY  VI+ PMD  T+  ++    Y  L +F  D+  I  N   YN  D+ +++ 
Sbjct: 98  DPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQC 157

Query: 109 ARSIHELAKKNFENLR 124
           A  +     +  +  +
Sbjct: 158 AEVLESFFVQKLKGFK 173

>3d7c_A General control of amino acid synthesis protein 5; GCN5, bromodomain, structural genomics consortium, SGC, HOST-virus interaction, nucleus; 2.06A {Homo sapiens} SCOP: a.29.2.1 PDB: 1f68_A 1jm4_B* 1n72_A 1wug_A* 1wum_A* 1zs5_A* 2rnw_A* 2rnx_A* 3gg3_A Length = 112

 Score =  102 bits (256), Expect = 3e-26
 Identities = 23/75 (30%), Positives = 37/75 (49%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
              E PDY EVI  P+D  T+  +L +  Y T + F  D+  + +N  +YN PD+ Y R 
Sbjct: 33  KKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPDSEYCRC 92

Query: 109 ARSIHELAKKNFENL 123
           A ++ +      +  
Sbjct: 93  ASALEKFFYFKLKEG 107

>3k2j_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo01D, PBRM1, BRG associated factor 180, structural genomics consortium, SGC; 2.20A {Homo sapiens} Length = 130

 Score =  102 bits (256), Expect = 4e-26
 Identities = 22/80 (27%), Positives = 43/80 (53%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
             ++ PDY + I+ P+    +R KL N  Y TL+  E D+ L+  NA +YN P++  +++
Sbjct: 49  SKKKYPDYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKR 108

Query: 109 ARSIHELAKKNFENLRQDSD 128
              + ++ +   + L +  D
Sbjct: 109 VLKLQQVMQAKKKELARRDD 128

>3ljw_A Protein polybromo-1; alpha helix, alternative splicing, bromodomain, chromatin RE DNA-binding, nucleus, phosphoprotein, transcription; 1.50A {Homo sapiens} PDB: 2ktb_B* 3hmf_A Length = 120

 Score =  101 bits (253), Expect = 8e-26
 Identities = 22/78 (28%), Positives = 39/78 (50%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
              + PDY  +I+ P+D  T+  ++ NG+Y ++    KD+ L+  NA  YN P +  F+ 
Sbjct: 40  SKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKD 99

Query: 109 ARSIHELAKKNFENLRQD 126
           A SI ++       +   
Sbjct: 100 ANSIKKIFYMKKAEIEHH 117

>3jvl_A Bromodomain-containing protein 4; alpha helical, N-acetyl lysine binding domain, signaling protein; 1.20A {Mus musculus} PDB: 3jvm_A 2dww_A 2i8n_A 3oni_A* 2dvv_A* 2e3k_A* 2g4a_A 3s92_A* 2oo1_A* 2e7n_A 2wp1_A* Length = 120

 Score =  100 bits (250), Expect = 3e-25
 Identities = 28/83 (33%), Positives = 47/83 (56%), Gaps = 2/83 (2%)

Query: 49  DPEEL--PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF 106
           D E L   DYC++I+HPMD  T+++KL +  Y   ++F  DV L+ SN  +YN PD    
Sbjct: 38  DVEALGLHDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVV 97

Query: 107 RQARSIHELAKKNFENLRQDSDD 129
             AR + ++ +  F  +  + ++
Sbjct: 98  AMARKLQDVFEMRFAKMPDEPEE 120

>3nxb_A CAT eye syndrome critical region protein 2; structural genomics consortium, SGC, CECR2, CAT eye syndrome chromosome region candidate 2, bromodomain; 1.83A {Homo sapiens} Length = 116

 Score = 99.3 bits (248), Expect = 5e-25
 Identities = 19/70 (27%), Positives = 35/70 (50%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           D    P+Y ++I+ PMD  ++  KL  G Y T E+F  D+  +  N  +YN   + Y + 
Sbjct: 42  DESYAPNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNGESSEYTKM 101

Query: 109 ARSIHELAKK 118
           + ++     +
Sbjct: 102 SDNLERCFHR 111

>3tlp_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo-1D, PBRM1, BRG associated factor 180, structural genomics consortium, SGC; 2.13A {Homo sapiens} Length = 150

 Score = 99.5 bits (248), Expect = 8e-25
 Identities = 23/86 (26%), Positives = 42/86 (48%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
             ++ PDY ++I  PMD   + + + N  YA  E   +D+ L+  NA  YN   +  +  
Sbjct: 57  SKKDYPDYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQVYND 116

Query: 109 ARSIHELAKKNFENLRQDSDDNEPET 134
           A  + +L K+  + L    DD++  +
Sbjct: 117 AHILEKLLKEKRKELGPLPDDDDMAS 142

>3mb3_A PH-interacting protein; PHIP, pleckstrin homology domain interacting protein, DCAF14 DDB1 and CUL4 associated factor 14, SGC; 2.25A {Homo sapiens} Length = 135

 Score = 99.0 bits (247), Expect = 8e-25
 Identities = 25/79 (31%), Positives = 40/79 (50%), Gaps = 1/79 (1%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPD-TIYFR 107
           D  E PDY ++I+ PMDF TVR  L  G Y +  +  KDV LI SN+  Y     +  + 
Sbjct: 47  DLLEYPDYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYS 106

Query: 108 QARSIHELAKKNFENLRQD 126
            +  +    +++  ++  D
Sbjct: 107 MSLRLSAFFEEHISSVLSD 125

>2ouo_A HUNK1 protein, bromodomain-containing protein 4; BRD4, structural genomics consortium, SGC, signaling protein; 1.89A {Homo sapiens} PDB: 2yem_A* Length = 130

 Score = 97.8 bits (244), Expect = 2e-24
 Identities = 28/80 (35%), Positives = 44/80 (55%), Gaps = 2/80 (2%)

Query: 49  DPEEL--PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF 106
           D E L   DYC++I+HPMD  T+++KL    Y   ++F  DV L+ SN  +YN PD    
Sbjct: 51  DVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVV 110

Query: 107 RQARSIHELAKKNFENLRQD 126
             AR + ++ +  F  +  +
Sbjct: 111 AMARKLQDVFEMRFAKMPDE 130

>3mqm_A Probable histone-lysine N-methyltransferase ASH1L; KIAA1420, absent small and homeotic disks prote homolog, lysine N-methyltransferase 2H, KMT2H; 2.54A {Homo sapiens} Length = 126

 Score = 97.4 bits (243), Expect = 2e-24
 Identities = 20/86 (23%), Positives = 35/86 (40%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
             ++  DY E I  P+D  T+  ++  G Y T+E F+ D+  +  NA +Y    +   R 
Sbjct: 41  PKKKNADYYEKISDPLDLITIEKQILTGYYKTVEAFDADMLKVFRNAEKYYGRKSPVGRD 100

Query: 109 ARSIHELAKKNFENLRQDSDDNEPET 134
              + +             D+   ET
Sbjct: 101 VCRLRKAYYNARHEASAQIDEIVGET 126

>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 131

 Score = 97.5 bits (243), Expect = 3e-24
 Identities = 27/96 (28%), Positives = 41/96 (42%), Gaps = 4/96 (4%)

Query: 54  PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH 113
            DY EVI+ PMD  TV  K+    Y T + F KD+ LICSNA++YN       +  R   
Sbjct: 38  SDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKIIRH-- 95

Query: 114 ELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKK 149
             A    ++        E + +  +      ++   
Sbjct: 96  -RACT-LKDTAHAIIAAELDPEFNKLCEEIKESGPS 129

>2r0y_A Chromatin structure-remodeling complex protein RSC4; bromodomain, chromatin, remodeler, RSC, acetylation, transcription, chromatin regulator, nucleus, phosphorylation; HET: ALY; 1.75A {Saccharomyces cerevisiae} PDB: 2r0s_A Length = 311

 Score = 98.6 bits (245), Expect = 8e-23
 Identities = 25/117 (21%), Positives = 45/117 (38%), Gaps = 14/117 (11%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           D +ELP+Y E++  PM    V+  L  G Y+ +  F  D+ L+  NA  +N P  + ++ 
Sbjct: 189 DKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKD 248

Query: 109 ARSIHELAKKNFE--------------NLRQDSDDNEPETKVVRRGRPPTKNFKKPL 151
           A ++        +               +  + D  E E  +   G  P       +
Sbjct: 249 ATTLTNYFNYLIQKEFFPELQDLNERGEINLEFDKFEFENYLAIGGGGPAAAGALAI 305

>2r0y_A Chromatin structure-remodeling complex protein RSC4; bromodomain, chromatin, remodeler, RSC, acetylation, transcription, chromatin regulator, nucleus, phosphorylation; HET: ALY; 1.75A {Saccharomyces cerevisiae} PDB: 2r0s_A Length = 311

 Score = 86.3 bits (213), Expect = 1e-18
 Identities = 15/112 (13%), Positives = 35/112 (31%), Gaps = 1/112 (0%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
             +  P Y   I+ PM    ++++           F  DV L+  N   YN  D++  + 
Sbjct: 56  SRKFHPQYYYKIQQPMSINEIKSRD-YEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKN 114

Query: 109 ARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERAR 160
           +  +  L +      +    +    ++V  +             +   +   
Sbjct: 115 SMQVVMLIEFEVLKAKNLKRNYLINSEVKAKLLHYLNKLVDATEKKINQALL 166

>2oss_A HUNK1 protein, bromodomain-containing protein 4; BRD4, structural genomics consortium, SGC, signaling protein; 1.35A {Homo sapiens} PDB: 2yel_A* 3mxf_A* 3p5o_A* 3svf_A* 3svg_A* 3u5j_A* 3u5k_A* 3u5l_A* 3uvw_A* 3uvx_A* 3uvy_A* 3uw9_A* 3zyu_A* 4a9l_A* 4e96_A* 3jvj_A 3jvk_A* 3muk_A* 3mul_A* 2nxb_A ... Length = 127

 Score = 92.4 bits (230), Expect = 2e-22
 Identities = 22/80 (27%), Positives = 38/80 (47%), Gaps = 2/80 (2%)

Query: 49  DPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF 106
           D     LPDY ++I+ PMD GT++ +L N  Y   ++  +D   + +N   YN P     
Sbjct: 47  DAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIV 106

Query: 107 RQARSIHELAKKNFENLRQD 126
             A ++ +L  +    L  +
Sbjct: 107 LMAEALEKLFLQKINELPTE 126

>4alg_A Bromodomain-containing protein 2; signaling protein, inhibitor, histone, epigenetic reader; HET: 1GH; 1.60A {Homo sapiens} PDB: 4a9e_A 4a9h_A* 4a9i_A* 4a9j_A* 4a9m_A* 4a9n_A* 4a9o_A* 4a9p_A* 4a9f_A* 4alh_A* 4akn_A* 2yek_A* 2ydw_A* 2yw5_A Length = 154

 Score = 92.9 bits (231), Expect = 2e-22
 Identities = 21/95 (22%), Positives = 43/95 (45%), Gaps = 2/95 (2%)

Query: 49  DPEEL--PDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF 106
           D  +L  PDY ++I+ PMD GT++ +L N  Y    +  +D   + +N   YN P     
Sbjct: 58  DAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIV 117

Query: 107 RQARSIHELAKKNFENLRQDSDDNEPETKVVRRGR 141
             A+++ ++  +   ++ Q+  +           +
Sbjct: 118 LMAQTLEKIFLQKVASMPQEEQELVVTIPKNSHKK 152

>3fkm_X Signaling protein; bromodomain, malaria, structural genomics, structural genomi consortium, SGC; 2.50A {Plasmodium falciparum 3D7} Length = 166

 Score = 92.6 bits (230), Expect = 4e-22
 Identities = 27/133 (20%), Positives = 50/133 (37%), Gaps = 4/133 (3%)

Query: 38  YCCSSSIDFKM--DPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICS 93
                   F+   D +    PDY +VI++PM F  ++ KL  G YA   +F KDV LI  
Sbjct: 34  SKYEGGHIFEKLVDAKKQNCPDYYDVIKNPMSFSCIKTKLKKGQYAYPSEFVKDVQLIFD 93

Query: 94  NAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGR 153
           N   YN  +++     ++I          +  ++   + +           +N K    +
Sbjct: 94  NCSLYNTSNSVVAITGKNIETYFNNQLIVMGYNNFILKEKKINDMLKLVEEENIKWSKEK 153

Query: 154 PSLERARSDFSSD 166
                   +  ++
Sbjct: 154 EDQIEEIDELENN 166

>2r10_A Chromatin structure-remodeling complex protein RSC4, linker, histone H3; bromodomain, remodeler, acetylation, transcription; HET: ALY; 2.20A {Saccharomyces cerevisiae} PDB: 2r0v_A* Length = 361

 Score = 97.2 bits (241), Expect = 4e-22
 Identities = 25/117 (21%), Positives = 45/117 (38%), Gaps = 14/117 (11%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
           D +ELP+Y E++  PM    V+  L  G Y+ +  F  D+ L+  NA  +N P  + ++ 
Sbjct: 239 DKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKD 298

Query: 109 ARSIHELAKKNFEN--------------LRQDSDDNEPETKVVRRGRPPTKNFKKPL 151
           A ++        +               +  + D  E E  +   G  P       +
Sbjct: 299 ATTLTNYFNYLIQKEFFPELQDLNERGEINLEFDKFEFENYLAIGGGGPAAAGALAI 355

>2r10_A Chromatin structure-remodeling complex protein RSC4, linker, histone H3; bromodomain, remodeler, acetylation, transcription; HET: ALY; 2.20A {Saccharomyces cerevisiae} PDB: 2r0v_A* Length = 361

 Score = 80.2 bits (197), Expect = 2e-16
 Identities = 15/109 (13%), Positives = 35/109 (32%), Gaps = 1/109 (0%)

Query: 49  DPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ 108
             +  P Y   I+ PM    ++++           F  DV L+  N   YN  D++  + 
Sbjct: 106 SRKFHPQYYYKIQQPMSINEIKSRD-YEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKN 164

Query: 109 ARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLE 157
           +  +  L +      +    +    ++V  +             +   +
Sbjct: 165 SMQVVMLIEFEVLKAKNLKRNYLINSEVKAKLLHYLNKLVDATEKKINQ 213

>3iu6_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo0ID, PBRM1, BRG associated factor 180, structural genomics, SGC; HET: OCS; 1.79A {Homo sapiens} Length = 147

 Score = 90.3 bits (224), Expect = 1e-21
 Identities = 20/121 (16%), Positives = 45/121 (37%), Gaps = 7/121 (5%)

Query: 46  FKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY 105
               P   P++    + P+ F  +R  + N  Y  L+ F++ +F +   A + N  D+  
Sbjct: 34  LAEIPAVDPNF--PNKPPLTFDIIRKNVENNRYRRLDLFQEHMFEVLERARRMNRTDSEI 91

Query: 106 FRQARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSS 165
           +  A  + +   K  + L ++ +               TK+    + +   E+   +   
Sbjct: 92  YEDAVELQQFFIKIRDELCKNGEILLSPAL-----SYTTKHLHNDVEKERKEKLPKEIEE 146

Query: 166 D 166
           D
Sbjct: 147 D 147

>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural genomics, NPPSFA; 2.50A {Homo sapiens} Length = 135

 Score = 89.7 bits (223), Expect = 1e-21
 Identities = 27/102 (26%), Positives = 46/102 (45%), Gaps = 5/102 (4%)

Query: 38  YCCSSSIDFKMDP--EELPDYCEVIEHPMDFGTVRNKLAN--GAYATLEQFEKDVFLICS 93
           YC   S+ F  DP    +PDY ++I++PMD  T++ +L      Y+  E F  D  LI  
Sbjct: 33  YCHEMSLAF-QDPVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQ 91

Query: 94  NAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPETK 135
           N  ++N PD+        +    ++  +NL  +    +    
Sbjct: 92  NCAEFNEPDSEVANAGIKLENYFEELLKNLYPEKRFPKSGPS 133

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A Length = 184

 Score = 90.0 bits (223), Expect = 4e-21
 Identities = 27/104 (25%), Positives = 49/104 (47%), Gaps = 5/104 (4%)

Query: 25  WNWDPQRLYQI--KSYCCSSSIDFKMD-PEELPDYCEVIEHPMDFGTVRNKLAN--GAYA 79
              D ++  ++    YC   S+ F+   P  +PDY ++I++PMD  T++ +L      Y+
Sbjct: 79  TPIDKRKCERLLLFLYCHEMSLAFQDPVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYS 138

Query: 80  TLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENL 123
             E F  D  LI  N  ++N PD+        +    ++  +NL
Sbjct: 139 KPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNL 182

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A* Length = 207

 Score = 76.5 bits (187), Expect = 4e-16
 Identities = 27/102 (26%), Positives = 44/102 (43%), Gaps = 4/102 (3%)

Query: 24  SWNWDPQRLYQIKSYCCSSSIDF-KMDPEELPDYCEVIEHPMDFGTVRNKL---ANGAYA 79
             +        +  YC   SI+F +  P  +P+Y ++I+ PMD  TV+ KL    +  Y 
Sbjct: 80  PVDQRKCERLLLYLYCHELSIEFQEPVPASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQ 139

Query: 80  TLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFE 121
             + F  DV LI  N  ++N    +    A +     K + E
Sbjct: 140 IPDDFVADVRLIFKNCERFNEMMKVVQVYADTQEINLKADSE 181

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens} Length = 189

 Score = 61.0 bits (147), Expect = 6e-11
 Identities = 9/94 (9%), Positives = 26/94 (27%), Gaps = 4/94 (4%)

Query: 36  KSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKL---ANGAYATLEQFEKDVFLIC 92
             +C            +     +     +D   +R +L    +  Y++ ++F +DV  + 
Sbjct: 87  ALFCHEPCRPLHQLATDSTFSLDQPGGTLDLTLIRARLQEKLSPPYSSPQEFAQDVGRMF 146

Query: 93  SNAMQYNAPDTIYFRQARSIHELAKKNFENLRQD 126
               +         +    +    +        D
Sbjct: 147 KQFNKLTEDKADV-QSIIGLQRFFETRMNEAFGD 179

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A Length = 183

 Score = 60.4 bits (145), Expect = 8e-11
 Identities = 12/108 (11%), Positives = 30/108 (27%)

Query: 26  NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFE 85
            W      +++                        + P+D   V+ K+  G Y ++ +F 
Sbjct: 67  EWRLALEKELQISLKQVLTALLNSRTTSHLLRYRQQQPLDLEGVKRKMDQGNYTSVLEFS 126

Query: 86  KDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPE 133
            D+  I   A+  +       +    +     +  E +       +  
Sbjct: 127 DDIVKIIQAAINSDGGQPEIKKANSMVKSFFIRQMERVFPWFSVKKSR 174

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 53.7 bits (128), Expect = 1e-07
 Identities = 69/491 (14%), Positives = 131/491 (26%), Gaps = 158/491 (32%)

Query: 38  YCCSSSI-----DFK--MDPEELPDYC----------EVIEHPMD-------FGTVRNKL 73
           Y     +      F    D +++ D             +I            F T+ +K 
Sbjct: 16  YQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQ 75

Query: 74  ANGAYATLEQFEKD--VFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQD-SDDN 130
                  +E+  +    FL+     +   P             +  + +   R    +DN
Sbjct: 76  EEMVQKFVEEVLRINYKFLMSPIKTEQRQP------------SMMTRMYIEQRDRLYNDN 123

Query: 131 EPETKV-VRRGRPPTKNFKKPLGRPSLERARSDFSSDVTL--ASGAENTALTNRDLGNGT 187
           +   K  V R +P  K     L R +L   R   + +V +    G+  T +      +  
Sbjct: 124 QVFAKYNVSRLQPYLK-----L-RQALLELRP--AKNVLIDGVLGSGKTWVALDVCLSYK 175

Query: 188 PHLE--------KSGFTDSSRRFSGSWNDLYTGCLAENKLERNDEVSLSKGYSMKHGKKQ 239
              +             +S          L        +++ N         ++K     
Sbjct: 176 VQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY------QIDPNWTSRSDHSSNIKLRIHS 229

Query: 240 VVLDENRRNTYKQFHQSL------RESSVLTTFDADKKQLMTVGLHSEHGYTR--SLARF 291
           +  +  R    K +   L      + +     F+   K L+T         TR   +  F
Sbjct: 230 IQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLT---------TRFKQVTDF 280

Query: 292 AANLGPVAWKIAARRIERCL-PAGVRFGPG----------WVVENDLAPQ----RPLLLS 336
            +         AA      L    +   P                DL  +     P  L 
Sbjct: 281 LS---------AATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRL- 330

Query: 337 SATVGLPSSSQPSLIPENLSSASTHSTIE----LKGDKLTERPEAEDSSEKPGPSTQSSL 392
                       S+I E++      +T +    +  DKLT   E+  +  +P     +  
Sbjct: 331 ------------SIIAESIRDG--LATWDNWKHVNCDKLTTIIESSLNVLEP-----AEY 371

Query: 393 DGHFKKPNTSSLLVVNRFSE----PAK---------EKAEIIEGLKSQLNLVNSSMGAIN 439
              F +      L V  F      P            K++++  +     L   S+  + 
Sbjct: 372 RKMFDR------LSV--FPPSAHIPTILLSLIWFDVIKSDVMVVVNK---LHKYSL--VE 418

Query: 440 TRPP---FQIH 447
            +P      I 
Sbjct: 419 KQPKESTISIP 429

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	594
3g0l_A	117	Hwalp4, bromodomain adjacent to zinc finger domain	99.93
1e6i_A	121	Transcriptional activator GCN5; gene regulation, b	99.93
3d7c_A	112	General control of amino acid synthesis protein 5;	99.93
2d9e_A	121	Peregrin; four-helix bundle, transcription activat	99.93
4alg_A	154	Bromodomain-containing protein 2; signaling protei	99.93
3jvl_A	120	Bromodomain-containing protein 4; alpha helical, N	99.92
3nxb_A	116	CAT eye syndrome critical region protein 2; struct	99.92
2oss_A	127	HUNK1 protein, bromodomain-containing protein 4; B	99.92
2dat_A	123	Possible global transcription activator SNF2L2; br	99.92
2i7k_A	117	Bromodomain-containing protein 7; helix, LEFT-hand	99.92
2grc_A	129	Probable global transcription activator SNF2L4; br	99.92
2ouo_A	130	HUNK1 protein, bromodomain-containing protein 4; B	99.92
2yyn_A	135	Transcription intermediary factor 1-alpha; bromo d	99.92
3hme_A	123	Bromodomain-containing protein 9; BRD9, bromodomai	99.92
3rcw_A	135	Bromodomain-containing protein 1; transcription, s	99.92
3q2e_A	123	Bromodomain and WD repeat-containing protein 1; st	99.92
3iu5_A	116	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.92
3mb3_A	135	PH-interacting protein; PHIP, pleckstrin homology	99.91
3mb4_A	124	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.91
3p1f_A	119	CREB-binding protein; structural genomics consorti	99.91
3ljw_A	120	Protein polybromo-1; alpha helix, alternative spli	99.91
3k2j_A	130	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.91
3mqm_A	126	Probable histone-lysine N-methyltransferase ASH1L;	99.9
3fkm_X	166	Signaling protein; bromodomain, malaria, structura	99.9
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	99.9
3uv4_A	158	Second bromodomain of human transcription initiat	99.9
3tlp_A	150	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.89
3dai_A	130	ATPase family AAA domain-containing protein 2; anc	99.89
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	99.88
2dkw_A	131	Hypothetical protein KIAA1240; bromodomain-like, f	99.86
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	99.86
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	99.85
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	99.85
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	99.84
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	99.83
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	99.83
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	99.82
2r10_A	361	Chromatin structure-remodeling complex protein RSC	99.81
2r10_A	361	Chromatin structure-remodeling complex protein RSC	99.75
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	99.74
3iu6_A	147	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.64
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	99.38

>3g0l_A Hwalp4, bromodomain adjacent to zinc finger domain protei; BAZB2, KIAA1 WALP4, structural genomics consortium, SGC, transcription; 2.03A {Homo sapiens} PDB: 3q2f_A* 2e7o_A

Probab=99.93  E-value=3.9e-26  Score=203.77  Aligned_cols=102  Identities=25%  Similarity=0.399  Sum_probs=98.3

Q ss_pred             cccchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCC
Q 007651           24 SWNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDT  103 (594)
Q Consensus        24 s~~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS  103 (594)
                      .+.+|..||..|.+++.+++|.+|||++.+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||++++
T Consensus        14 ~~~~c~~il~~l~~~~~s~~F~~pv~~~~~pdY~~~I~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~yN~~~s   93 (117)
T 3g0l_A           14 DLALCSMILTEMETHEDAWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDS   93 (117)
T ss_dssp             HHHHHHHHHHHHHTSTTCGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHHHHSCSSS
T ss_pred             HHHHHHHHHHHHHhCCCchhhcCcCChhhcCChHHHcCCCCCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhc
Q 007651          104 IYFRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       104 ~i~k~Ak~Le~lfek~~~~L~~  125 (594)
                      .++++|..|++.|++.|+++-.
T Consensus        94 ~~~~~A~~L~~~f~~~~~~~~~  115 (117)
T 3g0l_A           94 DIGRAGHNMRKYFEKKWTDTFK  115 (117)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHc
Confidence            9999999999999999998754

>1e6i_A Transcriptional activator GCN5; gene regulation, bromodomain, histone binding, N-acetyl lysine; HET: ALY; 1.87A {Saccharomyces cerevisiae} SCOP: a.29.2.1

Probab=99.93  E-value=4.3e-26  Score=205.32  Aligned_cols=105  Identities=24%  Similarity=0.419  Sum_probs=100.1

Q ss_pred             cCCcccchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcC
Q 007651           21 KGLSWNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNA  100 (594)
Q Consensus        21 kgLs~~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~  100 (594)
                      .+-...+|..||.+|++++.+++|.+|||+..+|||+++|++||||+||++||+++.|.++++|.+||+|||.||+.||+
T Consensus        11 ~~~~~~~~~~il~~l~~~~~a~~F~~pvd~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yN~   90 (121)
T 1e6i_A           11 RGPHDAAIQNILTELQNHAAAWPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNG   90 (121)
T ss_dssp             CCTTHHHHHHHHHHHHHSTTCGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHSC
T ss_pred             CCHHHHHHHHHHHHHHcCCCchhhCCCCChhhCcCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCC
Confidence            44456789999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhhhc
Q 007651          101 PDTIYFRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       101 pdS~i~k~Ak~Le~lfek~~~~L~~  125 (594)
                      +++.++++|..|++.|++.+++++.
T Consensus        91 ~~s~i~~~A~~L~~~f~~~~~~~p~  115 (121)
T 1e6i_A           91 ENTSYYKYANRLEKFFNNKVKEIPE  115 (121)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHHTSGG
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHccc
Confidence            9999999999999999999998854

>3d7c_A General control of amino acid synthesis protein 5; GCN5, bromodomain, structural genomics consortium, SGC, HOST-virus interaction, nucleus; 2.06A {Homo sapiens} SCOP: a.29.2.1 PDB: 1f68_A 1jm4_B* 1n72_A 1wug_A* 1wum_A* 1zs5_A* 2rnw_A* 2rnx_A* 3gg3_A

Probab=99.93  E-value=7.9e-26  Score=200.56  Aligned_cols=100  Identities=28%  Similarity=0.349  Sum_probs=96.0

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHH
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY  105 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i  105 (594)
                      ..|..||.+|++++.+++|.+|||+..+|||+++|++||||+||++||+++.|.++++|.+||+|||.||+.||++++.+
T Consensus        10 ~~~~~il~~l~~~~~~~~F~~pvd~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yN~~~s~~   89 (112)
T 3d7c_A           10 TTLKNLLAQIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPDSEY   89 (112)
T ss_dssp             HHHHHHHHHHHHSGGGGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHHHHSCTTSHH
T ss_pred             HHHHHHHHHHHcCCCchhhcCCCCcccccCHHHHccCCcCHHHHHHHHcCCCCcCHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhc
Q 007651          106 FRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       106 ~k~Ak~Le~lfek~~~~L~~  125 (594)
                      +++|..|++.|++.++++..
T Consensus        90 ~~~A~~L~~~f~~~~~~~~~  109 (112)
T 3d7c_A           90 CRCASALEKFFYFKLKEGGL  109 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHHHHHCCC
Confidence            99999999999999998753

>2d9e_A Peregrin; four-helix bundle, transcription activator, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.93  E-value=4.6e-26  Score=205.32  Aligned_cols=101  Identities=31%  Similarity=0.473  Sum_probs=96.9

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHH
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY  105 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i  105 (594)
                      ..|..||.+|++++.+++|.+|||+..+||||++|++||||+||++||+++.|.++++|.+||+|||.||+.||++++.+
T Consensus        10 ~~l~~il~~l~~~~~~~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~~s~~   89 (121)
T 2d9e_A           10 ILLRKTLEQLQEKDTGNIFSEPVPLSEVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYNAKDTIF   89 (121)
T ss_dssp             HHHHHHHHHHHHHCSSCSSSSCCCTTTCTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHHHHSCTTSHH
T ss_pred             HHHHHHHHHHHcCCccHhhCCcCCccccCCHHHHcCCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence            35778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhcC
Q 007651          106 FRQARSIHELAKKNFENLRQD  126 (594)
Q Consensus       106 ~k~Ak~Le~lfek~~~~L~~d  126 (594)
                      |++|..|++.|++.+++++..
T Consensus        90 ~~~A~~L~~~~~~~l~~~~~~  110 (121)
T 2d9e_A           90 YRAAVRLREQGGAVLRQARRQ  110 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999988754

>4alg_A Bromodomain-containing protein 2; signaling protein, inhibitor, histone, epigenetic reader; HET: 1GH; 1.60A {Homo sapiens} PDB: 4a9e_A 4a9h_A* 4a9i_A* 4a9j_A* 4a9m_A* 4a9n_A* 4a9o_A* 4a9p_A* 4a9f_A* 4alh_A* 4akn_A* 2yek_A* 2ydw_A* 2yw5_A

Probab=99.93  E-value=8.2e-26  Score=211.63  Aligned_cols=102  Identities=21%  Similarity=0.360  Sum_probs=96.5

Q ss_pred             hHHHHHHHHhCCCCCCCcCCCCCC--CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHH
Q 007651           28 DPQRLYQIKSYCCSSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY  105 (594)
Q Consensus        28 c~qIL~kLk~~~~A~~F~ePVD~~--e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i  105 (594)
                      |..||..|.+++.+++|.+|||+.  ++||||+||++||||+||++||+++.|.++++|+.||+|||.||++||.+++.|
T Consensus        37 ~~~il~~l~~~~~a~~F~~PVd~~~~~~PdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~~Dv~Lif~Na~~YN~~~s~i  116 (154)
T 4alg_A           37 HKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDI  116 (154)
T ss_dssp             HHTHHHHHHTSTTCGGGSSCCCTTTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHSCTTSHH
T ss_pred             HHHHHHHHHhCcCchhhcCCCChhhccCCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence            456789999999999999999998  799999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhcCCCC
Q 007651          106 FRQARSIHELAKKNFENLRQDSDD  129 (594)
Q Consensus       106 ~k~Ak~Le~lfek~~~~L~~d~e~  129 (594)
                      |++|+.|++.|++.|++++.+..+
T Consensus       117 ~~~A~~L~~~f~~~~~~l~~~~~e  140 (154)
T 4alg_A          117 VLMAQTLEKIFLQKVASMPQEEQE  140 (154)
T ss_dssp             HHHHHHHHHHHHHHHTTSCSSCCB
T ss_pred             HHHHHHHHHHHHHHHHHCCchhcc
Confidence            999999999999999999866443

>3jvl_A Bromodomain-containing protein 4; alpha helical, N-acetyl lysine binding domain, signaling protein; 1.20A {Mus musculus} PDB: 3jvm_A 2dww_A 2i8n_A 3oni_A* 2dvv_A* 2e3k_A* 2g4a_A 3s92_A* 2oo1_A* 2e7n_A 2wp1_A*

Probab=99.92  E-value=4.3e-26  Score=204.26  Aligned_cols=103  Identities=28%  Similarity=0.484  Sum_probs=96.8

Q ss_pred             ccchHHHHHHHHhCCC---CCCCcCCCCCCC--CCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhc
Q 007651           25 WNWDPQRLYQIKSYCC---SSSIDFKMDPEE--LPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYN   99 (594)
Q Consensus        25 ~~wc~qIL~kLk~~~~---A~~F~ePVD~~e--~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN   99 (594)
                      +++|..||.+|.+++.   +++|.+|||+..  +||||++|++||||+||++||+++.|.++++|..||+|||.||++||
T Consensus        11 l~~c~~il~~l~~~~~~~~a~~F~~pvd~~~~~~pdY~~iI~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~yN   90 (120)
T 3jvl_A           11 LKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYN   90 (120)
T ss_dssp             HHHHHHHHHHHTSGGGHHHHGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCcCccccchhcCCCCchhcCCCCHHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            4578899999998887   899999999987  99999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhhhcCC
Q 007651          100 APDTIYFRQARSIHELAKKNFENLRQDS  127 (594)
Q Consensus       100 ~pdS~i~k~Ak~Le~lfek~~~~L~~d~  127 (594)
                      ++++.++++|+.|++.|++.+++++.+.
T Consensus        91 ~~~s~~~~~A~~L~~~f~~~~~~~p~~~  118 (120)
T 3jvl_A           91 PPDHEVVAMARKLQDVFEMRFAKMPDEP  118 (120)
T ss_dssp             CTTSHHHHHHHHHHHHHHHHHTTCCC--
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHCcCCC
Confidence            9999999999999999999999998654

>3nxb_A CAT eye syndrome critical region protein 2; structural genomics consortium, SGC, CECR2, CAT eye syndrome chromosome region candidate 2, bromodomain; 1.83A {Homo sapiens} SCOP: a.29.2.0

Probab=99.92  E-value=1.6e-25  Score=199.53  Aligned_cols=98  Identities=22%  Similarity=0.336  Sum_probs=94.6

Q ss_pred             ccchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCH
Q 007651           25 WNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTI  104 (594)
Q Consensus        25 ~~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~  104 (594)
                      +..|..||..|++++.+++|.+|||+..+|||+++|++||||+||++||+++.|.++++|..||+|||.||+.||++++.
T Consensus        18 ~~~~~~il~~l~~~~~s~~F~~pv~~~~~pdY~~~I~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~yN~~~s~   97 (116)
T 3nxb_A           18 FTAMYKVLDVVKAHKDSWPFLEPVDESYAPNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNGESSE   97 (116)
T ss_dssp             HHHHHHHHHHHHHSTTCGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHHhCCCcHhhcCcCChhhccChHHHcCCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHCCCCCH
Confidence            45677999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHh
Q 007651          105 YFRQARSIHELAKKNFEN  122 (594)
Q Consensus       105 i~k~Ak~Le~lfek~~~~  122 (594)
                      ++++|..|++.|++.|.+
T Consensus        98 ~~~~A~~L~~~f~~~~~k  115 (116)
T 3nxb_A           98 YTKMSDNLERCFHRAMMK  115 (116)
T ss_dssp             HHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHhh
Confidence            999999999999999875

>2oss_A HUNK1 protein, bromodomain-containing protein 4; BRD4, structural genomics consortium, SGC, signaling protein; 1.35A {Homo sapiens} PDB: 2yel_A* 3mxf_A* 3p5o_A* 3svf_A* 3svg_A* 3u5j_A* 3u5k_A* 3u5l_A* 3uvw_A* 3uvx_A* 3uvy_A* 3uw9_A* 3zyu_A* 4a9l_A* 4e96_A* 3jvj_A 3jvk_A* 3muk_A* 3mul_A* 2nxb_A ...

Probab=99.92  E-value=1.8e-25  Score=203.04  Aligned_cols=99  Identities=23%  Similarity=0.359  Sum_probs=94.6

Q ss_pred             hHHHHHHHHhCCCCCCCcCCCCCC--CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHH
Q 007651           28 DPQRLYQIKSYCCSSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY  105 (594)
Q Consensus        28 c~qIL~kLk~~~~A~~F~ePVD~~--e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i  105 (594)
                      |..||..|++++.+++|.+|||+.  .+||||+||++||||+||++||+++.|.++++|.+||+|||+||++||++++.+
T Consensus        26 ~~~il~~L~~~~~a~~F~~PVd~~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~~s~i  105 (127)
T 2oss_A           26 LRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDI  105 (127)
T ss_dssp             HHTHHHHHHTSTTCGGGSSCCCTTTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHSCTTCHH
T ss_pred             HHHHHHHHHhCccchhhcCCCChhhccCccHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence            457899999999999999999986  899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhcC
Q 007651          106 FRQARSIHELAKKNFENLRQD  126 (594)
Q Consensus       106 ~k~Ak~Le~lfek~~~~L~~d  126 (594)
                      |++|..|++.|++.+++++.+
T Consensus       106 ~~~A~~L~~~f~~~~~~lp~~  126 (127)
T 2oss_A          106 VLMAEALEKLFLQKINELPTE  126 (127)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCC
T ss_pred             HHHHHHHHHHHHHHHHHCCCC
Confidence            999999999999999998754

>2dat_A Possible global transcription activator SNF2L2; bromodomain, all alpha protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.92  E-value=2.1e-25  Score=201.24  Aligned_cols=100  Identities=24%  Similarity=0.415  Sum_probs=95.1

Q ss_pred             cchHHHHHHHHhCC------CCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhc
Q 007651           26 NWDPQRLYQIKSYC------CSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYN   99 (594)
Q Consensus        26 ~wc~qIL~kLk~~~------~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN   99 (594)
                      ..|..||..|+++.      .+++|.+||+...+||||++|++||||+||++||+++.|.++++|.+||+|||.||++||
T Consensus        16 ~~~~~il~~l~~~~d~~g~~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yN   95 (123)
T 2dat_A           16 KQMNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCHNAQTFN   95 (123)
T ss_dssp             HHHHHHHHHHHHCBCSSSCBSGGGGTSCCCTTTSCHHHHHCSSCCCHHHHHHHHTTTCCCSHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhhhcccCCeeeHHhcCCCCcccCCCHHHHcCCCCCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            45778999999886      589999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhhhc
Q 007651          100 APDTIYFRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       100 ~pdS~i~k~Ak~Le~lfek~~~~L~~  125 (594)
                      .+++.+|++|..|++.|++.+++++.
T Consensus        96 ~~~s~i~~~A~~L~~~f~~~~~~~ps  121 (123)
T 2dat_A           96 LEGSQIYEDSIVLQSVFKSARQSGPS  121 (123)
T ss_dssp             CTTSHHHHHHHHHHHHHHHHHHSSSC
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHcCC
Confidence            99999999999999999999998864

>2i7k_A Bromodomain-containing protein 7; helix, LEFT-handed four-helix bundle, transcription; NMR {Homo sapiens}

Probab=99.92  E-value=2.7e-25  Score=199.52  Aligned_cols=100  Identities=31%  Similarity=0.539  Sum_probs=95.5

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHH
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY  105 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i  105 (594)
                      ..|..||.+|++++.+++|.+|||+..+||||+||++||||+||++||+++.|.++++|.+||+|||.||+.||++++.+
T Consensus        11 ~~l~~il~~L~~~~~~~~F~~PVd~~~~pdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~~Dv~Li~~Na~~yN~~~s~i   90 (117)
T 2i7k_A           11 EALNQLMRQLQRKDPSAFFSFPVTDFIAPGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIY   90 (117)
T ss_dssp             HHHHHHHHHHHTSSGGGTSSSCCCTTTSSSHHHHCSCCCCHHHHHHHHTTTSCCSHHHHHHHHHHHHHHHHHTSCSSSSH
T ss_pred             HHHHHHHHHHHhCcccHHhcCCCCccccCCHHHHhCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence            34678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhc
Q 007651          106 FRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       106 ~k~Ak~Le~lfek~~~~L~~  125 (594)
                      |++|+.|++.|++.+....-
T Consensus        91 ~~~A~~L~~~f~~~~~~~~~  110 (117)
T 2i7k_A           91 YKAAKKLLHSGMKILSQERL  110 (117)
T ss_dssp             HHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999987654

>2grc_A Probable global transcription activator SNF2L4; bromodomain, BRG1, chromatin remodelling, acely-lysine binding, protein-protein interactions; 1.50A {Homo sapiens} PDB: 3uvd_A 2h60_A

Probab=99.92  E-value=1.5e-25  Score=203.82  Aligned_cols=106  Identities=23%  Similarity=0.452  Sum_probs=97.2

Q ss_pred             cchHHHHHHHHhCC-------CCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhh
Q 007651           26 NWDPQRLYQIKSYC-------CSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQY   98 (594)
Q Consensus        26 ~wc~qIL~kLk~~~-------~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~Y   98 (594)
                      ..|..||..|.++.       .+++|.+||+...+||||+||++||||+||++||+++.|.++++|.+||+|||.||+.|
T Consensus        14 ~~~~~il~~l~~~~d~~~~~~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~Li~~Na~~y   93 (129)
T 2grc_A           14 KKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTF   93 (129)
T ss_dssp             HHHHHHHHHHHHCBCTTTCCBGGGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccCeeeHHhcCCCCcccCCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            45778999999875       48999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCHHHHHHHHHHHHHHHHHHhhhcCCCCCC
Q 007651           99 NAPDTIYFRQARSIHELAKKNFENLRQDSDDNE  131 (594)
Q Consensus        99 N~pdS~i~k~Ak~Le~lfek~~~~L~~d~e~~E  131 (594)
                      |++++.+|++|..|++.|++.++++..+.+.++
T Consensus        94 N~~~s~i~~~A~~L~~~f~~~~~~l~~~~~~~~  126 (129)
T 2grc_A           94 NLEGSLIYEDSIVLQSVFTSVRQKIEKEDDSEG  126 (129)
T ss_dssp             SCTTSHHHHHHHHHHHHHHHHHHHHHHHTC---
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHccCCCcccc
Confidence            999999999999999999999999987655443

>2ouo_A HUNK1 protein, bromodomain-containing protein 4; BRD4, structural genomics consortium, SGC, signaling protein; 1.89A {Homo sapiens} PDB: 2yem_A*

Probab=99.92  E-value=1.4e-25  Score=204.53  Aligned_cols=101  Identities=29%  Similarity=0.477  Sum_probs=95.5

Q ss_pred             ccchHHHHHHHHhCCC---CCCCcCCCCCC--CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhc
Q 007651           25 WNWDPQRLYQIKSYCC---SSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYN   99 (594)
Q Consensus        25 ~~wc~qIL~kLk~~~~---A~~F~ePVD~~--e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN   99 (594)
                      +.+|..||.+|.+++.   +++|.+|||+.  .+||||+||++||||+||++||+++.|.++++|..||+|||.||++||
T Consensus        24 l~~c~~il~~L~~~~~~~~a~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~yN  103 (130)
T 2ouo_A           24 LKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYN  103 (130)
T ss_dssp             HHHHHHHHHHHTSGGGHHHHGGGSSCCCTTSTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCcchhHHHhcCCCChhhccCCcHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHc
Confidence            4578999999998764   89999999987  499999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhhhc
Q 007651          100 APDTIYFRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       100 ~pdS~i~k~Ak~Le~lfek~~~~L~~  125 (594)
                      ++++.+|++|..|++.|++.|.+++.
T Consensus       104 ~~~s~i~~~A~~L~~~f~~~~~~lp~  129 (130)
T 2ouo_A          104 PPDHEVVAMARKLQDVFEMRFAKMPD  129 (130)
T ss_dssp             CTTSHHHHHHHHHHHHHHHHHHTSCC
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHCCC
Confidence            99999999999999999999999874

>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural genomics, NPPSFA; 2.50A {Homo sapiens}

Probab=99.92  E-value=5.1e-25  Score=201.91  Aligned_cols=104  Identities=22%  Similarity=0.345  Sum_probs=98.1

Q ss_pred             cccchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhC--CCCCCHHHHHHHHHHHHHHhhhhcCC
Q 007651           24 SWNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLAN--GAYATLEQFEKDVFLICSNAMQYNAP  101 (594)
Q Consensus        24 s~~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~--g~Y~SieEF~~DVrLIf~NA~~YN~p  101 (594)
                      ...+|..||.+|++++.+++|.+||+. .+||||++|++||||+||++||++  +.|.++++|.+||+|||.||++||.+
T Consensus        21 ~~~~c~~il~~L~~~~~s~~F~~Pv~~-~~pdY~~iIk~PmDL~tI~~kL~~~~~~Y~s~~ef~~Dv~Lif~Na~~yN~~   99 (135)
T 2yyn_A           21 DKRKCERLLLFLYCHEMSLAFQDPVPL-TVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEP   99 (135)
T ss_dssp             HHHHHHHHHHHHHTSGGGGGGSSCCCT-TSTTHHHHCSSCCCHHHHHHHHHSSSCCCSSHHHHHHHHHHHHHHHHHHSCT
T ss_pred             HHHHHHHHHHHHHhCccchhhcCCCcc-cCCCHHHHcCCCCCHHHHHHHHhccccCCCCHHHHHHHHHHHHHHHHHHCCC
Confidence            346789999999999999999999998 799999999999999999999998  59999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHhhhcCCC
Q 007651          102 DTIYFRQARSIHELAKKNFENLRQDSD  128 (594)
Q Consensus       102 dS~i~k~Ak~Le~lfek~~~~L~~d~e  128 (594)
                      ++.+|++|..|++.|++.++++..+..
T Consensus       100 ~s~i~~~A~~L~~~f~~~~~~~~~~~~  126 (135)
T 2yyn_A          100 DSEVANAGIKLENYFEELLKNLYPEKR  126 (135)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHSSSCC
T ss_pred             CCHHHHHHHHHHHHHHHHHHHhccccC
Confidence            999999999999999999999976544

>3hme_A Bromodomain-containing protein 9; BRD9, bromodomain containing 9 isoform 1, LAVS3040, rhabdomyosarcoma antigen MU-RMS-40.8; 2.23A {Homo sapiens}

Probab=99.92  E-value=5.8e-25  Score=198.45  Aligned_cols=99  Identities=32%  Similarity=0.578  Sum_probs=94.4

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHH
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY  105 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i  105 (594)
                      ..|..||..|++++.+++|.+|||+..+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||++++.+
T Consensus        16 ~~l~~il~~l~~~~~~~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~yN~~~s~~   95 (123)
T 3hme_A           16 QLLEHFLRQLQRKDPHGFFAFPVTDAIAPGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVY   95 (123)
T ss_dssp             HHHHHHHHHHHTTCTTCSSSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHHHHSCTTSHH
T ss_pred             HHHHHHHHHHHhCCccHhhcCCCChhhccCHHHHCCCCCCHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence            34678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhh
Q 007651          106 FRQARSIHELAKKNFENLR  124 (594)
Q Consensus       106 ~k~Ak~Le~lfek~~~~L~  124 (594)
                      |++|..|++.|++.+.+.+
T Consensus        96 ~~~A~~L~~~~~~~~~~~~  114 (123)
T 3hme_A           96 YKLAKKILHAGFKMMSKER  114 (123)
T ss_dssp             HHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            9999999999999887543

>3rcw_A Bromodomain-containing protein 1; transcription, structural genomics, structural consortium, SGC; 2.21A {Homo sapiens}

Probab=99.92  E-value=8.6e-25  Score=199.72  Aligned_cols=101  Identities=32%  Similarity=0.517  Sum_probs=96.6

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHH
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY  105 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i  105 (594)
                      ..|..||..|++++.+++|.+|||+..+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||++++.+
T Consensus        16 ~~l~~il~~l~~~~~~~~F~~pv~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~yN~~~s~~   95 (135)
T 3rcw_A           16 VLLRSVLDQLQDKDPARIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNARDTVF   95 (135)
T ss_dssp             HHHHHHHHHHHHTCTTCSSSSCCCTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHSCTTSHH
T ss_pred             HHHHHHHHHHHhCCcchhhcCCCChhhcCCHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence            34678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhcC
Q 007651          106 FRQARSIHELAKKNFENLRQD  126 (594)
Q Consensus       106 ~k~Ak~Le~lfek~~~~L~~d  126 (594)
                      |++|..|++.|++.+++++.+
T Consensus        96 ~~~A~~L~~~~~~~~~~~~~~  116 (135)
T 3rcw_A           96 YRAAVRLRDQGGVVLRQARRE  116 (135)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999987654

>3q2e_A Bromodomain and WD repeat-containing protein 1; structural genomics consortium, SGC, cell cycle progression, signal transduction, apoptosis; 1.74A {Homo sapiens}

Probab=99.92  E-value=5.7e-25  Score=198.18  Aligned_cols=102  Identities=29%  Similarity=0.425  Sum_probs=97.2

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCC-CCH
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP-DTI  104 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~p-dS~  104 (594)
                      ..|.+||..|.+++.+++|.+|||+..+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||++ ++.
T Consensus        13 ~~c~~il~~l~~~~~s~~F~~pv~~~~~pdY~~~I~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~yN~~~~s~   92 (123)
T 3q2e_A           13 KQCKELVNLIFQCEDSEPFRQPVDLVEYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAKAYTPNKRSK   92 (123)
T ss_dssp             HHHHHHHHHHHTSGGGGGGSSCCCTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHSCCTTSH
T ss_pred             HHHHHHHHHHHhCCCcHhhcCCCChhhcCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCCH
Confidence            4578999999999999999999999999999999999999999999999999999999999999999999999996 899


Q ss_pred             HHHHHHHHHHHHHHHHHhhhcCC
Q 007651          105 YFRQARSIHELAKKNFENLRQDS  127 (594)
Q Consensus       105 i~k~Ak~Le~lfek~~~~L~~d~  127 (594)
                      +|++|..|++.|++.++++..+.
T Consensus        93 i~~~A~~L~~~f~~~~~~~~~~~  115 (123)
T 3q2e_A           93 IYSMTLRLSALFEEKMKKISSDF  115 (123)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999887543

>3iu5_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo0ID, PBRM1, BRG associated factor 180, structural genomics, SGC; 1.63A {Homo sapiens}

Probab=99.92  E-value=4.3e-25  Score=196.95  Aligned_cols=102  Identities=22%  Similarity=0.322  Sum_probs=96.3

Q ss_pred             ccchHHHHHHHHhCC------CCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhh
Q 007651           25 WNWDPQRLYQIKSYC------CSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQY   98 (594)
Q Consensus        25 ~~wc~qIL~kLk~~~------~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~Y   98 (594)
                      +..|.+||..|+++.      .+++|.+||+...+||||++|++||||+||++||+++.|.++++|..||+|||.||+.|
T Consensus         7 ~~~c~~il~~l~~~~d~~g~~~s~~F~~p~~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~y   86 (116)
T 3iu5_A            7 IAVCHELYNTIRDYKDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSY   86 (116)
T ss_dssp             HHHHHHHHHHHHHCBCTTCCBGGGGGSSCCCGGGCHHHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhccCCCeeeHHhcCCCCcccCCCHHHHhCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            456889999999885      49999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCHHHHHHHHHHHHHHHHHHhhhcC
Q 007651           99 NAPDTIYFRQARSIHELAKKNFENLRQD  126 (594)
Q Consensus        99 N~pdS~i~k~Ak~Le~lfek~~~~L~~d  126 (594)
                      |++++.+|++|..|++.|++.++++.+.
T Consensus        87 N~~~s~~~~~A~~L~~~f~~~~~~l~~~  114 (116)
T 3iu5_A           87 YKPDSPEYKAACKLWDLYLRTRNEFVQK  114 (116)
T ss_dssp             SCTTSHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999999998653

>3mb3_A PH-interacting protein; PHIP, pleckstrin homology domain interacting protein, DCAF14 DDB1 and CUL4 associated factor 14, SGC; 2.25A {Homo sapiens}

Probab=99.91  E-value=6.8e-25  Score=200.36  Aligned_cols=101  Identities=27%  Similarity=0.366  Sum_probs=96.5

Q ss_pred             ccchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCC-CC
Q 007651           25 WNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP-DT  103 (594)
Q Consensus        25 ~~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~p-dS  103 (594)
                      ...|..||..|.+++.+++|.+|||+..+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||++ ++
T Consensus        23 ~~~~~~il~~l~~~~~s~~F~~pv~~~~~pdY~~iI~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~yN~~~~s  102 (135)
T 3mb3_A           23 KKQCEELLNLIFQCEDSEPFRQPVDLLEYPDYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSNSKAYTPSKRS  102 (135)
T ss_dssp             HHHHHHHHHHHHHSGGGGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHSCCTTC
T ss_pred             HHHHHHHHHHHHhCCCChhhcCCCChhhCCCHHHHhCCCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHCCCCCC
Confidence            34678999999999999999999999999999999999999999999999999999999999999999999999998 89


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhc
Q 007651          104 IYFRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       104 ~i~k~Ak~Le~lfek~~~~L~~  125 (594)
                      .+|++|..|++.|++.++++..
T Consensus       103 ~i~~~A~~L~~~f~~~~~~~~~  124 (135)
T 3mb3_A          103 RIYSMSLRLSAFFEEHISSVLS  124 (135)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999988754

>3mb4_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo-1D, PBRM1, BRG associated factor 180, structural genomics consortium, SGC; 1.66A {Homo sapiens} PDB: 3g0j_A 2yqd_A

Probab=99.91  E-value=7e-25  Score=197.84  Aligned_cols=99  Identities=22%  Similarity=0.391  Sum_probs=93.3

Q ss_pred             chHHHHHHHHh------CCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcC
Q 007651           27 WDPQRLYQIKS------YCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNA  100 (594)
Q Consensus        27 wc~qIL~kLk~------~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~  100 (594)
                      .|.+||..|++      +..+++|.+||+...+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||+
T Consensus        19 ~~~~il~~l~~~~d~~g~~~s~~F~~pv~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~yN~   98 (124)
T 3mb4_A           19 KLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNE   98 (124)
T ss_dssp             HHHHHHHHHHHCBCTTSCBGGGGGSCCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHhHhcccCCcccHHhhcCCCccccCCHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHCC
Confidence            45688899988      455799999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhhhc
Q 007651          101 PDTIYFRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       101 pdS~i~k~Ak~Le~lfek~~~~L~~  125 (594)
                      +++.+|++|..|++.|++.++++..
T Consensus        99 ~~s~i~~~A~~L~~~f~~~~~~l~~  123 (124)
T 3mb4_A           99 PESLIYKDALVLHKVLLETRRDLEG  123 (124)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999998864

>3p1f_A CREB-binding protein; structural genomics consortium, SGC, CBP, crebbp, CREB bindi protein isoform A, KAT3A, RSTS, RST, bromodomain, transcrip; HET: 3PF; 1.63A {Homo sapiens} SCOP: a.29.2.1 PDB: 3dwy_A 3p1d_A 3p1c_A 3p1e_A* 3svh_A* 4a9k_A* 1jsp_B* 2d82_A* 2l84_A* 2l85_A* 2rny_A* 3i3j_A

Probab=99.91  E-value=1.4e-24  Score=194.17  Aligned_cols=98  Identities=26%  Similarity=0.447  Sum_probs=91.9

Q ss_pred             hHHHHHHHHh-CCCCCCCcCCCCCC--CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCH
Q 007651           28 DPQRLYQIKS-YCCSSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTI  104 (594)
Q Consensus        28 c~qIL~kLk~-~~~A~~F~ePVD~~--e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~  104 (594)
                      |..+|.+|.+ ++.+++|.+|||+.  ++||||++|++||||+||++||+++.|.++++|..||+|||+||+.||++++.
T Consensus        16 l~~~l~~l~~~~~~s~~F~~pv~~~~~~~pdY~~iI~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~yN~~~s~   95 (119)
T 3p1f_A           16 LMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSR   95 (119)
T ss_dssp             HHHHHHHHHTCTTTTGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHSCTTSH
T ss_pred             HHHHHHHHHHhCCCCchhcCCCCchhccCCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCH
Confidence            4577888877 66899999999998  79999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhhc
Q 007651          105 YFRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       105 i~k~Ak~Le~lfek~~~~L~~  125 (594)
                      +|++|..|++.|++.++++.+
T Consensus        96 i~~~A~~L~~~f~~~~~~~~~  116 (119)
T 3p1f_A           96 VYKFCSKLAEVFEQEIDPVMQ  116 (119)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999988753

>3ljw_A Protein polybromo-1; alpha helix, alternative splicing, bromodomain, chromatin RE DNA-binding, nucleus, phosphoprotein, transcription; 1.50A {Homo sapiens} PDB: 2ktb_B* 3hmf_A

Probab=99.91  E-value=1.7e-24  Score=194.40  Aligned_cols=98  Identities=27%  Similarity=0.428  Sum_probs=93.0

Q ss_pred             hHHHHHHHHhCCC------CCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCC
Q 007651           28 DPQRLYQIKSYCC------SSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP  101 (594)
Q Consensus        28 c~qIL~kLk~~~~------A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~p  101 (594)
                      |.++|..|.++..      +++|.+||+...+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||++
T Consensus        13 ~~~ll~~l~~~~d~~g~~~s~~F~~~~~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yN~~   92 (120)
T 3ljw_A           13 LEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEP   92 (120)
T ss_dssp             HHHHHHHHHHCBCTTSCBTTGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHHHHSCT
T ss_pred             HHHHHHHHHhccCcCCCcccHHhcCCCCcccCCChHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHCCC
Confidence            4577888888777      9999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHhhhc
Q 007651          102 DTIYFRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       102 dS~i~k~Ak~Le~lfek~~~~L~~  125 (594)
                      ++.+|++|..|++.|++.++++..
T Consensus        93 ~s~~~~~A~~L~~~f~~~~~~i~~  116 (120)
T 3ljw_A           93 GSQVFKDANSIKKIFYMKKAEIEH  116 (120)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHhhh
Confidence            999999999999999999998864

>3k2j_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo01D, PBRM1, BRG associated factor 180, structural genomics consortium, SGC; 2.20A {Homo sapiens}

Probab=99.91  E-value=1.8e-24  Score=197.47  Aligned_cols=100  Identities=23%  Similarity=0.428  Sum_probs=93.0

Q ss_pred             hHHHHHHHHhCCC------CCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCC
Q 007651           28 DPQRLYQIKSYCC------SSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAP  101 (594)
Q Consensus        28 c~qIL~kLk~~~~------A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~p  101 (594)
                      |.+++..|.+..+      +++|.+||+...+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||++
T Consensus        22 ~~~l~~~l~~~~d~~g~~~s~~F~~pv~~~~~PdY~~iIk~PMdL~tI~~kL~~~~Y~s~~ef~~Dv~Lif~Na~~yN~~  101 (130)
T 3k2j_A           22 SMQLYDTVRSCRNNQGQLIAEPFYHLPSKKKYPDYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVP  101 (130)
T ss_dssp             HHHHHHHHHTCBCSSSCBTTGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHSCT
T ss_pred             HHHHHHHHHHHhcccCCCccHhhcCCCChhhCccHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCC
Confidence            3466777776654      9999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHhhhcCC
Q 007651          102 DTIYFRQARSIHELAKKNFENLRQDS  127 (594)
Q Consensus       102 dS~i~k~Ak~Le~lfek~~~~L~~d~  127 (594)
                      ++.+|++|..|++.|++.++++....
T Consensus       102 ~s~i~~~A~~L~~~f~~~~~~l~~~~  127 (130)
T 3k2j_A          102 NSAIYKRVLKLQQVMQAKKKELARRD  127 (130)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            99999999999999999999987654

>3mqm_A Probable histone-lysine N-methyltransferase ASH1L; KIAA1420, absent small and homeotic disks prote homolog, lysine N-methyltransferase 2H, KMT2H; 2.54A {Homo sapiens}

Probab=99.90  E-value=3.6e-24  Score=193.46  Aligned_cols=99  Identities=20%  Similarity=0.231  Sum_probs=92.4

Q ss_pred             chHHHHHHHHhCCC------CCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcC
Q 007651           27 WDPQRLYQIKSYCC------SSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNA  100 (594)
Q Consensus        27 wc~qIL~kLk~~~~------A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~  100 (594)
                      .|..|+..|+++.+      +++|.+||+...+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||+
T Consensus        13 ~~~~i~~~l~~~~d~~g~~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yN~   92 (126)
T 3mqm_A           13 IFKEICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTGYYKTVEAFDADMLKVFRNAEKYYG   92 (126)
T ss_dssp             HHHHHHHHHHHCBCTTCCBTTGGGSSCCCGGGCTTHHHHCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhCcCCCChhHHhcCCCCcccCCCHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHCC
Confidence            35577888887754      999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhhhc
Q 007651          101 PDTIYFRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       101 pdS~i~k~Ak~Le~lfek~~~~L~~  125 (594)
                      +++.+|++|..|++.|++.++++..
T Consensus        93 ~~s~~~~~A~~L~~~f~~~~~~~~~  117 (126)
T 3mqm_A           93 RKSPVGRDVCRLRKAYYNARHEASA  117 (126)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999987653

>3fkm_X Signaling protein; bromodomain, malaria, structural genomics, structural genomi consortium, SGC; 2.50A {Plasmodium falciparum 3D7}

Probab=99.90  E-value=4e-24  Score=202.38  Aligned_cols=99  Identities=26%  Similarity=0.444  Sum_probs=92.2

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCC--CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCC
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDT  103 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~--e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS  103 (594)
                      ..|..||..|++++.+++|.+|||+.  .+||||+||++||||+||++||+++.|.++++|..||+|||.||++||++++
T Consensus        24 ~~~~~il~~L~~~~~s~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~Dv~Lif~Na~~yN~~~s  103 (166)
T 3fkm_X           24 LLANQLILSLSKYEGGHIFEKLVDAKKQNCPDYYDVIKNPMSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNS  103 (166)
T ss_dssp             HHHHHHHHHHTTSTTGGGGSSCCC-----CCCGGGCCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHHHSSCTTS
T ss_pred             HHHHHHHHHHHhCCCChhhcCCCChhhccCCCHHHhcCCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Confidence            34678999999999999999999986  6999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhh
Q 007651          104 IYFRQARSIHELAKKNFENLR  124 (594)
Q Consensus       104 ~i~k~Ak~Le~lfek~~~~L~  124 (594)
                      .|+++|+.|++.|++.|.++.
T Consensus       104 ~i~~~A~~L~~~f~~~l~~~~  124 (166)
T 3fkm_X          104 VVAITGKNIETYFNNQLIVMG  124 (166)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHcc
Confidence            999999999999999998764

>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger, alpha-helical bundle, dimethyl-lysine, bromodom chromatin regulator, metal-binding, nucleus; HET: MLY; 1.45A {Homo sapiens} PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A* 3uv2_A* 3qzt_A* 3qzs_A* 2fui_A 2fuu_A*

Probab=99.90  E-value=5e-24  Score=200.90  Aligned_cols=99  Identities=22%  Similarity=0.399  Sum_probs=95.1

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHH
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY  105 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i  105 (594)
                      ..+..||..|.+++.+++|.+|||+..+|+|+++|++||||+||++||+++.|.++++|.+||+|||+||++||++++.+
T Consensus        75 ~~l~~il~~l~~~~~~~~F~~pv~~~~~pdY~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yN~~~s~~  154 (174)
T 2ri7_A           75 EGLKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPF  154 (174)
T ss_dssp             HHHHHHHHHHHTSGGGTTTSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTCCCBHHHHHHHHHHHHHHHHHHSCTTSHH
T ss_pred             HHHHHHHHHHHhhhhhhhhhcCCCcccCCchHHHhCCcCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence            35668999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhh
Q 007651          106 FRQARSIHELAKKNFENLR  124 (594)
Q Consensus       106 ~k~Ak~Le~lfek~~~~L~  124 (594)
                      |++|+.|++.|++.+++++
T Consensus       155 ~~~A~~L~~~f~~~~~~~~  173 (174)
T 2ri7_A          155 YQCAEVLESFFVQKLKGFK  173 (174)
T ss_dssp             HHHHHHHHHHHHHHTTTCC
T ss_pred             HHHHHHHHHHHHHHHHhcc
Confidence            9999999999999998775

>3uv4_A Second bromodomain of human transcription initiat TFIID subunit 1 (TAF1); structural genomics consortium, SGC; 1.89A {Homo sapiens} PDB: 3hmh_A

Probab=99.90  E-value=1.1e-23  Score=198.16  Aligned_cols=94  Identities=27%  Similarity=0.486  Sum_probs=89.3

Q ss_pred             HHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHH
Q 007651           34 QIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH  113 (594)
Q Consensus        34 kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~Le  113 (594)
                      +|+.++.+++|.+|||+..+||||+||++||||+||++||+++.|.++++|..||+|||.||++||++++.+|++|..|+
T Consensus        41 kl~~~~~s~~F~~PVd~~~~PdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~~Dv~Lif~Na~~yN~~~s~i~~~A~~L~  120 (158)
T 3uv4_A           41 KMMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIV  120 (158)
T ss_dssp             TTTTSTTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHcCCCchhhcCcCChhhcccHHHHcCCccCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence            36778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhcCC
Q 007651          114 ELAKKNFENLRQDS  127 (594)
Q Consensus       114 ~lfek~~~~L~~d~  127 (594)
                      +.|++.++++....
T Consensus       121 ~~~~~~l~e~~~~l  134 (158)
T 3uv4_A          121 NVCYQTLTEYDEHL  134 (158)
T ss_dssp             HHHHHHHHHTHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999998876543

>3tlp_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo-1D, PBRM1, BRG associated factor 180, structural genomics consortium, SGC; 2.13A {Homo sapiens}

Probab=99.89  E-value=1.8e-23  Score=194.11  Aligned_cols=103  Identities=23%  Similarity=0.321  Sum_probs=93.2

Q ss_pred             chHHHHHHHHhCCC-------CCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhc
Q 007651           27 WDPQRLYQIKSYCC-------SSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYN   99 (594)
Q Consensus        27 wc~qIL~kLk~~~~-------A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN   99 (594)
                      .|..+|..|.++..       +.+|..||+...+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||
T Consensus        28 ~~k~ll~~l~~~~~~~~~~~~~~~F~~~~~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN  107 (150)
T 3tlp_A           28 RMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDYPDYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYN  107 (150)
T ss_dssp             HHHHHHHHHHHCBCTTTCCBGGGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHhcccCCcccHHhcCCCchhhCcCHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            45577777776654       89999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhhhcCCCC
Q 007651          100 APDTIYFRQARSIHELAKKNFENLRQDSDD  129 (594)
Q Consensus       100 ~pdS~i~k~Ak~Le~lfek~~~~L~~d~e~  129 (594)
                      ++++.+|++|..|++.|++.++++....++
T Consensus       108 ~~~s~i~~~A~~L~~~f~~~~~~l~~~pd~  137 (150)
T 3tlp_A          108 EEGSQVYNDAHILEKLLKEKRKELGPLPDD  137 (150)
T ss_dssp             CTTSHHHHHHHHHHHHHHHHHHHHCCC---
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHccCCCCh
Confidence            999999999999999999999998755443

>3dai_A ATPase family AAA domain-containing protein 2; ancca, AAA+ nuclear coregulator cancer-associated Pro2000 protein, two AAA DOMA containing protein; 1.95A {Homo sapiens} PDB: 3lxj_A

Probab=99.89  E-value=7.7e-23  Score=186.06  Aligned_cols=94  Identities=28%  Similarity=0.409  Sum_probs=88.3

Q ss_pred             hHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHH--
Q 007651           28 DPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY--  105 (594)
Q Consensus        28 c~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i--  105 (594)
                      |..+|..|..++.+++|.+|||+..+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||++++.+  
T Consensus        15 l~~il~~l~~~~~~~~F~~pv~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~yN~~~s~~~~   94 (130)
T 3dai_A           15 LRNVTHRLAIDKRFRVFTKPVDPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYNPDRDPGDR   94 (130)
T ss_dssp             HHHHHHHHHTSGGGGGGSSCCCTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHCCSSSHHHH
T ss_pred             HHHHHHHHHcCCccHhhcCCCChhhcCCHHHHcCCCCCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHCCCCChhHH
Confidence            456789999999999999999999999999999999999999999999999999999999999999999999998865  


Q ss_pred             --HHHHHHHHHHHHHHHH
Q 007651          106 --FRQARSIHELAKKNFE  121 (594)
Q Consensus       106 --~k~Ak~Le~lfek~~~  121 (594)
                        +..|..|++.+...++
T Consensus        95 ~i~~~A~~L~~~~~~~i~  112 (130)
T 3dai_A           95 LIRHRACALRDTAYAIIK  112 (130)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence              7888999999888885

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=99.88  E-value=1.2e-22  Score=193.74  Aligned_cols=97  Identities=24%  Similarity=0.378  Sum_probs=92.3

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhC--CCCCCHHHHHHHHHHHHHHhhhhcCCCC
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLAN--GAYATLEQFEKDVFLICSNAMQYNAPDT  103 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~--g~Y~SieEF~~DVrLIf~NA~~YN~pdS  103 (594)
                      ..|..||..|.+++.+++|.+||+.. +|+||+||++||||+||++||++  +.|.++++|.+||+|||.||++||++++
T Consensus        84 ~~c~~il~~l~~~~~s~~F~~Pv~~~-~pdY~~iIk~PmdL~tI~~kl~~~~~~Y~s~~ef~~Dv~li~~Na~~yN~~~s  162 (184)
T 3o36_A           84 RKCERLLLFLYCHEMSLAFQDPVPLT-VPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDS  162 (184)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHSCCCTT-STTHHHHCSSCCCHHHHHHHHHSTTCSCCSHHHHHHHHHHHHHHHHHHSCTTC
T ss_pred             HHHHHHHHHHHhchhhhhhccccccC-CCchhhhcCCCCCHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Confidence            34678999999999999999999964 89999999999999999999998  7999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhh
Q 007651          104 IYFRQARSIHELAKKNFENL  123 (594)
Q Consensus       104 ~i~k~Ak~Le~lfek~~~~L  123 (594)
                      .++++|+.|++.|++.++++
T Consensus       163 ~v~~~a~~L~~~f~~~~~~~  182 (184)
T 3o36_A          163 EVANAGIKLENYFEELLKNL  182 (184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999876

>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.86  E-value=3.7e-22  Score=182.61  Aligned_cols=93  Identities=29%  Similarity=0.401  Sum_probs=85.6

Q ss_pred             chHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCH--
Q 007651           27 WDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTI--  104 (594)
Q Consensus        27 wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~--  104 (594)
                      +|..||..|..++.+++|.+|     +||||+||++||||+||++||+++.|.++++|..||+|||.||+.||++++.  
T Consensus        16 ~~~~il~~l~~~~~~~~F~~P-----~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~~f~~D~~Li~~Na~~yN~~~s~~~   90 (131)
T 2dkw_A           16 FLRDVTKRLATDKRFNIFSKP-----VSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGD   90 (131)
T ss_dssp             HHHHHHHHHHHSGGGCTTSSC-----CSSCTTSCSSCCCHHHHHHHHHTTCCCSSHHHHHHHHHHHHHHHHSCCCSSTTH
T ss_pred             HHHHHHHHHHhCccchhhcCc-----CccHHhHcCCCcCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHCCCCChhH
Confidence            466788999999999999998     8999999999999999999999999999999999999999999999999984  


Q ss_pred             --HHHHHHHHHHHHHHHHH-hhh
Q 007651          105 --YFRQARSIHELAKKNFE-NLR  124 (594)
Q Consensus       105 --i~k~Ak~Le~lfek~~~-~L~  124 (594)
                        ++.+|..|++.|...+. ++.
T Consensus        91 ~~i~~~A~~L~~~~~~~l~~~l~  113 (131)
T 2dkw_A           91 KIIRHRACTLKDTAHAIIAAELD  113 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence              67899999999988884 443

>3uv5_A Transcription initiation factor TFIID subunit 1; tandem bromodomain, TAF1, cell cycle gene 1 protein, TBP-ASS factor 250 kDa; 2.03A {Homo sapiens} PDB: 1eqf_A

Probab=99.86  E-value=9.1e-22  Score=197.88  Aligned_cols=99  Identities=19%  Similarity=0.380  Sum_probs=95.2

Q ss_pred             chHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHH
Q 007651           27 WDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF  106 (594)
Q Consensus        27 wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~  106 (594)
                      .|..||..|++++.+++|.+||++..+||||++|++||||+||++||+++.|.++++|..||+|||+||+.||++++.++
T Consensus        18 ~l~~il~~l~~~~~~~~F~~pv~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~yN~~~s~i~   97 (265)
T 3uv5_A           18 ILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLT   97 (265)
T ss_dssp             HHHHHHHHHHTSTTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHHcCCCchhhhCCCChhhcCCHHHHhCCCCcHHHHHHHHHcCCCCCHHHHHHHHHHHHhhhhhcCCCCChHH
Confidence            46789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhc
Q 007651          107 RQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       107 k~Ak~Le~lfek~~~~L~~  125 (594)
                      ++|+.|++.|++.++++..
T Consensus        98 ~~A~~l~~~~~~~~~~~~~  116 (265)
T 3uv5_A           98 QISQSMLDLCDEKLKEKED  116 (265)
T ss_dssp             HHHHHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence            9999999999999987753

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=99.85  E-value=5.3e-22  Score=191.32  Aligned_cols=97  Identities=10%  Similarity=0.116  Sum_probs=91.1

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccC--CccCHHHHHHHHhCC---CCCCHHHHHHHHHHHHHHhhhhcC
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIE--HPMDFGTVRNKLANG---AYATLEQFEKDVFLICSNAMQYNA  100 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK--~PMDLsTIkkKL~~g---~Y~SieEF~~DVrLIf~NA~~YN~  100 (594)
                      .+|..||.+|+.++.+++|.+||+    |+||+||+  +||||+||++||+++   .|.++++|++||+|||+||++|| 
T Consensus        79 ~~c~~iL~~l~~~~~s~pF~~pV~----~~Yy~iIk~~~PMDL~tIk~kL~~~~~~~Y~s~~eF~~Dv~Lif~N~~~yN-  153 (189)
T 2ro1_A           79 RKCERVLLALFCHEPCRPLHQLAT----DSTFSLDQPGGTLDLTLIRARLQEKLSPPYSSPQEFAQDVGRMFKQFNKLT-  153 (189)
T ss_dssp             HHHHHHHHHHHHSTTHHHHHSCSC----CTTCSSSCSSCCCCHHHHHHHHHTSSSSCCSCHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHhhcccCccchhhcCCCC----hhhhccccCCCcccHHHHHHHHhcCCCcccCCHHHHHHHHHHHHHHHHHHC-
Confidence            467899999999999999999998    68999998  899999999999999   99999999999999999999999 


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhhhcCC
Q 007651          101 PDTIYFRQARSIHELAKKNFENLRQDS  127 (594)
Q Consensus       101 pdS~i~k~Ak~Le~lfek~~~~L~~d~  127 (594)
                      +++.++++|+.|++.|++.|+++..+.
T Consensus       154 ~~s~~~~~a~~L~~~Fe~~~~~~~~~~  180 (189)
T 2ro1_A          154 EDKADVQSIIGLQRFFETRMNEAFGDT  180 (189)
T ss_dssp             CSSCSSHHHHHHHHHHHHHHHHHTTTS
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHhcCcc
Confidence            588889999999999999999997654

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=99.85  E-value=1.2e-21  Score=190.37  Aligned_cols=101  Identities=22%  Similarity=0.339  Sum_probs=95.4

Q ss_pred             ccchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhC---CCCCCHHHHHHHHHHHHHHhhhhcC-
Q 007651           25 WNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLAN---GAYATLEQFEKDVFLICSNAMQYNA-  100 (594)
Q Consensus        25 ~~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~---g~Y~SieEF~~DVrLIf~NA~~YN~-  100 (594)
                      ...|.+||..|.+++.+++|.+||+. .+|+||+||++||||+||++||++   +.|.++++|..||+|||+||++||. 
T Consensus        83 ~~~c~~il~~l~~~~~s~~F~~Pv~~-~~pdY~~iIk~PmdL~tI~~kl~~~~~~~Y~s~~~f~~Dv~li~~Na~~yN~~  161 (207)
T 3u5n_A           83 QRKCERLLLYLYCHELSIEFQEPVPA-SIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKNCERFNEM  161 (207)
T ss_dssp             HHHHHHHHHHHHTSTTCGGGSSCCCT-TSTTHHHHCSSCCCHHHHHHHHSTTSTTCCSSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccchhhhhccCCh-hhccHhHHhCCccCHHHHHHHHhcccCCCcCCHHHHHHHHHHHHHHHHHHCCC
Confidence            34577999999999999999999987 799999999999999999999997   7999999999999999999999999 


Q ss_pred             ----------------CCCHHHHHHHHHHHHHHHHHHhhhcC
Q 007651          101 ----------------PDTIYFRQARSIHELAKKNFENLRQD  126 (594)
Q Consensus       101 ----------------pdS~i~k~Ak~Le~lfek~~~~L~~d  126 (594)
                                      +++.++++|++|+..|++.++++..+
T Consensus       162 ~s~v~~~A~~l~~~~~~~s~i~~~a~~L~~~fe~~~~~~~p~  203 (207)
T 3u5n_A          162 MKVVQVYADTQEINLKADSEVAQAGKAVALYFEDKLTEIYSD  203 (207)
T ss_dssp             HHHHC----------CCCCHHHHHHHHHHHHHHHHHHHHSTT
T ss_pred             cchHHHHHHHHHhcccccCHHHHHHHHHHHHHHHHHHHhCCC
Confidence                            99999999999999999999998654

>3uv5_A Transcription initiation factor TFIID subunit 1; tandem bromodomain, TAF1, cell cycle gene 1 protein, TBP-ASS factor 250 kDa; 2.03A {Homo sapiens} PDB: 1eqf_A

Probab=99.84  E-value=2.6e-21  Score=194.55  Aligned_cols=93  Identities=27%  Similarity=0.498  Sum_probs=88.9

Q ss_pred             HHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHH
Q 007651           34 QIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH  113 (594)
Q Consensus        34 kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~Le  113 (594)
                      +++.++.+++|.+|||...+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||++++.+|++|..|+
T Consensus       148 ~l~~~~~~~~F~~pv~~~~~pdY~~iIk~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~lif~Na~~yN~~~s~~~~~A~~l~  227 (265)
T 3uv5_A          148 KMMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIV  227 (265)
T ss_dssp             TTTTSTTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             HHHhhhhhHHHhCCCChhHhCcHHHHhCCcccHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence            46778899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhcC
Q 007651          114 ELAKKNFENLRQD  126 (594)
Q Consensus       114 ~lfek~~~~L~~d  126 (594)
                      ..|++.++++.+.
T Consensus       228 ~~~~~~~~~~~~~  240 (265)
T 3uv5_A          228 NVCYQTLTEYDEH  240 (265)
T ss_dssp             HHHHHHHHHTHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999887644

>3aad_A Transcription initiation factor TFIID subunit 1; protein-protein complex, bromodomain, transcription, transcr regulation, chromatin regulator, transcription-C complex; 3.30A {Homo sapiens}

Probab=99.83  E-value=2.2e-21  Score=197.93  Aligned_cols=99  Identities=19%  Similarity=0.380  Sum_probs=94.3

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHH
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY  105 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i  105 (594)
                      ..|..||.+|++++.+++|.+|||+..+||||+||++||||+||++||+++.|.++++|..||+|||+||+.||++++.+
T Consensus        50 ~~~~~il~~l~~~~~a~~F~~pV~~~~~pdY~~iIk~PmDL~tIk~kl~~~~Y~s~~~f~~D~~li~~Na~~yN~~~s~i  129 (292)
T 3aad_A           50 SILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSL  129 (292)
T ss_dssp             HHHHHHHHHHSSSTTCGGGSSSCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHTCSSSHH
T ss_pred             HHHHHHHHHHHhCCcchhhcCCCCchhcccHHHHcCCcCCHHHHHHHhhCCCcCCHHHHHHHHHHHHHHHHHHcCCchHH
Confidence            35779999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhh
Q 007651          106 FRQARSIHELAKKNFENLR  124 (594)
Q Consensus       106 ~k~Ak~Le~lfek~~~~L~  124 (594)
                      +++|..|++.|++.++++.
T Consensus       130 ~~~A~~L~~~~~~~~~~~~  148 (292)
T 3aad_A          130 TQISQSMLDLCDEKLKEKE  148 (292)
T ss_dssp             HHHHTHHHHTTTTTGGGSH
T ss_pred             HHHHHHHHHHHHhhhhcch
Confidence            9999999999988887653

>3aad_A Transcription initiation factor TFIID subunit 1; protein-protein complex, bromodomain, transcription, transcr regulation, chromatin regulator, transcription-C complex; 3.30A {Homo sapiens}

Probab=99.83  E-value=7.8e-21  Score=193.91  Aligned_cols=92  Identities=27%  Similarity=0.502  Sum_probs=88.5

Q ss_pred             HHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHH
Q 007651           34 QIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIH  113 (594)
Q Consensus        34 kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~Le  113 (594)
                      +|++++.+++|.+|||...+||||++|++||||+||++||+++.|.++++|..||+|||.||+.||++++.+|++|..|+
T Consensus       181 ~l~~~~~s~~F~~pvd~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~Li~~Na~~yN~~~s~i~~~A~~L~  260 (292)
T 3aad_A          181 KMMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIV  260 (292)
T ss_dssp             TGGGSTTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHHCTTSHHHHHHHHHH
T ss_pred             hhhcCcchhHHHhcccccccccHHHHcCCcCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence            47788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhc
Q 007651          114 ELAKKNFENLRQ  125 (594)
Q Consensus       114 ~lfek~~~~L~~  125 (594)
                      +.|++.++++..
T Consensus       261 ~~~~~~~~~~~~  272 (292)
T 3aad_A          261 NVCYQTLTEYDE  272 (292)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988764

>2r0y_A Chromatin structure-remodeling complex protein RSC4; bromodomain, chromatin, remodeler, RSC, acetylation, transcription, chromatin regulator, nucleus, phosphorylation; HET: ALY; 1.75A {Saccharomyces cerevisiae} PDB: 2r0s_A

Probab=99.82  E-value=1.5e-20  Score=193.72  Aligned_cols=86  Identities=24%  Similarity=0.469  Sum_probs=83.3

Q ss_pred             CCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHH
Q 007651           38 YCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAK  117 (594)
Q Consensus        38 ~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~Le~lfe  117 (594)
                      +..+++|++|||+..+||||+||++||||+||++||+++.|.++++|.+||+|||.||++||.+++.+|++|..|++.|+
T Consensus       178 ~~~s~~F~~pvd~~~~PdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~~Dv~Lif~N~~~yN~~~s~i~~~A~~L~~~f~  257 (311)
T 2r0y_A          178 VKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFN  257 (311)
T ss_dssp             SCTTGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHHTCCCBHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHH
T ss_pred             CccHHHHhCCCChhhcccHHHHhCCccCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHH
Confidence            56799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhh
Q 007651          118 KNFENL  123 (594)
Q Consensus       118 k~~~~L  123 (594)
                      +.+++.
T Consensus       258 ~~~~~~  263 (311)
T 2r0y_A          258 YLIQKE  263 (311)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            999873

>2r10_A Chromatin structure-remodeling complex protein RSC4, linker, histone H3; bromodomain, remodeler, acetylation, transcription; HET: ALY; 2.20A {Saccharomyces cerevisiae} PDB: 2r0v_A*

Probab=99.81  E-value=2.2e-20  Score=195.67  Aligned_cols=86  Identities=24%  Similarity=0.469  Sum_probs=83.4

Q ss_pred             CCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHH
Q 007651           38 YCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAK  117 (594)
Q Consensus        38 ~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~Le~lfe  117 (594)
                      +..+++|++|||...+||||+||++||||+||++||+++.|.++++|+.||+|||.||+.||.+++.||++|..|++.|+
T Consensus       228 ~~~s~~F~~pvd~~~~PdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lif~N~~~yN~~~s~i~~~A~~L~~~f~  307 (361)
T 2r10_A          228 VKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFN  307 (361)
T ss_dssp             SCTTGGGSSCCCTTTCTHHHHHCSSCCCHHHHHHHHHHTCCCBHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHH
T ss_pred             CcchhcccCCCChhhcccHHHHhcCcccHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence            56899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhh
Q 007651          118 KNFENL  123 (594)
Q Consensus       118 k~~~~L  123 (594)
                      +.+++.
T Consensus       308 ~~~~~~  313 (361)
T 2r10_A          308 YLIQKE  313 (361)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            999873

>2r10_A Chromatin structure-remodeling complex protein RSC4, linker, histone H3; bromodomain, remodeler, acetylation, transcription; HET: ALY; 2.20A {Saccharomyces cerevisiae} PDB: 2r0v_A*

Probab=99.75  E-value=6.7e-19  Score=184.49  Aligned_cols=97  Identities=16%  Similarity=0.172  Sum_probs=86.3

Q ss_pred             cchHHHHHHHHhC--CCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCC-CHHHHHHHHHHHHHHhhhhcCCC
Q 007651           26 NWDPQRLYQIKSY--CCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYA-TLEQFEKDVFLICSNAMQYNAPD  102 (594)
Q Consensus        26 ~wc~qIL~kLk~~--~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~-SieEF~~DVrLIf~NA~~YN~pd  102 (594)
                      .+|..+|..+.+.  ..+++|++||+...+||||+||++||||+||++||  +.|. ++++|+.||+|||+||+.||.++
T Consensus        81 ~~~~~~l~~l~~~~~~~~~~F~~p~~~~~~PdY~~iIk~Pmdl~tI~~kl--~~y~~~~~~f~~D~~li~~Na~~yN~~~  158 (361)
T 2r10_A           81 RFISFTLDVLIDKYKDIFKDFIKLPSRKFHPQYYYKIQQPMSINEIKSRD--YEYEDGPSNFLLDVELLTKNCQAYNEYD  158 (361)
T ss_dssp             HHHHHHHHHHHHHTHHHHGGGSSCCCTTTCTTHHHHCSSCCCHHHHHTSC--CCSTTHHHHHHHHHHHHHHHHHHHBCSS
T ss_pred             HHHHHHHHHHHHcCCcccHHhcCCCCcccCCChHhhcCCCcCHHHHHHHh--hccCCCHHHHHHHHHHHHHHHhhcCCCC
Confidence            4566777777543  34799999999999999999999999999999998  4555 89999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHhhh
Q 007651          103 TIYFRQARSIHELAKKNFENLR  124 (594)
Q Consensus       103 S~i~k~Ak~Le~lfek~~~~L~  124 (594)
                      +.||++|..|+++|++.|.+.+
T Consensus       159 s~i~~~a~~l~~~~~~~~~k~k  180 (361)
T 2r10_A          159 SLIVKNSMQVVMLIEFEVLKAK  180 (361)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhhcc
Confidence            9999999999999999888653

>2r0y_A Chromatin structure-remodeling complex protein RSC4; bromodomain, chromatin, remodeler, RSC, acetylation, transcription, chromatin regulator, nucleus, phosphorylation; HET: ALY; 1.75A {Saccharomyces cerevisiae} PDB: 2r0s_A

Probab=99.74  E-value=1.2e-18  Score=179.53  Aligned_cols=93  Identities=17%  Similarity=0.178  Sum_probs=82.5

Q ss_pred             HHHHHHHhC--CCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCC-CHHHHHHHHHHHHHHhhhhcCCCCHHH
Q 007651           30 QRLYQIKSY--CCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYA-TLEQFEKDVFLICSNAMQYNAPDTIYF  106 (594)
Q Consensus        30 qIL~kLk~~--~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~-SieEF~~DVrLIf~NA~~YN~pdS~i~  106 (594)
                      .+|+.+.+.  ..+++|++||+...+||||+||++||||+||++||  ..|. ++++|..||+|||+||++||.+++.||
T Consensus        35 ~~L~~~~~~~r~~~~~F~~p~~~~~~PdY~~iIk~PmDL~tI~~kl--~~y~~s~~~f~~D~~li~~Na~~yN~~~s~i~  112 (311)
T 2r0y_A           35 FTLDVLIDKYKDIFKDFIKLPSRKFHPQYYYKIQQPMSINEIKSRD--YEYEDGPSNFLLDVELLTKNCQAYNEYDSLIV  112 (311)
T ss_dssp             HHHHHHHHHSHHHHGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHSC--CCSTTHHHHHHHHHHHHHHHHHHHSCTTSHHH
T ss_pred             HHHHHHHHcCCchhHHhcCCCCcccCCChHHHcCCCCCHHHHHHHH--hcccCCHHHHHHHHHHHHHHHHHccCCCCHHH
Confidence            445544442  35899999999999999999999999999999998  5555 899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhh
Q 007651          107 RQARSIHELAKKNFENLR  124 (594)
Q Consensus       107 k~Ak~Le~lfek~~~~L~  124 (594)
                      ++|+.|+++|++.|.+.+
T Consensus       113 ~~A~~l~~~~~~~~~k~k  130 (311)
T 2r0y_A          113 KNSMQVVMLIEFEVLKAK  130 (311)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhcc
Confidence            999999999999988763

>3iu6_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo0ID, PBRM1, BRG associated factor 180, structural genomics, SGC; HET: OCS; 1.79A {Homo sapiens}

Probab=99.64  E-value=7.5e-16  Score=143.89  Aligned_cols=95  Identities=19%  Similarity=0.345  Sum_probs=85.1

Q ss_pred             HHHHHHHhCCC------CCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCC
Q 007651           30 QRLYQIKSYCC------SSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDT  103 (594)
Q Consensus        30 qIL~kLk~~~~------A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS  103 (594)
                      .++..+.++.+      +.+|++.++..  |+||.  ++||+|.+|++||+++.|+++++|..||.|||.||++||.++|
T Consensus        14 ~l~~~v~~~~De~GR~lsd~F~~LPsk~--pdYY~--k~Pi~l~~Ikkri~~~~Y~sld~f~~D~~lmf~NAr~yN~e~S   89 (147)
T 3iu6_A           14 NLFVSVMSHQDDEGRCYSDSLAEIPAVD--PNFPN--KPPLTFDIIRKNVENNRYRRLDLFQEHMFEVLERARRMNRTDS   89 (147)
T ss_dssp             HHHHHHHTCBCTTSCBGGGGGTTCCSSC--TTSTT--SCCCCHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHHSCTTS
T ss_pred             HHHHHHHhhcCCCCCcchHHHhHCCCCC--ccccC--CCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCCCC
Confidence            44566666543      78899998877  89998  9999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhcCCC
Q 007651          104 IYFRQARSIHELAKKNFENLRQDSD  128 (594)
Q Consensus       104 ~i~k~Ak~Le~lfek~~~~L~~d~e  128 (594)
                      .||.+|..|+..|.+.+.++-.+.+
T Consensus        90 ~IyeDAv~Lq~~f~~~r~eL~~~g~  114 (147)
T 3iu6_A           90 EIYEDAVELQQFFIKIRDELCKNGE  114 (147)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhCCC
Confidence            9999999999999999999876543

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=99.38  E-value=4.3e-13  Score=129.30  Aligned_cols=88  Identities=16%  Similarity=0.217  Sum_probs=78.9

Q ss_pred             HHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHH
Q 007651           29 PQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQ  108 (594)
Q Consensus        29 ~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~  108 (594)
                      .+||..|..++.+++|++.           .++.||||.||++||+.+.|.++++|..||.|||+||..||.+++++.++
T Consensus        81 ~~vl~~L~~~~~s~~~~~y-----------~~k~PmDL~~i~kKl~~~~Y~s~~eF~~Dv~lIf~n~~~~~~~~~e~~~a  149 (183)
T 3lqh_A           81 KQVLTALLNSRTTSHLLRY-----------RQQQPLDLEGVKRKMDQGNYTSVLEFSDDIVKIIQAAINSDGGQPEIKKA  149 (183)
T ss_dssp             HHHHHHHHTCHHHHHHHTC-----------CC--CCSHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHhccccHhhhhh-----------hhcCCccHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhccCCChhhhhh
Confidence            3788899999999999873           25999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhcCC
Q 007651          109 ARSIHELAKKNFENLRQDS  127 (594)
Q Consensus       109 Ak~Le~lfek~~~~L~~d~  127 (594)
                      +..|+.+|++.++++-.-.
T Consensus       150 g~~l~~~f~~~l~~vfpwf  168 (183)
T 3lqh_A          150 NSMVKSFFIRQMERVFPWF  168 (183)
T ss_dssp             HHHHHHHHHHHHHHHCTTS
T ss_pred             hhHHHHHHHHHHHHHCCCC
Confidence            9999999999999886543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	594
d1eqfa2	128	a.29.2.1 (A:1498-1625) TAFII250 double bromodomain	1e-22
d3dwya1	114	a.29.2.1 (A:1084-1197) CREB-binding protein, CBP {	1e-22
d1eqfa1	139	a.29.2.1 (A:1359-1497) TAFII250 double bromodomain	2e-21
d3d7ca1	102	a.29.2.1 (A:731-832) GCN5 {Human (Homo sapiens) [T	2e-21
d1wuma1	118	a.29.2.1 (A:715-832) P300/CAF histone acetyltransf	2e-20
d1e6ia_	111	a.29.2.1 (A:) GCN5 {Baker's yeast (Saccharomyces c	4e-20

>d1eqfa2 a.29.2.1 (A:1498-1625) TAFII250 double bromodomain module {Human (Homo sapiens) [TaxId: 9606]} Length = 128

class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: TAFII250 double bromodomain module
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 91.6 bits (227), Expect = 1e-22
 Identities = 28/118 (23%), Positives = 55/118 (46%)

Query: 21  KGLSWNWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYAT 80
              S+  D     ++ +   S      ++ + +PDY +VI +PMD  T+R  ++   Y +
Sbjct: 8   VAFSFILDNIVTQKMMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQS 67

Query: 81  LEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPETKVVR 138
            E F  DV LI +N+++YN P++ Y + A+ I  +  +      +     E +    +
Sbjct: 68  RESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTAK 125

>d3dwya1 a.29.2.1 (A:1084-1197) CREB-binding protein, CBP {Human (Homo sapiens) [TaxId: 9606]} Length = 114

class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: CREB-binding protein, CBP
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 90.8 bits (225), Expect = 1e-22
 Identities = 27/111 (24%), Positives = 53/111 (47%), Gaps = 11/111 (9%)

Query: 27  WDPQRLYQ---------IKSYCCSSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLAN 75
           + P+ L Q          +    S      +DP+   +PDY +++++PMD  T++ KL  
Sbjct: 2   FKPEELRQALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDT 61

Query: 76  GAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQD 126
           G Y    Q+  DV+L+ +NA  YN   +  ++    + E+ ++  + + Q 
Sbjct: 62  GQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQS 112

>d1eqfa1 a.29.2.1 (A:1359-1497) TAFII250 double bromodomain module {Human (Homo sapiens) [TaxId: 9606]} Length = 139

class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: TAFII250 double bromodomain module
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 88.5 bits (219), Expect = 2e-21
 Identities = 20/102 (19%), Positives = 44/102 (43%)

Query: 32  LYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLI 91
           +  ++    +      ++ + + DY ++I  PMD  T+R  +    Y + E+F + + LI
Sbjct: 35  INDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELI 94

Query: 92  CSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPE 133
             N+  YN P     + ++S+ +L  +  +         E  
Sbjct: 95  VKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDKLARLEKA 136

>d3d7ca1 a.29.2.1 (A:731-832) GCN5 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: GCN5
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 87.0 bits (215), Expect = 2e-21
 Identities = 30/95 (31%), Positives = 48/95 (50%), Gaps = 4/95 (4%)

Query: 32  LYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLI 91
           L QIKS+  +      +   E PDY EVI  P+D  T+  +L +  Y T + F  D+  +
Sbjct: 11  LAQIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRV 70

Query: 92  CSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQD 126
            +N  +YN PD+ Y R A ++    +K F    ++
Sbjct: 71  IANCREYNPPDSEYCRCASAL----EKFFYFKLKE 101

>d1wuma1 a.29.2.1 (A:715-832) P300/CAF histone acetyltransferase bromodomain {Human (Homo sapiens) [TaxId: 9606]} Length = 118

class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: P300/CAF histone acetyltransferase bromodomain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 85.1 bits (210), Expect = 2e-20
 Identities = 28/105 (26%), Positives = 48/105 (45%), Gaps = 8/105 (7%)

Query: 27  WDPQRLY--------QIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAY 78
            DP +LY        Q+KS+  +      +   E P Y EVI  PMD  T+  +L N  Y
Sbjct: 9   RDPDQLYSTLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYY 68

Query: 79  ATLEQFEKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENL 123
            + + F  D+  + +N  +YN P++ Y++ A  + +      +  
Sbjct: 69  VSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIKEA 113

>d1e6ia_ a.29.2.1 (A:) GCN5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 111

class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: GCN5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 83.8 bits (207), Expect = 4e-20
 Identities = 25/97 (25%), Positives = 49/97 (50%)

Query: 32  LYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLI 91
           L +++++  +      ++ EE+PDY + I+ PMD  T+  KL +  Y  +E F  D  L+
Sbjct: 12  LTELQNHAAAWPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLV 71

Query: 92  CSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSD 128
            +N   YN  +T Y++ A  + +      + + + S 
Sbjct: 72  FNNCRMYNGENTSYYKYANRLEKFFNNKVKEIPEYSH 108

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	594
d1e6ia_	111	GCN5 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.93
d3d7ca1	102	GCN5 {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1eqfa1	139	TAFII250 double bromodomain module {Human (Homo sa	99.91
d1wuma1	118	P300/CAF histone acetyltransferase bromodomain {Hu	99.91
d3dwya1	114	CREB-binding protein, CBP {Human (Homo sapiens) [T	99.9
d1eqfa2	128	TAFII250 double bromodomain module {Human (Homo sa	99.9

>d1e6ia_ a.29.2.1 (A:) GCN5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: GCN5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.93  E-value=4.5e-26  Score=200.12  Aligned_cols=101  Identities=24%  Similarity=0.421  Sum_probs=97.4

Q ss_pred             cchHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHH
Q 007651           26 NWDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY  105 (594)
Q Consensus        26 ~wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i  105 (594)
                      ++|..||.+|++++.+++|.+|||++.+|+|+++|++||||+||++||+++.|.++++|..||+|||.||+.||++++.+
T Consensus         6 ~~l~~il~~l~~~~~a~pF~~pvd~~~~pdY~~vI~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yN~~~s~i   85 (111)
T d1e6ia_           6 AAIQNILTELQNHAAAWPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNGENTSY   85 (111)
T ss_dssp             HHHHHHHHHHHHSTTCGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHSCTTSHH
T ss_pred             HHHHHHHHHHHhCCCChhhcCCCCchhCcCHHHHcCCchhHHHHHHHHHccccchHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence            56789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhcC
Q 007651          106 FRQARSIHELAKKNFENLRQD  126 (594)
Q Consensus       106 ~k~Ak~Le~lfek~~~~L~~d  126 (594)
                      +++|..|++.|++.++++++-
T Consensus        86 ~~~A~~l~~~f~~~~~~ipe~  106 (111)
T d1e6ia_          86 YKYANRLEKFFNNKVKEIPEY  106 (111)
T ss_dssp             HHHHHHHHHHHHHHHHTSGGG
T ss_pred             HHHHHHHHHHHHHHHHHhhcc
Confidence            999999999999999988653

>d3d7ca1 a.29.2.1 (A:731-832) GCN5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: GCN5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=1.3e-25  Score=194.38  Aligned_cols=96  Identities=29%  Similarity=0.386  Sum_probs=92.2

Q ss_pred             chHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHH
Q 007651           27 WDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF  106 (594)
Q Consensus        27 wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~  106 (594)
                      .|..||.+|++++.+++|..|||+.++|+|+++|++||||+||++||+++.|.++++|.+||+|||.||+.||++++.++
T Consensus         6 ~l~~il~~l~~~~~s~~F~~pv~~~~~pdY~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yN~~~s~~~   85 (102)
T d3d7ca1           6 TLKNLLAQIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPDSEYC   85 (102)
T ss_dssp             HHHHHHHHHHHSGGGGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHHHHSCTTSHHH
T ss_pred             HHHHHHHHHHhCCCCCccCCCCChhhCcCHHHHcCCccCHHHHHHHhccCccCCHHHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            35688999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHh
Q 007651          107 RQARSIHELAKKNFEN  122 (594)
Q Consensus       107 k~Ak~Le~lfek~~~~  122 (594)
                      ++|..|++.|++.+++
T Consensus        86 ~~A~~l~~~f~~~~ke  101 (102)
T d3d7ca1          86 RCASALEKFFYFKLKE  101 (102)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            9999999999988764

>d1eqfa1 a.29.2.1 (A:1359-1497) TAFII250 double bromodomain module {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: TAFII250 double bromodomain module
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.91  E-value=1.3e-24  Score=197.94  Aligned_cols=99  Identities=19%  Similarity=0.380  Sum_probs=95.0

Q ss_pred             chHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHH
Q 007651           27 WDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF  106 (594)
Q Consensus        27 wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~  106 (594)
                      .|..||..|++++.+++|.+|||++++||||++|++||||.||++||+++.|.++++|.+||+|||.||+.||++++.++
T Consensus        30 ~l~~il~~l~~~~~s~pF~~Pvd~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yN~~~s~i~  109 (139)
T d1eqfa1          30 ILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLT  109 (139)
T ss_dssp             HHHHHHHHHHTSTTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHTCTTSHHH
T ss_pred             HHHHHHHHHHcCCCchhhhCCCChhhccCHHHHcCChhhHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            35688999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhc
Q 007651          107 RQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       107 k~Ak~Le~lfek~~~~L~~  125 (594)
                      ++|..|++.|++.|+++..
T Consensus       110 ~~A~~L~~~~~~~~~~~~~  128 (139)
T d1eqfa1         110 QISQSMLDLCDEKLKEKED  128 (139)
T ss_dssp             HHHHHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            9999999999999988754

>d1wuma1 a.29.2.1 (A:715-832) P300/CAF histone acetyltransferase bromodomain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: P300/CAF histone acetyltransferase bromodomain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.91  E-value=8.4e-25  Score=194.01  Aligned_cols=98  Identities=26%  Similarity=0.371  Sum_probs=94.0

Q ss_pred             chHHHHHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHH
Q 007651           27 WDPQRLYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYF  106 (594)
Q Consensus        27 wc~qIL~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~  106 (594)
                      .|..||..|++++.+++|..||++.++|+|+++|++||||+||++||+++.|.++++|..||+|||.||+.||++++.++
T Consensus        17 ~l~~il~~l~~~~~a~~F~~pv~~~~~pdY~~iI~~PmdL~~I~~kl~~~~Y~s~~ef~~Dv~li~~Na~~yn~~~s~~~   96 (118)
T d1wuma1          17 TLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYNPPESEYY   96 (118)
T ss_dssp             HHHHHHHHHHHSSSCHHHHSCCCSSSSSSCTTTCSSCCCHHHHHHHHTTTCCCSSHHHHHHHHHHHHHHHHHSCTTSSHH
T ss_pred             HHHHHHHHHHhCCCcCcccCCCChhhCcCHHHHcCChhhHHHHHHHhcccccCchHHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            35588999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhh
Q 007651          107 RQARSIHELAKKNFENLR  124 (594)
Q Consensus       107 k~Ak~Le~lfek~~~~L~  124 (594)
                      ++|..|++.|++.++++.
T Consensus        97 ~~A~~l~~~f~~~~~e~~  114 (118)
T d1wuma1          97 KCANILEKFFFSKIKEAG  114 (118)
T ss_dssp             HHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHcc
Confidence            999999999999998764

>d3dwya1 a.29.2.1 (A:1084-1197) CREB-binding protein, CBP {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: CREB-binding protein, CBP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.90  E-value=2.7e-24  Score=189.53  Aligned_cols=97  Identities=26%  Similarity=0.469  Sum_probs=91.0

Q ss_pred             HHHHHHHHhC-CCCCCCcCCCCCC--CCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHH
Q 007651           29 PQRLYQIKSY-CCSSSIDFKMDPE--ELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIY  105 (594)
Q Consensus        29 ~qIL~kLk~~-~~A~~F~ePVD~~--e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i  105 (594)
                      ..+|++|+++ +.+++|.+|||+.  ++|||+++|++||||+||++||+++.|.++++|.+||+|||+||+.||++++.+
T Consensus        12 ~~~l~~l~~~~p~a~pF~~pvd~~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~yN~~~s~~   91 (114)
T d3dwya1          12 MPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRV   91 (114)
T ss_dssp             HHHHHHHHTCTTTTGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHSCTTSHH
T ss_pred             HHHHHHHHhcCcCCCccCCCCChhhccCCCHHHHcCCCCCHHHHHHHHHcCccccHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence            4668889877 4899999999987  799999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhc
Q 007651          106 FRQARSIHELAKKNFENLRQ  125 (594)
Q Consensus       106 ~k~Ak~Le~lfek~~~~L~~  125 (594)
                      +++|..|++.|++.+.++.+
T Consensus        92 ~~~A~~L~~~f~~~~~~i~~  111 (114)
T d3dwya1          92 YKFCSKLAEVFEQEIDPVMQ  111 (114)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999988754

>d1eqfa2 a.29.2.1 (A:1498-1625) TAFII250 double bromodomain module {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: TAFII250 double bromodomain module
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.90  E-value=1.7e-24  Score=194.82  Aligned_cols=94  Identities=27%  Similarity=0.481  Sum_probs=89.5

Q ss_pred             HHHHHhCCCCCCCcCCCCCCCCCCcccccCCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHH
Q 007651           32 LYQIKSYCCSSSIDFKMDPEELPDYCEVIEHPMDFGTVRNKLANGAYATLEQFEKDVFLICSNAMQYNAPDTIYFRQARS  111 (594)
Q Consensus        32 L~kLk~~~~A~~F~ePVD~~e~PDY~dIIK~PMDLsTIkkKL~~g~Y~SieEF~~DVrLIf~NA~~YN~pdS~i~k~Ak~  111 (594)
                      +.+++.++.|++|++|||++.+|+||++|++||||+||++||+++.|.++++|..||+|||.||+.||++++.++++|+.
T Consensus        19 ~~~~~~~p~a~pF~~pVd~~~~PdY~~vIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~yN~~~s~i~~~A~~   98 (128)
T d1eqfa2          19 TQKMMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQE   98 (128)
T ss_dssp             HHTTTTSTTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHcCCCCChhcCCCCcccCcCHHHHcCCcccHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
Confidence            46677888999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhc
Q 007651          112 IHELAKKNFENLRQ  125 (594)
Q Consensus       112 Le~lfek~~~~L~~  125 (594)
                      |++.|++.+.++..
T Consensus        99 L~~~~~~~l~~~~~  112 (128)
T d1eqfa2          99 IVNVCYQTLTEYDE  112 (128)
T ss_dssp             HHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHhHH
Confidence            99999999987754