Psyllid ID: psy15468

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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-------600-------610-------620-------630-------640-------650---
Protein Sequence
LGLATAGLVTEEEEAEGPAPLELAVPGVDRLDIICIMVELTYSGVMAGDCATLPPKRFIMGKRRRASSLTRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQEDPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAAVQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVH
Secondary Structure (PSIPRED)
cccccccccHHHHHcccccccccccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccHHHHccccccHHHHHHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccccccHHHHcHHHHHHHHHHHHcccccccccccccccccHHcccccccccccccccccHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHcccccccHHHHHHcccccccccccHHccccccccccccHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHccccccHHHHHHHHHccccccHHHHHHHHHHHHHHHcHHcccccHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccHHHHcccccccHHccccccEEEEEEEEEEEEccccccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccHHHHHccccccHcccHHHHHcccccHHHHHHHHHccccccHHHccccccEEEEcccccHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccccccHHHcccccccccccHHHHccccccHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccHHcHHHcccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHcccccccccccHHHcccccHHHccHHHHHHcccccHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHccccccccccccccccccccccccccccHHHHHHHHHHHHHHccccccccccHHHHEccccccccccccEcc
Coil and Loop (DISEMBL)
lglataglvteeeeaegpaplelavpgvdrLDIICIMVEltysgvmagdcatlppkrfimgkrrrassltrsvdddddssshtsetptmqtrpkrkkidpsdaMQQIYDVIRNFkkedgallcdpfiripkkrqepsyhevvtnpiDFIKIQQKlktdeyddlsdfqADIELLVVTNPIDFIKIQQKlktdeyddlsDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRnkllnpqshegtsqkrsMDFMMASetedsrdssictedeqNQCEDLFNAVmtstdadsrplhevfqllpskkrypeyydvidvpiDLRTIARRIqdgkyaslgdMEKDLILMTKnactfnepgsqIYKDAKALKKLVQTKKMeieqgkftpagkserirskrirggqSLSAITAALeseddeseddeeidqedpnsplwQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIketcepktgrqLSHIFqrlpsrhdypdyyevirkpvDMEMIASKLRYNQYEHLDEMVADFIQMFDNackynepdshiyKDALSLQRIVLQTKMhlrededsvpdvPAAVQELLTSLFTSVYNhqkqclgsfhvlnvdnkplKRRLYTLCKCLMDyrdqdgrqpmlmfmelpsakiypeyykvh
Flexible Loop (DISEMBL)
lglataglvteeeeaegpaplelavpgVDRLDIICIMVELTYSGVMAGDCATlppkrfimgkrrrassltrsvdddddssshtsetptmqtrpkrkkidpsdAMQQIYDVIRNFKKEDGALLCDPFiripkkrqepsyhevvtnpiDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTrnkllnpqshegtsqkrSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTstdadsrpLHEVFqllpskkrypeyydVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKkmeieqgkftpagkserirskrirggqslsAITAALeseddeseddeeidqedpnspLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKetcepktgrqlshifqrlpsrhdypdYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAAVQELLTSLFTSVYNHQKQCLGSfhvlnvdnkplKRRLYTLCKCLMDYRDQDGRQPMLMFMelpsakiypeyykvh
Low Complexity Region (SEG)
LGlataglvteeeeaegpaplelavPGVDRLDIICIMVELTYSGVMAGDCATLPPKRFIMGKRRRAssltrsvdddddssshtsetptMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALeseddeseddeeidqedPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAAVQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVH
Disordered region (IsUnstruct)
*********************ELAVPGVDRLDIICIMVELTYSGVMAGDCATLPPKRFI**********************************************QIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFY*******************************************************************FNAV**********LHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK***************************************************************LWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLR*****VPDVPAAVQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYY***
Disordered Region (DISOPRED)
******************************LDIICIMVE*****************************************************************QQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNA******************ELFHSTRNKLLNP*****************************TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAI******************************************************KMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDS*******VQELLTSLFTSVY************LNVDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVH
Disordered Region (DISEMBL)
LGLATAGLVTEEEEAEGPAPLELAVPGVDRLDIICIMVELTYSGVMAGDCATLPPKRFIMGKR*************************************SDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLN***********SMDFMMA***************EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAA******************PNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAAVQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVH
Disordered Region (DISPRO)
*********T*********PLELAVPGVDRLDIICIMVELTYSGVMAGDCATLPPKRF**************************************KIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLL*******************************TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIE**************************************************************************VTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLR***************************************VDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVH
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSiihhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
LGLATAGLVTEEEEAEGPAPLELAVPGVDRLDIICIMVELTYSGVMAGDCATLPPKRFIMGKRRRASSLTRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQEDPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAAVQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVH
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	653	2.2.26 [Sep-21-2011]
Q86U86	1689	Protein polybromo-1 OS=Ho	no	N/A	0.767	0.296	0.330	3e-81
Q90941	1633	Protein polybromo-1 OS=Ga	yes	N/A	0.767	0.306	0.339	4e-81
Q8BSQ9	1634	Protein polybromo-1 OS=Mu	yes	N/A	0.799	0.319	0.327	2e-79
Q6DIC0	1577	Probable global transcrip	no	N/A	0.099	0.041	0.436	4e-18
Q09948	542	Chromatin structure-remod	yes	N/A	0.336	0.405	0.275	1e-17
Q8K1P7	1613	Transcription activator B	no	N/A	0.153	0.061	0.419	5e-17
Q3TKT4	1613	Transcription activator B	no	N/A	0.153	0.061	0.419	5e-17
P51531	1590	Probable global transcrip	no	N/A	0.052	0.021	0.466	6e-17
P51532	1647	Transcription activator B	no	N/A	0.154	0.061	0.441	5e-16
A7Z019	1606	Transcription activator B	no	N/A	0.160	0.065	0.424	5e-16

>sp|Q86U86|PB1_HUMAN Protein polybromo-1 OS=Homo sapiens GN=PBRM1 PE=1 SV=1

 Score =  303 bits (776), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 216/653 (33%), Positives = 319/653 (48%), Gaps = 152/653 (23%)

Query: 60  MG-KRRRASSLTRSVDDDDDSSSHTSETPTMQTRPKRKK--------IDPSDAMQQIYDV 110
           MG KRRRA+S + SV  D D   H+  TP     P RK+        +DP     ++Y+ 
Sbjct: 1   MGSKRRRATSPSSSVSGDFDDGHHSVSTPG----PSRKRRRLSNLPTVDPIAVCHELYNT 56

Query: 111 IRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADI 170
           IR++K E G LLC+ FIR PK+R +P Y+EVV+ P                         
Sbjct: 57  IRDYKDEQGRLLCELFIRAPKRRNQPDYYEVVSQP------------------------- 91

Query: 171 ELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMEL 230
                   ID +KIQQKLK +EYDD++   AD +LL  NAK++YK +S E++ A +L +L
Sbjct: 92  --------IDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDL 143

Query: 231 FHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTD 290
           +  TRN+ +     +             + TE S  + +     +   E L  A++ +T+
Sbjct: 144 YLRTRNEFVQKGEADDEDDDEDGQDNQGTVTEGSSPAYL-----KEILEQLLEAIVVATN 198

Query: 291 ADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN 350
              R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ+G Y S+  M KD+ L+ KN
Sbjct: 199 PSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKN 258

Query: 351 ACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKF--------TPAG-------------- 388
           A T+NEPGSQ++KDA ++KK+   KK EIE  +         TP+               
Sbjct: 259 AKTYNEPGSQVFKDANSIKKIFYMKKAEIEHHEMAKSSLRMRTPSNLAAARLTGPSHSKG 318

Query: 389 --------KSERIRSKRIRGGQSLSAITAAL----ESEDD-----------ESEDDEEID 425
                    S+  R+KR   G  LSAIT AL    ESE+D           ESE +    
Sbjct: 319 SLGEERNPTSKYYRNKRAVQGGRLSAITMALQYGSESEEDAALAAARYEEGESEAESITS 378

Query: 426 QEDPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHI 485
             D ++P +Q+YD +R                               +C    G+ ++  
Sbjct: 379 FMDVSNPFYQLYDTVR-------------------------------SCRNNQGQLIAEP 407

Query: 486 FQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDS 545
           F  LPS+  YPDYY+ I+ P+ ++ I +KL+  +YE LD +  D   MF+NA +YN P+S
Sbjct: 408 FYHLPSKKKYPDYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNS 467

Query: 546 HIYKDALSLQRIVLQTKMHLR-----EDEDSVPDVPAAVQELLTSLFTSVYNHQKQCLGS 600
            IYK  L LQ+++   K  L      ED DS+  + +A  +  ++   S  N +KQ    
Sbjct: 468 AIYKRVLKLQQVMQAKKKELARRDDIEDGDSM--ISSATSDTGSAKRKSKKNIRKQ---- 521

Query: 601 FHVLNVDNKPLKRRLYTLCKCLMDYRD-QDGRQPMLMFMELPSAKIYPEYYKV 652
                        R+  L   +++ R+   GR+   +FM  PS K YP+YYK+
Sbjct: 522 -------------RMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDYPDYYKI 561

Involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). Act as a negative regulator of cell proliferation.
Homo sapiens (taxid: 9606)

>sp|Q90941|PB1_CHICK Protein polybromo-1 OS=Gallus gallus GN=PBRM1 PE=1 SV=1

 Score =  302 bits (774), Expect = 4e-81,   Method: Compositional matrix adjust.
 Identities = 221/651 (33%), Positives = 324/651 (49%), Gaps = 150/651 (23%)

Query: 60  MG-KRRRASSLTRSVDDDDDSSSHTSETPTMQTRPKRK-----KIDPSDAMQQIYDVIRN 113
           MG KRRRA+S + SV   D    H S      +R +R+      +DP     ++Y+ IR+
Sbjct: 1   MGSKRRRATSPSSSVSGGDFDDGHHSTNIPGPSRKRRRLSNLPTVDPIAVCHELYNTIRD 60

Query: 114 FKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
           +K E G LLC+ FIR PK+R +P Y+EVV+ P                            
Sbjct: 61  YKDEQGRLLCELFIRAPKRRNQPDYYEVVSQP---------------------------- 92

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
                ID +KIQQKLK +EYDD++   AD +LL  NAK +YK +S E++ A +L EL+  
Sbjct: 93  -----IDLMKIQQKLKMEEYDDVNVLTADFQLLFNNAKAYYKPDSPEYKAACKLWELYLR 147

Query: 234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADS 293
           T+N+ +     +G +++   D       E S    +     +   E L  AV  +T+   
Sbjct: 148 TKNEFV----QKGDAEEEDEDEEGHDSQELSSPGYL-----KEILEQLLEAVAVATNPSG 198

Query: 294 RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT 353
           R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ+G Y S+  M KD+ L+ KNA T
Sbjct: 199 RLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGTYKSIHAMAKDIDLLAKNAKT 258

Query: 354 FNEPGSQIYKDAKALKKLVQTKKMEIEQGKF--------TPA-------------GKS-- 390
           +NEPGSQ++KDA A+KK+   KK EIE  +         TP+             GK   
Sbjct: 259 YNEPGSQVFKDANAIKKIFNMKKAEIEHSELAKSSLRLRTPSNLTASKLTGPSSQGKGSV 318

Query: 391 --ER------IRSKRIRGGQSLSAITAAL----ESEDD-----------ESEDDEEIDQE 427
             ER       R+KR   G  LSAIT AL    ES++D           ESE +      
Sbjct: 319 GDERNSSNKYFRNKRSAQGDRLSAITMALQYGSESDEDAALAAAARYEGESEAESITSFM 378

Query: 428 DPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQ 487
           D ++PL+Q+YD +R                               +C    G+ +S  F 
Sbjct: 379 DTSNPLYQLYDTVR-------------------------------SCRNNQGQLISEPFF 407

Query: 488 RLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHI 547
           +LPS+  YPDYY+ I+ P+ ++ I +KL+ ++YE LD++ AD   MF+NA +YN P+S I
Sbjct: 408 QLPSKKKYPDYYQQIKTPISLQQIRAKLKNHEYETLDQLEADLNLMFENAKRYNVPNSAI 467

Query: 548 YKDALSLQRIVLQTKMHLR-----EDEDSVPDVPAAVQELLTSLFTSVYNHQKQCLGSFH 602
           YK  L +Q+++   K  L      ED DS+  + +A  +  +S   S  N +KQ      
Sbjct: 468 YKRVLKMQQVMQAKKKELARRDDIEDGDSM--ISSATSDTGSSKRKSKKNMRKQ------ 519

Query: 603 VLNVDNKPLKRRLYTLCKCLMDYRDQD-GRQPMLMFMELPSAKIYPEYYKV 652
                      R+  L   +++ R+   GR+   +FM  PS K YP+YYK+
Sbjct: 520 -----------RMKILYNAVLEARESGTGRRLCDLFMVKPSKKDYPDYYKI 559

Involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology).

Gallus gallus (taxid: 9031)

>sp|Q8BSQ9|PB1_MOUSE Protein polybromo-1 OS=Mus musculus GN=Pbrm1 PE=1 SV=4

 Score =  297 bits (761), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 207/632 (32%), Positives = 317/632 (50%), Gaps = 110/632 (17%)

Query: 60  MG-KRRRASSLTRSVDDDDDSSSHTSETPTMQTRPKRKK--------IDPSDAMQQIYDV 110
           MG KRRRA+S + SV  D D   H+  TP     P RK+        +DP     ++Y+ 
Sbjct: 1   MGSKRRRATSPSSSVSGDFDDGHHSVPTPG----PSRKRRRLSNLPTVDPIAVCHELYNT 56

Query: 111 IRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADI 170
           IR++K E G LLC+ FIR PK+R +P Y+EVV+ P                         
Sbjct: 57  IRDYKDEQGRLLCELFIRAPKRRNQPDYYEVVSQP------------------------- 91

Query: 171 ELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMEL 230
                   ID +KIQQKLK +EYDD++   AD +LL  NAK +YK +S E++ A +L +L
Sbjct: 92  --------IDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKAYYKPDSPEYKAACKLWDL 143

Query: 231 FHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTD 290
           +  TRN+ +     +             +  + S    +     +   E L  A++ +T+
Sbjct: 144 YLRTRNEFVQKGEADDEDDDEDGQDNQGTLADGSSPGYL-----KEILEQLLEAIVVATN 198

Query: 291 ADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN 350
              R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ+G Y S+  M KD+ L+ KN
Sbjct: 199 PSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKN 258

Query: 351 ACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAA 410
           A T+NEPGSQ++KDA ++KK+   KK EIE  + T +       S RIR   +L+A    
Sbjct: 259 AKTYNEPGSQVFKDANSIKKIFYMKKAEIEHHEMTKS-------SLRIRTASNLAAARLT 311

Query: 411 LESEDDESEDDEEIDQEDPNSPLWQVYDAIRNAKTQGVIFFF-FGVTA---ASLQKMRI- 465
             S +  S  +E     +P S  ++   A++  +   +     +G  +   A+L   R  
Sbjct: 312 GPSHNKSSLGEE----RNPTSKYYRNKRAVQGGRLSAITMALQYGSESEEDAALAAARYE 367

Query: 466 ---------------------LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRK 504
                                LY+T++ +C    G+ ++  F  LPS+  YPDYY+ I+ 
Sbjct: 368 EGESEAESITSFMDVSNPFHQLYDTVR-SCRNHQGQLIAEPFFHLPSKKKYPDYYQQIKM 426

Query: 505 PVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMH 564
           P+ ++ I +KL+  +YE LD +  D   MF+NA +YN P+S IYK  L LQ+++   K  
Sbjct: 427 PISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKE 486

Query: 565 L--RED-EDSVPDVPAAVQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKC 621
           L  R+D ED    + +A  +  ++   S  N +KQ                 R+  L   
Sbjct: 487 LARRDDIEDGDSMISSATSDTGSAKRKSKKNIRKQ-----------------RMKILFNV 529

Query: 622 LMDYRD-QDGRQPMLMFMELPSAKIYPEYYKV 652
           +++ R+   GR+   +FM  PS K YP+YYK+
Sbjct: 530 VLEAREPGSGRRLCDLFMVKPSKKDYPDYYKI 561

Involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology) (By similarity). Act as a negative regulator of cell proliferation.

Mus musculus (taxid: 10090)

>sp|Q6DIC0|SMCA2_MOUSE Probable global transcription activator SNF2L2 OS=Mus musculus GN=Smarca2 PE=1 SV=1

 Score = 93.6 bits (231), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 45/103 (43%), Positives = 68/103 (66%)

Query: 277  QCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYAS 336
            Q   + + V+   D+  R L EVF  LPS+K  PEYY++I  P+D + I  RI++ KY S
Sbjct: 1391 QMNAIIDTVINYKDSSGRQLSEVFIQLPSRKDLPEYYELIRKPVDFKKIKERIRNHKYRS 1450

Query: 337  LGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEI 379
            LGD+EKD++L+  NA TFN  GSQIY+D+  L+ + ++ + +I
Sbjct: 1451 LGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVFKSARQKI 1493

Transcriptional coactivator cooperating with nuclear hormone receptors to potentiate transcriptional activation. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR), which is required for the ligand-bound VDR-mediated transrepression of the CYP27B1 gene (By similarity). Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: -

>sp|Q09948|RSC4_SCHPO Chromatin structure-remodeling complex subunit rsc4 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rsc4 PE=1 SV=1

 Score = 92.0 bits (227), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 72/261 (27%), Positives = 123/261 (47%), Gaps = 41/261 (15%)

Query: 106 QIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSD 165
           ++ + +   K  +G    D F  +P KR  P Y++++          QK           
Sbjct: 17  EVLEALVGLKDNEGNPFDDIFEELPSKRYFPDYYQII----------QK----------- 55

Query: 166 FQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQ 225
                       PI +  ++ K KT +Y  + DF  DI L+V NA+T+    S  +    
Sbjct: 56  ------------PICYKMMRNKAKTGKYLSMGDFYDDIRLMVSNAQTYNMPGSLVY---- 99

Query: 226 ELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAV 285
           E   L  +T N L   +S +GT  +   + M +S  E+ +  +    D     +++ +A+
Sbjct: 100 ECSVLIANTANSL---ESKDGTLNEEENEEMESSINEEHKPGT-NEIDVPKVIQNILDAL 155

Query: 286 MTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLI 345
               D   R L ++F  LPSK+ YP+YY++I  P+ ++ + +R + G+Y +L    KDL 
Sbjct: 156 HEEKDEQGRFLIDIFIDLPSKRLYPDYYEIIKSPMTIKMLEKRFKKGEYTTLESFVKDLN 215

Query: 346 LMTKNACTFNEPGSQIYKDAK 366
            M  NA T+N PGS +Y+DA+
Sbjct: 216 QMFINAKTYNAPGSFVYEDAE 236

Component of the chromatin structure remodeling complex (RSC), which is involved in transcription regulation and nucleosome positioning. Controls particularly membrane and organelle development genes.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q8K1P7|SMCA4_RAT Transcription activator BRG1 OS=Rattus norvegicus GN=Smarca4 PE=1 SV=1

 Score = 90.1 bits (222), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 44/105 (41%), Positives = 70/105 (66%)

Query: 277  QCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYAS 336
            + + + +AV+   D+  R L EVF  LPS+K  PEYY++I  P+D + I  RI++ KY S
Sbjct: 1428 KMKKIVDAVIKYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRS 1487

Query: 337  LGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
            L D+EKD++L+ +NA TFN  GS IY+D+  L+ +  + + +IE+
Sbjct: 1488 LNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEK 1532

Transcriptional coactivator cooperating with nuclear hormone receptors to potentiate transcriptional activation. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR), which is required for the ligand-bound VDR-mediated transrepression of the CYP27B1 gene (By similarity). Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP. Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth. SMARCA4/BAF190A may promote neural stem cell self-renewal/proliferation by enhancing Notch-dependent proliferative signals, while concurrently making the neural stem cell insensitive to SHH-dependent differentiating cues. Acts as a corepressor of ZEB1 to regulate E-cadherin transcription and is required for induction of epithelial-mesenchymal transition (EMT) by ZEB1.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: -

>sp|Q3TKT4|SMCA4_MOUSE Transcription activator BRG1 OS=Mus musculus GN=Smarca4 PE=1 SV=1

 Score = 90.1 bits (222), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 44/105 (41%), Positives = 70/105 (66%)

Query: 277  QCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYAS 336
            + + + +AV+   D+  R L EVF  LPS+K  PEYY++I  P+D + I  RI++ KY S
Sbjct: 1428 KMKKIVDAVIKYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRS 1487

Query: 337  LGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
            L D+EKD++L+ +NA TFN  GS IY+D+  L+ +  + + +IE+
Sbjct: 1488 LNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEK 1532

Transcriptional coactivator cooperating with nuclear hormone receptors to potentiate transcriptional activation. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR), which is required for the ligand-bound VDR-mediated transrepression of the CYP27B1 gene. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth. SMARCA4/BAF190A may promote neural stem cell self-renewal/proliferation by enhancing Notch-dependent proliferative signals, while concurrently making the neural stem cell insensitive to SHH-dependent differentiating cues. Acts as a corepressor of ZEB1 to regulate E-cadherin transcription and is required for induction of epithelial-mesenchymal transition (EMT) by ZEB1.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: -

>sp|P51531|SMCA2_HUMAN Probable global transcription activator SNF2L2 OS=Homo sapiens GN=SMARCA2 PE=1 SV=2

 Score = 89.7 bits (221), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 42/90 (46%), Positives = 63/90 (70%)

Query: 290  DADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTK 349
            ++  R L EVF  LPS+K  PEYY++I  P+D + I  RI++ KY SLGD+EKD++L+  
Sbjct: 1417 NSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCH 1476

Query: 350  NACTFNEPGSQIYKDAKALKKLVQTKKMEI 379
            NA TFN  GSQIY+D+  L+ + ++ + +I
Sbjct: 1477 NAQTFNLEGSQIYEDSIVLQSVFKSARQKI 1506

Transcriptional coactivator cooperating with nuclear hormone receptors to potentiate transcriptional activation. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR), which is required for the ligand-bound VDR-mediated transrepression of the CYP27B1 gene. Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: -

>sp|P51532|SMCA4_HUMAN Transcription activator BRG1 OS=Homo sapiens GN=SMARCA4 PE=1 SV=2

 Score = 86.7 bits (213), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 45/102 (44%), Positives = 69/102 (67%), Gaps = 1/102 (0%)

Query: 281  LFNAVMTSTDADS-RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGD 339
            + +AV+   D+ S R L EVF  LPS+K  PEYY++I  P+D + I  RI++ KY SL D
Sbjct: 1465 IVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLND 1524

Query: 340  MEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
            +EKD++L+ +NA TFN  GS IY+D+  L+ +  + + +IE+
Sbjct: 1525 LEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEK 1566

Transcriptional coactivator cooperating with nuclear hormone receptors to potentiate transcriptional activation. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP. Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth. SMARCA4/BAF190A may promote neural stem cell self-renewal/proliferation by enhancing Notch-dependent proliferative signals, while concurrently making the neural stem cell insensitive to SHH-dependent differentiating cues (By similarity). Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR), which is required for the ligand-bound VDR-mediated transrepression of the CYP27B1 gene. Acts as a corepressor of ZEB1 to regulate E-cadherin transcription and is required for induction of epithelial-mesenchymal transition (EMT) by ZEB1.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: -

>sp|A7Z019|SMCA4_BOVIN Transcription activator BRG1 OS=Bos taurus GN=SMARCA4 PE=2 SV=1

 Score = 86.7 bits (213), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 45/106 (42%), Positives = 71/106 (66%), Gaps = 1/106 (0%)

Query: 277  QCEDLFNAVMTSTDADS-RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYA 335
            + + + +AV+   D+ S R L EVF  LPS+K  PEYY++I  P+D + I  RI++ KY 
Sbjct: 1420 KMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYR 1479

Query: 336  SLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
            SL D+EKD++L+ +NA TFN  GS IY+D+  L+ +  + + +IE+
Sbjct: 1480 SLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEK 1525

Transcriptional coactivator cooperating with nuclear hormone receptors to potentiate transcriptional activation. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR), which is required for the ligand-bound VDR-mediated transrepression of the CYP27B1 gene. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-fOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP. Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth. SMARCA4/BAF190A may promote neural stem cell self-renewal/proliferation by enhancing Notch-dependent proliferative signals, while concurrently making the neural stem cell insensitive to SHH-dependent differentiating cues. Acts as a corepressor of ZEB1 to regulate E-cadherin transcription and is required for induction of epithelial-mesenchymal transition (EMT) by ZEB1.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: -

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	653
328719779	1680	PREDICTED: protein polybromo-1-like [Acy	0.790	0.307	0.446	1e-132
270001742	1660	hypothetical protein TcasGA2_TC000618 [T	0.799	0.314	0.433	1e-123
189234458	1648	PREDICTED: similar to polybromo-1 [Tribo	0.797	0.316	0.438	1e-122
242010994	1673	predicted protein [Pediculus humanus cor	0.765	0.298	0.397	1e-113
383852643	1651	PREDICTED: protein polybromo-1-like [Meg	0.785	0.310	0.437	1e-113
350415036	1651	PREDICTED: protein polybromo-1-like [Bom	0.777	0.307	0.429	1e-112
340714787	1649	PREDICTED: LOW QUALITY PROTEIN: protein	0.777	0.308	0.427	1e-111
322790256	1587	hypothetical protein SINV_09840 [Solenop	0.767	0.315	0.418	1e-110
307180267	1644	Protein polybromo-1 [Camponotus floridan	0.768	0.305	0.417	1e-110
380016641	1651	PREDICTED: protein polybromo-1-like [Api	0.779	0.308	0.421	1e-110

>gi|328719779|ref|XP_001944619.2| PREDICTED: protein polybromo-1-like [Acyrthosiphon pisum]

 Score =  479 bits (1234), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 278/622 (44%), Positives = 372/622 (59%), Gaps = 106/622 (17%)

Query: 60  MGKRRRASSL-TRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKED 118
           M +RRRASS+ +R+ DD+ +S       P    R KR+ +DP D +Q +YD +RNFKKED
Sbjct: 1   MNRRRRASSIASRATDDEVES------LPVEHIRKKRR-VDPVDIVQSVYDTVRNFKKED 53

Query: 119 GALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNP 178
           G LLCD FIR PK+RQEP+Y++VV+N                                 P
Sbjct: 54  GMLLCDSFIRAPKRRQEPTYYDVVSN---------------------------------P 80

Query: 179 IDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL 238
           ID IKIQQK+KTDEYDD+ D Q D+ELL  NAK+FYK+NSQE++DA EL ++F +T+N +
Sbjct: 81  IDLIKIQQKIKTDEYDDVDDLQTDLELLTNNAKSFYKKNSQEYKDAVELWDVFLATKNNI 140

Query: 239 LNPQSHEGTSQKR----------------SMDFMMASETEDSRDSSICTEDEQNQCEDLF 282
           L     EGT +++                SM     ++ E+S  S +  +DE   CE+LF
Sbjct: 141 L---EREGTPKEKLVIRVGKLGKRGGSAASMSKSEQTDEEESNSSVVGGDDELAMCEELF 197

Query: 283 NAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEK 342
            AVM++TD ++R L   FQLLPSKK YP YY+VI+ PIDLR+IAR+IQDGKYA+L +ME+
Sbjct: 198 TAVMSATDNENRLLSAAFQLLPSKKSYPNYYEVIENPIDLRSIARKIQDGKYANLAEMER 257

Query: 343 DLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQ 402
           +L++MTKNAC FNEPGSQIYKDAK LKK++ +KK+E++ GK+ P+  SERIR+KR+RG Q
Sbjct: 258 ELLIMTKNACLFNEPGSQIYKDAKTLKKVITSKKIEVDHGKYAPSKSSERIRAKRMRGSQ 317

Query: 403 -SLSAITAALESEDDE-------SEDDEEIDQEDPNSPLWQVYDAIRNAKTQGVIFFFFG 454
            S+SA+TAAL+SED+E       +  D + + + P++P WQ+Y+A+R+A           
Sbjct: 318 TSMSAVTAALQSEDEEDSDLDEDTVTDSQSNVDGPDNPRWQLYNAVRSATGS-------- 369

Query: 455 VTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASK 514
                                   G  LS  F +LPS+  YP+YY  IR P+ +  I  K
Sbjct: 370 -----------------------QGNLLSDTFWKLPSKRYYPNYYHEIRNPLSLMQIGKK 406

Query: 515 LRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTK----MHLREDED 570
           LR   Y  + E+  D   M +NA KY   D+  YKDA+ LQ+ V+QTK    + L     
Sbjct: 407 LRNGDYGTVSEVAGDMNVMLENAKKYFTIDTKQYKDAVKLQK-VMQTKAQELLDLGHQYS 465

Query: 571 SVPDVPAAVQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQDG 630
              D  A      TS  +  +    +CL     LN  N PLKRRLY LCKCLMDY  + G
Sbjct: 466 DSEDDSADDDLQSTSRTSKKFARSPRCLTRGKYLN--NIPLKRRLYALCKCLMDYTTEHG 523

Query: 631 RQPMLMFMELPSAKIYPEYYKV 652
           R PMLMFME+PS K+YP YYKV
Sbjct: 524 RVPMLMFMEIPSKKLYPAYYKV 545

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270001742|gb|EEZ98189.1| hypothetical protein TcasGA2_TC000618 [Tribolium castaneum]

 Score =  447 bits (1151), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 275/634 (43%), Positives = 362/634 (57%), Gaps = 112/634 (17%)

Query: 60  MGKRRRASSL-TRSVDDD--DDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKK 116
           M KRRR SS+ +R  +DD  D   + TS  PTM  R + KK+DP +  QQ+YD IRN KK
Sbjct: 1   MSKRRRTSSIASRGQEDDSLDSLEASTSTGPTM--RKRSKKLDPMELCQQLYDSIRNHKK 58

Query: 117 EDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVT 176
           +DG LLCD FIR+PK+RQEP Y+EVV+N                                
Sbjct: 59  DDGTLLCDSFIRVPKRRQEPGYYEVVSN-------------------------------- 86

Query: 177 NPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRN 236
            PID +K+QQKLKT+EY+D+ D Q DIEL+V N K FYK+NSQE+RDA +L  LF S ++
Sbjct: 87  -PIDLLKVQQKLKTEEYEDIEDLQNDIELIVNNTKAFYKKNSQEYRDAIDLWALFLSNKH 145

Query: 237 KLLNPQSHE-----------GTSQKRSMDFMMASETEDSRDSSICT--EDEQNQCEDLFN 283
           KLLN +  E           G   K++   +   E E S D+S  +  +D+ N  E+LF 
Sbjct: 146 KLLNTKDDEPEPKGKIVLKVGRPSKKAGTPVETKEPEHSEDTSESSNFDDDVNLYEELFT 205

Query: 284 AVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKD 343
           +VMT+TD ++RPLH  FQL+PSKK+YPEYY+VI+ PIDL+ IA +IQ   Y SL ++EKD
Sbjct: 206 SVMTATDNENRPLHTSFQLIPSKKKYPEYYEVIEQPIDLKMIATKIQTNDYCSLAELEKD 265

Query: 344 LILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQS 403
           L+LM KNAC FNEPGSQIYK+AKALKK++Q+KK E++  K +    SERIR+KR+RG  S
Sbjct: 266 LMLMCKNACLFNEPGSQIYKNAKALKKIIQSKKAELDHIKLSLGKSSERIRNKRLRGSTS 325

Query: 404 LSAITAAL-------ESEDDESEDDEEI-DQEDPNSPLWQVYDAIRNAKTQGVIFFFFGV 455
           LSA+TAAL       E E +E  DDE I D  D   P WQ+++A+R+            V
Sbjct: 326 LSAVTAALRDDESDAEVEPEEQMDDESIADPLDVEDPQWQLFEAVRS------------V 373

Query: 456 TAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKL 515
           T+ S                   G  LS  F +LPS+  YPDYY  I+ PV +  I  KL
Sbjct: 374 TSNS-------------------GVSLSEPFWKLPSKRFYPDYYREIKNPVSLTQIKRKL 414

Query: 516 RYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHL---------- 565
             + Y  + E+  D   MF+NA KYN P S +YKDA+ LQ+++      L          
Sbjct: 415 TKHAYGTISEVAGDMTIMFENAKKYNLPSSRLYKDAVKLQKVMQMKVQELLDIDQVTYRV 474

Query: 566 ----REDEDSVPDVPAAVQELLTSLFTSVYNHQKQCLGSFHVLNV---DNKPLKRRLYTL 618
               R+D DS  D      E++            Q  GS         D  PLK+RL+ L
Sbjct: 475 TNKNRKDTDSEAD-----SEVVVRKKPGPKPKNTQSSGSTPQRGRPPRDPIPLKKRLHAL 529

Query: 619 CKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
            K ++DY  +DGR+PML FME PS K+Y EYY+V
Sbjct: 530 AKYMLDYTCEDGRKPMLGFMEKPSKKLYSEYYEV 563

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189234458|ref|XP_001808258.1| PREDICTED: similar to polybromo-1 [Tribolium castaneum]

 Score =  446 bits (1148), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 273/623 (43%), Positives = 363/623 (58%), Gaps = 102/623 (16%)

Query: 60  MGKRRRASSL-TRSVDDD--DDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKK 116
           M KRRR SS+ +R  +DD  D   + TS  PTM  R + KK+DP +  QQ+YD IRN KK
Sbjct: 1   MSKRRRTSSIASRGQEDDSLDSLEASTSTGPTM--RKRSKKLDPMELCQQLYDSIRNHKK 58

Query: 117 EDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVT 176
           +DG LLCD FIR+PK+RQEP Y+EVV+N                                
Sbjct: 59  DDGTLLCDSFIRVPKRRQEPGYYEVVSN-------------------------------- 86

Query: 177 NPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRN 236
            PID +K+QQKLKT+EY+D+ D Q DIEL+V N K FYK+NSQE+RDA +L  LF S ++
Sbjct: 87  -PIDLLKVQQKLKTEEYEDIEDLQNDIELIVNNTKAFYKKNSQEYRDAIDLWALFLSNKH 145

Query: 237 KLLNPQSHE-----------GTSQKRSMDFMMASETEDSRDSSICT--EDEQNQCEDLFN 283
           KLLN +  E           G   K++   +   E E S D+S  +  +D+ N  E+LF 
Sbjct: 146 KLLNTKDDEPEPKGKIVLKVGRPSKKAGTPVETKEPEHSEDTSESSNFDDDVNLYEELFT 205

Query: 284 AVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKD 343
           +VMT+TD ++RPLH  FQL+PSKK+YPEYY+VI+ PIDL+ IA +IQ   Y SL ++EKD
Sbjct: 206 SVMTATDNENRPLHTSFQLIPSKKKYPEYYEVIEQPIDLKMIATKIQTNDYCSLAELEKD 265

Query: 344 LILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQS 403
           L+LM KNAC FNEPGSQIYK+AKALKK++Q+KK E++  K +    SERIR+KR+RG  S
Sbjct: 266 LMLMCKNACLFNEPGSQIYKNAKALKKIIQSKKAELDHIKLSLGKSSERIRNKRLRGSTS 325

Query: 404 LSAITAAL-------ESEDDESEDDEEI-DQEDPNSPLWQVYDAIRNAKTQGVIFFFFGV 455
           LSA+TAAL       E E +E  DDE I D  D   P WQ+++A+R+            V
Sbjct: 326 LSAVTAALRDDESDAEVEPEEQMDDESIADPLDVEDPQWQLFEAVRS------------V 373

Query: 456 TAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKL 515
           T+ S                   G  LS  F +LPS+  YPDYY  I+ PV +  I  KL
Sbjct: 374 TSNS-------------------GVSLSEPFWKLPSKRFYPDYYREIKNPVSLTQIKRKL 414

Query: 516 RYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIV---LQTKMHLREDEDSV 572
             + Y  + E+  D   MF+NA KYN P S +YKDA+ LQ+++   +Q  + + +D DS 
Sbjct: 415 TKHAYGTISEVAGDMTIMFENAKKYNLPSSRLYKDAVKLQKVMQMKVQELLDIDQDTDSE 474

Query: 573 PDVPAAVQELLTSLFTSVYNHQKQCLGSFHVLNV---DNKPLKRRLYTLCKCLMDYRDQD 629
            D      E++            Q  GS         D  PLK+RL+ L K ++DY   +
Sbjct: 475 AD-----SEVVVRKKPGPKPKNTQSSGSTPQRGRPPRDPIPLKKRLHALAKYMLDYT-VN 528

Query: 630 GRQPMLMFMELPSAKIYPEYYKV 652
           GR+PML FME PS K+Y EYY+V
Sbjct: 529 GRKPMLGFMEKPSKKLYSEYYEV 551

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242010994|ref|XP_002426242.1| predicted protein [Pediculus humanus corporis] gi|212510305|gb|EEB13504.1| predicted protein [Pediculus humanus corporis]

 Score =  416 bits (1069), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 243/612 (39%), Positives = 341/612 (55%), Gaps = 112/612 (18%)

Query: 60  MGKRRRASSLTRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDG 119
           M KR R SS+T   DDD +SS                  D  D    +YD++RN KKEDG
Sbjct: 1   MSKRGRTSSVTGRQDDDGESS------------------DLIDFCSYVYDILRNHKKEDG 42

Query: 120 ALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPI 179
           +LLCD FIR+PK+RQ+PSY+EVV+N                                 PI
Sbjct: 43  SLLCDTFIRVPKRRQDPSYYEVVSN---------------------------------PI 69

Query: 180 DFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLL 239
           D +KIQQK+KTD+Y+D+ D   D+EL+V NAK+FYK+NS E++DA ELME+F+S +N+LL
Sbjct: 70  DMLKIQQKIKTDDYEDIEDMAQDVELMVNNAKSFYKKNSTEYKDAVELMEMFNSIKNRLL 129

Query: 240 NPQSHEGTSQKRSMDFMMASET-----------------EDSRDSSICTEDEQNQCEDLF 282
             +        +    ++                     + + + S   E+E NQ E+LF
Sbjct: 130 ESEDQSSVESDKKGKIILKVGKLARKAAAAAEAKKQDPDDTTSEGSSVMEEESNQIEELF 189

Query: 283 NAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEK 342
            AVM +TD + R L+  F LLPSKK+YPEYYD+ID PIDL+ IAR+IQ  +Y  + D+EK
Sbjct: 190 TAVMQATDGEKRQLNSAFMLLPSKKKYPEYYDIIDNPIDLKQIARKIQANQYNHINDLEK 249

Query: 343 DLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQ 402
           D++LMTKNAC+FNEPGSQIYKDAK LKK++ +KK +I  GK      S        R  Q
Sbjct: 250 DMLLMTKNACSFNEPGSQIYKDAKTLKKIIVSKKFDIVHGKLKAKVGS--------RSYQ 301

Query: 403 SLSAITAALESEDDESEDDEEIDQE-DPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQ 461
            LSAITAAL+ E    E++ E D + D ++P WQ+YD ++N    G              
Sbjct: 302 PLSAITAALKEEATSEEEELEGDSDVDLDNPRWQLYDVVKNTTNNGGYAL---------- 351

Query: 462 KMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYE 521
                       CEP         F +LPSR  YPDYY+ I+ PV +  I +KL+  +Y 
Sbjct: 352 ------------CEP---------FWKLPSRRHYPDYYKEIKNPVSLLQIRNKLKKGEYG 390

Query: 522 HLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVL-QTKMHLREDEDSVPDVPAAVQ 580
            + E+  D   MF+NA KYN P+S +Y+DA+ LQ+++  + K  L  D++S  D  +   
Sbjct: 391 TVSEVAGDLNIMFENAKKYNRPESRLYRDAIKLQKVMQHKVKELLDFDQESESDTDSDNS 450

Query: 581 ELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMEL 640
            ++    + +   + +   +F     DN  L++R  ++CK L +Y  +DGRQP+LMFME 
Sbjct: 451 PIIKKDTSPIAKKRGRKSAAFI---RDNPSLRKRFLSICKALTEYTYEDGRQPILMFMEK 507

Query: 641 PSAKIYPEYYKV 652
           PS K+YPEYYK+
Sbjct: 508 PSKKLYPEYYKI 519

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383852643|ref|XP_003701836.1| PREDICTED: protein polybromo-1-like [Megachile rotundata]

 Score =  414 bits (1065), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 270/617 (43%), Positives = 357/617 (57%), Gaps = 104/617 (16%)

Query: 60  MGKRRRASSL-TRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKED 118
           M KRRR SS+ +R  +DD D      E P   T+ +RKK+DPSD  QQ+YDV+RN KKED
Sbjct: 1   MNKRRRTSSVASRGTEDDGD------EVPREPTK-RRKKLDPSDLCQQLYDVLRNQKKED 53

Query: 119 GALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNP 178
           G LLCD FIR+PK+RQEP Y+EVVTN                                 P
Sbjct: 54  GTLLCDAFIRVPKRRQEPGYYEVVTN---------------------------------P 80

Query: 179 IDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL 238
           ID +K+QQKLKTDEY D+ D  ADI+L+V NAK FY R S E++DA EL EL  +T+N++
Sbjct: 81  IDLLKVQQKLKTDEYRDMDDLAADIQLMVNNAKAFYMRTSPEYKDATELWELCVNTKNRI 140

Query: 239 LNPQSHEGTSQKRSMDFMMA----------SETEDSRDSSICTEDEQ-NQCEDLFNAVMT 287
           +  + +E    K  +   +A           +TED+ +SS   ++E   Q EDLF AVMT
Sbjct: 141 M--EEYEDPEPKGKLILKVARLARKATLKQEDTEDTSESSTNPDEETIQQFEDLFAAVMT 198

Query: 288 STDA--DSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLI 345
           +TD   ++RPLH +FQL PSKK YPEYYDVI+ P+DL+T+AR+IQ+  Y+++ DMEKDL+
Sbjct: 199 ATDPADNNRPLHTMFQLKPSKKLYPEYYDVIETPVDLKTVARKIQEAAYSTITDMEKDLM 258

Query: 346 LMTKNACTFNEPGSQIYKDAKALKKLV--QTKKMEIEQGKFTP--AGKSERIRSKRIRG- 400
           LM +NAC FNEPGSQIYKDAK LKK++   TKK +       P  A  +   RSKR    
Sbjct: 259 LMCRNACQFNEPGSQIYKDAKLLKKIITAATKKQDTGLSSCIPKIATTAPSTRSKRGSRT 318

Query: 401 -GQSLSAITAALESEDDESEDDEEIDQEDPN--SPLWQVYDAIRNA-KTQGVIFFFFGVT 456
             QSL A TA+L  EDDES+D+EE   E     +P WQ++  IR A   QGV        
Sbjct: 319 MAQSLIAQTASLPDEDDESDDEEEEPAETEEADNPQWQLFQTIRTAPNNQGV-------- 370

Query: 457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLR 516
                                   ++S  F +LPS+  YPDYY++I+ P+ +  I +K++
Sbjct: 371 ------------------------RMSEYFWKLPSKRLYPDYYKMIKNPISLLQIRTKIK 406

Query: 517 YNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLRE-DEDSVPDV 575
             +Y  + E+  D   MF+NA KYN   S +YK A+ LQ+I+ +    L E D+DS  D 
Sbjct: 407 KGEYGTVSEVAGDMNIMFENAKKYNIHTSRLYKCAVKLQKIMQEKVQELLEFDQDSDSDS 466

Query: 576 PAAVQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQDGRQPML 635
                     L     N   +  G +     DN PLKRRLY L KC+M+Y  +DGRQPML
Sbjct: 467 EFENNSQQPKLIKRASNLLTR--GKYK----DNIPLKRRLYALVKCVMEYVCEDGRQPML 520

Query: 636 MFMELPSAKIYPEYYKV 652
           MFME PS K+YP+YY+V
Sbjct: 521 MFMEKPSKKLYPDYYQV 537

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350415036|ref|XP_003490512.1| PREDICTED: protein polybromo-1-like [Bombus impatiens]

 Score =  413 bits (1062), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 267/622 (42%), Positives = 362/622 (58%), Gaps = 114/622 (18%)

Query: 60  MGKRRRASSL-TRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKED 118
           M KRRR SS+ +R  +DD D      + P   T+ +RKKIDPSD  QQ+YDV+RN KKED
Sbjct: 1   MNKRRRTSSVASRGTEDDGD------DIPPEPTK-RRKKIDPSDLCQQLYDVLRNQKKED 53

Query: 119 GALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNP 178
           G LLCD FIR+PK+RQEP Y+EVVTN                                 P
Sbjct: 54  GTLLCDAFIRVPKRRQEPGYYEVVTN---------------------------------P 80

Query: 179 IDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL 238
           ID +K+QQKLKTDEY D+ D  ADI+L+V NAK FY R S E++DA EL EL  +T+N++
Sbjct: 81  IDLLKVQQKLKTDEYRDMDDLAADIQLMVNNAKAFYMRTSPEYKDATELWELCINTKNRI 140

Query: 239 LNPQSHEGTSQKRSMDFMMA-------SETEDSRDSSICT----EDEQNQCEDLFNAVMT 287
           +  + +E    K  +   +        ++ ED+ D+S  +    E+   Q EDLF AVMT
Sbjct: 141 M--EEYEDPEPKGKLILKVGRLARKATTKQEDAEDTSESSTNPDEETMQQFEDLFAAVMT 198

Query: 288 STDA--DSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLI 345
           +TD   ++RPLH +FQL PSKK YPEYYDVI+ P+DL+T+AR+IQ+G Y+S+ DMEKDL+
Sbjct: 199 ATDPADNNRPLHTMFQLKPSKKLYPEYYDVIETPVDLKTVARKIQEGAYSSITDMEKDLM 258

Query: 346 LMTKNACTFNEPGSQIYKDAKALKKLV--QTKKMEIEQGKFTP--AGKSERIRSKRIRG- 400
           LM +NAC FNEPGSQIYKDAK LKK++    +K +I      P  A  +   RSKR    
Sbjct: 259 LMCRNACQFNEPGSQIYKDAKLLKKIITAAARKQDIGLSSTVPKIATTAPSTRSKRGSRT 318

Query: 401 -GQSLSAITAAL--ESEDDESEDDEEIDQEDPNSPLWQVYDAIRNA-KTQGVIFFFFGVT 456
             QSL A TA L  E E+ + E+DE  + E+ ++P WQ++  IR A   QGV        
Sbjct: 319 MAQSLIAQTATLPDEDEESDDEEDEPAETEEADNPQWQLFQTIRTAPNNQGV-------- 370

Query: 457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLR 516
                                   ++S  F +LPS+  YPDYY+ I+ P+ +  I +K++
Sbjct: 371 ------------------------RMSEYFWKLPSKRLYPDYYKTIKNPISLLQIRTKIK 406

Query: 517 YNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMH--LREDEDSVPD 574
             +Y  + E+  D   MF+NA KYN   S +YK A+ LQ+I +Q K+H  L  D+DS  D
Sbjct: 407 KGEYGTVSEVAGDMNIMFENAKKYNIHTSRLYKCAVKLQKI-MQEKVHELLEFDQDSDSD 465

Query: 575 VPAAVQELLTSLFTSVYNHQKQCLGSFHVLN----VDNKPLKRRLYTLCKCLMDYRDQDG 630
                     S F +  +  K    + ++L      DN PLK+RLY L KC+++Y  +DG
Sbjct: 466 ----------SEFENSSHQPKLIKRASNLLTRGKYKDNIPLKKRLYALVKCVIEYVCEDG 515

Query: 631 RQPMLMFMELPSAKIYPEYYKV 652
           RQPMLMFME PS K+YP+YY+V
Sbjct: 516 RQPMLMFMEKPSKKLYPDYYQV 537

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340714787|ref|XP_003395905.1| PREDICTED: LOW QUALITY PROTEIN: protein polybromo-1-like [Bombus terrestris]

 Score =  409 bits (1052), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 266/622 (42%), Positives = 361/622 (58%), Gaps = 114/622 (18%)

Query: 60  MGKRRRASSL-TRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKED 118
           M KRRR SS+ +R  +DD D      + P   T+ +RKKIDPSD  QQ+YDV+RN KKED
Sbjct: 1   MNKRRRTSSVASRGTEDDGD------DIPPEPTK-RRKKIDPSDLCQQLYDVLRNQKKED 53

Query: 119 GALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNP 178
           G LLCD FIR+PK+RQEP Y+EVVTN                                 P
Sbjct: 54  GTLLCDAFIRVPKRRQEPGYYEVVTN---------------------------------P 80

Query: 179 IDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL 238
           ID +K+QQKLKTDEY D+ D  ADI+L+V NAK FY R S E++DA EL EL  +T+N++
Sbjct: 81  IDLLKVQQKLKTDEYRDMDDLAADIQLMVNNAKAFYMRTSPEYKDATELWELCINTKNRI 140

Query: 239 LNPQSHEGTSQKRSMDFMMA-------SETEDSRDSSICT----EDEQNQCEDLFNAVMT 287
           +  + +E    K  +   +        ++ ED+ D+S  +    E+   Q EDLF AVMT
Sbjct: 141 M--EEYEDPEPKGKLILKVGRLARKATTKQEDAEDTSESSTNPDEETMQQFEDLFAAVMT 198

Query: 288 STDA--DSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLI 345
           +TD   ++RPLH +FQL PSKK YPEYYDVI+ P+DL+T+AR+IQ+G Y+S+ DMEKDL+
Sbjct: 199 ATDPADNNRPLHTMFQLKPSKKLYPEYYDVIETPVDLKTVARKIQEGAYSSITDMEKDLM 258

Query: 346 LMTKNACTFNEPGSQIYKDAKALKKLV--QTKKMEIEQGKFTP--AGKSERIRSKRIRG- 400
           LM +NAC FNEPGSQIYKDAK LKK +    +K +I      P  A  +   RSKR    
Sbjct: 259 LMCRNACQFNEPGSQIYKDAKLLKKXITAAARKQDIGLSSTVPKIATTAPSTRSKRGSRT 318

Query: 401 -GQSLSAITAAL--ESEDDESEDDEEIDQEDPNSPLWQVYDAIRNA-KTQGVIFFFFGVT 456
             QSL A TA L  E E+ + E+DE  + E+ ++P WQ++  IR A   QGV        
Sbjct: 319 MAQSLIAQTATLPDEDEESDDEEDEPAETEEADNPQWQLFQTIRTAPNNQGV-------- 370

Query: 457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLR 516
                                   ++S  F +LPS+  Y DYY++I+ P+ +  I +K++
Sbjct: 371 ------------------------RMSEYFWKLPSKRLYADYYKMIKNPISLLQIRTKIK 406

Query: 517 YNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMH--LREDEDSVPD 574
             +Y  + E+  D   MF+NA KYN   S +YK A+ LQ+I +Q K+H  L  D+DS  D
Sbjct: 407 KGEYGTVSEVAGDMNIMFENAKKYNIHTSRLYKCAVKLQKI-MQEKVHELLEFDQDSDSD 465

Query: 575 VPAAVQELLTSLFTSVYNHQKQCLGSFHVLN----VDNKPLKRRLYTLCKCLMDYRDQDG 630
                     S F +  +  K    + ++L      DN PLK+RLY L KC+++Y  +DG
Sbjct: 466 ----------SEFENSSHQPKLIKRASNLLTRGKYKDNIPLKKRLYALVKCVIEYVCEDG 515

Query: 631 RQPMLMFMELPSAKIYPEYYKV 652
           RQPMLMFME PS K+YP+YY+V
Sbjct: 516 RQPMLMFMEKPSKKLYPDYYQV 537

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322790256|gb|EFZ15255.1| hypothetical protein SINV_09840 [Solenopsis invicta]

 Score =  406 bits (1044), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 263/629 (41%), Positives = 357/629 (56%), Gaps = 128/629 (20%)

Query: 60  MGKRRRASSL-TRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKED 118
           M KRRR SS+ +R  +DD D      + P   T+ +RKK+DPSD  QQ+YD++RN KKED
Sbjct: 1   MNKRRRTSSVASRGTEDDGD------DVPPEPTK-RRKKLDPSDLCQQLYDILRNQKKED 53

Query: 119 GALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNP 178
           G+LLCD FIR+PK+RQEP Y+EVV+N                                 P
Sbjct: 54  GSLLCDAFIRVPKRRQEPGYYEVVSN---------------------------------P 80

Query: 179 IDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL 238
           ID +K+QQKLKTDEY D+ D  ADI+L+V NAK FY R S E++DA EL EL  +T+N++
Sbjct: 81  IDLLKVQQKLKTDEYRDMDDLAADIQLMVNNAKAFYMRTSPEYKDATELWELCVNTKNRI 140

Query: 239 LNPQSHEGTSQKRSMDFMMAS----------ETEDSRDSSICTEDEQNQC-EDLFNAVMT 287
           +  + +E    K  +   +            + ED+ +SS   ++E  Q  EDLF AVMT
Sbjct: 141 M--EEYEEPEPKGKLILKVGRLARKVTTRQDDAEDTSESSTNLDEETMQLFEDLFAAVMT 198

Query: 288 STDA--DSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLI 345
           +TD   ++RPLH +FQL PSKK YPEYYDVI+ PIDL+TIAR+IQ+G Y+SLGDMEKDL+
Sbjct: 199 ATDPTDNNRPLHIMFQLKPSKKLYPEYYDVIETPIDLKTIARKIQEGAYSSLGDMEKDLM 258

Query: 346 LMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTP-----AGKSERIRSKRIRG 400
           LM +NAC FNEPGSQIYKDAK LKK++ T     + G F       A  +   RSKR   
Sbjct: 259 LMCRNACQFNEPGSQIYKDAKLLKKII-TAAARRQDGGFGSNALKIATTAPSTRSKRGSR 317

Query: 401 --GQSLSAITAAL--ESEDDESEDDEEIDQEDPNSPLWQVYDAIRNA-KTQGVIFFFFGV 455
              QSL A TA+L  E ++ + E+DE  + E+ ++P WQ++  IR A   QGV       
Sbjct: 318 TMAQSLIAQTASLVDEDDESDDEEDEPAETEEVDNPQWQLFQTIRTAPNNQGV------- 370

Query: 456 TAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKL 515
                                    ++S  F +LPS+  YPDYY++I+ P+ +  I +K+
Sbjct: 371 -------------------------RMSEYFWKLPSKRLYPDYYKMIKNPISLLQIRTKI 405

Query: 516 RYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLRE-------- 567
           +  +Y  + E+  D   MF+NA KYN   S +YK A+ LQ+I+ +    L E        
Sbjct: 406 KKGEYGTVSEVAGDMNIMFENAKKYNMHTSRLYKCAVKLQKIMQEKVQELLEFDQDSDSD 465

Query: 568 ----DEDSVPDVPAAVQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLM 623
               +    P +      LLT              G +     DN PLK+RLYTL KC++
Sbjct: 466 SESENSSQQPKLIKRASNLLTR-------------GKYK----DNIPLKKRLYTLVKCVI 508

Query: 624 DYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
           +Y  +DGRQPMLMFME PS K+YP+YY+V
Sbjct: 509 EYVCEDGRQPMLMFMEKPSKKLYPDYYQV 537

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307180267|gb|EFN68300.1| Protein polybromo-1 [Camponotus floridanus]

 Score =  405 bits (1041), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 262/628 (41%), Positives = 358/628 (57%), Gaps = 126/628 (20%)

Query: 60  MGKRRRASSL-TRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKED 118
           M KRRR SS+ +R  +DD D      + P   T+ +RKK+DPSD  QQ+YDV+RN KKED
Sbjct: 1   MNKRRRTSSVASRGTEDDGD------DIPPEPTK-RRKKLDPSDLCQQLYDVLRNQKKED 53

Query: 119 GALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNP 178
           G+LLCD FIR+PK+RQEP Y+EVV+N                                 P
Sbjct: 54  GSLLCDAFIRVPKRRQEPGYYEVVSN---------------------------------P 80

Query: 179 IDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL 238
           ID +K+QQKLKTDEY D+ D  ADI+L+V NAK FY R S E++DA EL EL  +T+N++
Sbjct: 81  IDLLKVQQKLKTDEYRDMDDLAADIQLMVNNAKAFYMRTSPEYKDATELWELCINTKNRI 140

Query: 239 LNPQSHEGTSQKRSMDFMMAS----------ETEDSRDSSICTEDEQNQC-EDLFNAVMT 287
              + +E    K  +   +            + ED+ +SS   ++E  Q  EDLF AVMT
Sbjct: 141 T--EEYEDPEPKGKLILKVGRLARRAATRQDDAEDTSESSANLDEETMQLFEDLFAAVMT 198

Query: 288 STDA--DSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLI 345
           +TD   ++RPLH +FQL PSKK YPEYYDVI+ PIDL+TIAR+IQ+G Y+S+GDMEKDL+
Sbjct: 199 ATDPTDNNRPLHIMFQLKPSKKLYPEYYDVIETPIDLKTIARKIQEGAYSSVGDMEKDLM 258

Query: 346 LMTKNACTFNEPGSQIYKDAKALKKLV--QTKKMEIEQGKFTP--AGKSERIRSKRIRG- 400
           LM +NAC FNEPGSQIYKDAK LKK++    ++ +   G  TP  A  +   RSKR    
Sbjct: 259 LMCRNACQFNEPGSQIYKDAKLLKKIITAAARRQDGGLGSNTPKIATTAPSTRSKRGSRT 318

Query: 401 -GQSLSAITAAL--ESEDDESEDDEEIDQEDPNSPLWQVYDAIRNA-KTQGVIFFFFGVT 456
             QSL A TA+L  E ++ + E++E  + E+ ++P WQ++  IR A   QGV        
Sbjct: 319 MAQSLIAQTASLLDEDDESDDEEEEPAETEEADNPQWQLFQTIRTAPNNQGV-------- 370

Query: 457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLR 516
                                   ++S  F +LPS+  YPDYY++I+ P+ +  I +K++
Sbjct: 371 ------------------------RMSEYFWKLPSKRLYPDYYKMIKNPISLLQIRTKIK 406

Query: 517 YNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSV---- 572
             +Y  + E+  D   MF+NA KYN   S +YK A+ LQ+I+ +    L E +       
Sbjct: 407 KGEYGTVSEVAGDMNIMFENAKKYNIHTSRLYKCAVKLQKIMQEKVQELLEFDQDSDSDS 466

Query: 573 --------PDVPAAVQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMD 624
                   P +      LLT              G +     DN PLK+RLYTL KC+++
Sbjct: 467 ESENSSYQPKLIKRASNLLTR-------------GKYK----DNIPLKKRLYTLVKCVIE 509

Query: 625 YRDQDGRQPMLMFMELPSAKIYPEYYKV 652
           Y  +DGRQPMLMFME PS K+YP+YY+V
Sbjct: 510 YVCEDGRQPMLMFMEKPSKKLYPDYYQV 537

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380016641|ref|XP_003692286.1| PREDICTED: protein polybromo-1-like [Apis florea]

 Score =  404 bits (1039), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 262/621 (42%), Positives = 359/621 (57%), Gaps = 112/621 (18%)

Query: 60  MGKRRRASSL-TRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKED 118
           M KRRR SS+ +R  +DD D      + P   T+ +RKK+DPSD  QQ+YDV+RN K+ED
Sbjct: 1   MNKRRRTSSVASRGTEDDAD------DIPPEPTK-RRKKLDPSDLCQQLYDVLRNQKRED 53

Query: 119 GALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNP 178
           G LLCD FIR+PK+RQEP Y++VVTN                                 P
Sbjct: 54  GTLLCDAFIRVPKRRQEPGYYDVVTN---------------------------------P 80

Query: 179 IDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL 238
           ID +K+QQKL+TDEY D+ D  ADI+L+V NAK FY R S E++DA EL EL  +T+N++
Sbjct: 81  IDLLKVQQKLRTDEYRDMDDLAADIQLMVNNAKAFYMRTSPEYKDATELWELCINTKNRI 140

Query: 239 LNPQSHEGTSQKRSMDFMMA-------SETEDSRDSSICT----EDEQNQCEDLFNAVMT 287
           +  + +E +  K  +   +        ++ ED+ D+S  +    E+   Q EDLF A+MT
Sbjct: 141 M--EEYEDSEPKGKLILKVGRLARKATTKQEDAEDTSESSTNPDEETMQQFEDLFAAIMT 198

Query: 288 STDA--DSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLI 345
           +TD   ++RPLH +FQL PSKK YPEYYDVI+ P+DL+T+AR+IQ+G Y S+ DMEKDL+
Sbjct: 199 ATDPADNNRPLHTMFQLKPSKKLYPEYYDVIETPVDLKTVARKIQEGVYNSITDMEKDLM 258

Query: 346 LMTKNACTFNEPGSQIYKDAKALKKLV--QTKKMEIEQGKFTP--AGKSERIRSKRIRG- 400
           LM +NAC FNEPGSQIYKDAK LKK++    +K +I      P  A  +   RSKR    
Sbjct: 259 LMCRNACQFNEPGSQIYKDAKLLKKIITAAARKQDIGLSSAVPKIATTAPSTRSKRGSRT 318

Query: 401 -GQSLSAITAALESEDDESEDDEEIDQEDPN--SPLWQVYDAIRNA-KTQGVIFFFFGVT 456
             QSL A TA L  ED+ES+D+EE   E     +P WQ++  IR A   QGV        
Sbjct: 319 MAQSLIAQTATLPDEDEESDDEEEEPAETEEADNPQWQLFQTIRTAPNNQGV-------- 370

Query: 457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLR 516
                                   ++S  F +LPS+  YPDYY+ I+ P+ +  I +K++
Sbjct: 371 ------------------------RMSEYFWKLPSKRLYPDYYKTIKNPISLLQIRTKIK 406

Query: 517 YNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLRE-DEDSVPDV 575
             +Y  + E+  D   MF+NA KYN   S +YK A+ LQ+I+ +    L E D+DS  D 
Sbjct: 407 KGEYGTVSEVAGDMNIMFENAKKYNIHTSRLYKCAVKLQKIMQEKVQELLEFDQDSDSD- 465

Query: 576 PAAVQELLTSLFTSVYNHQKQCLGSFHVLN----VDNKPLKRRLYTLCKCLMDYRDQDGR 631
                    S F +  +  K    + ++L      DN PLK+RLY L KC+++Y  +DGR
Sbjct: 466 ---------SEFENSSHQPKLIKRASNLLTRGKYKDNIPLKKRLYALVKCVIEYVCEDGR 516

Query: 632 QPMLMFMELPSAKIYPEYYKV 652
           QPMLMFME PS K+YP+YY+V
Sbjct: 517 QPMLMFMEKPSKKLYPDYYQV 537

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

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	653
FB|FBgn0039227	1654	polybromo "polybromo" [Drosoph	0.390	0.154	0.478	2.4e-98
RGD|1565549	1704	Pbrm1 "polybromo 1" [Rattus no	0.704	0.269	0.333	1e-81
UNIPROTKB|E2RRR3	1635	PBRM1 "Uncharacterized protein	0.702	0.280	0.335	3.5e-80
UNIPROTKB|E2RRL7	1689	PBRM1 "Uncharacterized protein	0.702	0.271	0.335	4e-80
UNIPROTKB|H0Y5B5	1085	PBRM1 "Protein polybromo-1" [H	0.721	0.434	0.327	4e-80
UNIPROTKB|E7EVG2	1461	PBRM1 "Protein polybromo-1" [H	0.702	0.314	0.331	7.3e-80
MGI|MGI:1923998	1634	Pbrm1 "polybromo 1" [Mus muscu	0.684	0.273	0.343	1.2e-79
UNIPROTKB|Q86U86	1689	PBRM1 "Protein polybromo-1" [H	0.702	0.271	0.331	1.4e-79
UNIPROTKB|E1BNH8	1664	E1BNH8 "Uncharacterized protei	0.701	0.275	0.331	2.1e-79
ZFIN|ZDB-GENE-010501-3	1648	pbrm1l "polybromo 1, like" [Da	0.586	0.232	0.370	1.7e-78

FB|FBgn0039227 polybromo "polybromo" [Drosophila melanogaster (taxid:7227)]

 Score = 584 (210.6 bits), Expect = 2.4e-98, Sum P(2) = 2.4e-98
 Identities = 132/276 (47%), Positives = 172/276 (62%)

Query:   174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
             VV NPID +K+QQKLKTD YDDL D  AD+ELL+ NAK FY   S EH+DA  L +  HS
Sbjct:    89 VVVNPIDLLKVQQKLKTDSYDDLDDLMADLELLIGNAKAFYIPGSSEHQDAVSLWQHIHS 148

Query:   234 TRNKLLNPQS---HEGTSQKRSMDFM-MASETEDSRDSSICTEDEQNQCEDLFNAVMTST 289
              R +++        E  +++ S     M S TE   D +  T+DE NQ E+LF +VMT+T
Sbjct:   149 QRQRIMEANGLAEEEPRARRMSRQVRRMTSSTEPGGDGA--TDDEYNQYEELFASVMTAT 206

Query:   290 D-ADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMT 348
             D    R +H +FQLLPSKK YP+YYDVI+ PIDLR IA +IQ   Y+SL +ME+DL+ MT
Sbjct:   207 DPVGDRLMHRMFQLLPSKKIYPDYYDVIEHPIDLRLIATKIQMNAYSSLAEMERDLLQMT 266

Query:   349 KNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLS-AI 407
             KNAC FNEPGSQIYKDAK+LK++   +++E+E GK    GK     +KR++   SLS A 
Sbjct:   267 KNACLFNEPGSQIYKDAKSLKRIFTQRRIELEMGK----GKL----AKRVK---SLSSAA 315

Query:   408 TAALXXXXXXXXXXXXXXXXXPNSPLWQVYDAIRNA 443
              AAL                    P+W ++D + NA
Sbjct:   316 IAALKEEVDSSDDEETSKKG--EGPMWALFDHLYNA 349

GO:0003677 "DNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005700 "polytene chromosome" evidence=IDA

GO:0031936 "negative regulation of chromatin silencing" evidence=IGI

GO:0007480 "imaginal disc-derived leg morphogenesis" evidence=IGI

GO:0007306 "eggshell chorion assembly" evidence=IMP

GO:0007305 "vitelline membrane formation involved in chorion-containing eggshell formation" evidence=IMP

RGD|1565549 Pbrm1 "polybromo 1" [Rattus norvegicus (taxid:10116)]

 Score = 640 (230.4 bits), Expect = 1.0e-81, Sum P(2) = 1.0e-81
 Identities = 170/509 (33%), Positives = 267/509 (52%)

Query:   174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
             VV+ PID +KIQQKLK +EYDD++   AD +LL  NAK +YK +S E++ A +L +L+  
Sbjct:    87 VVSQPIDLMKIQQKLKMEEYDDINLLTADFQLLFNNAKAYYKPDSPEYKAACKLWDLYLR 146

Query:   234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADS 293
             TRN+ +  Q  E   +    D     + + +          +   E L  A++ +T+   
Sbjct:   147 TRNEFV--QKGEADDEDDDED---GQDNQGTMADGSSPGYLKEILEQLLEAIVVATNPSG 201

Query:   294 RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT 353
             R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ+G Y S+  M KD+ L+ KNA T
Sbjct:   202 RLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKT 261

Query:   354 FNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALXX 413
             +NEPGSQ++KDA ++KK+   KK EIE  + T   KS    S RIR   +L+A  A L  
Sbjct:   262 YNEPGSQVFKDANSIKKIFYMKKAEIEHHEMT---KS----SLRIRTATNLAA--ARLTG 312

Query:   414 XXXXXXXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFF-FG--------VTAASLQK-- 462
                            P S  ++   A++  +   +     +G        + AA  ++  
Sbjct:   313 PSHNKSSLDEERN--PTSKCYRNKRAVQGGRLSAITMALQYGSESEEDAALAAARYEEGE 370

Query:   463 ---------MRI------LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVD 507
                      M +      LY+T++ +C    G+ ++  F  LPS+  YPDYY+ I+ P+ 
Sbjct:   371 SEAESITSFMDVSNPFHQLYDTVR-SCRNNQGQLIAEPFFHLPSKKKYPDYYQQIKMPIS 429

Query:   508 MEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLRE 567
             ++ I +KL+  +YE LD +  D   MF+NA +YN P+S IYK  L LQ+++   K  L  
Sbjct:   430 LQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELAR 489

Query:   568 DEDSVPDVPAAVQELLTSLFTSVYN---HQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMD 624
              +D + D  + +    +   ++      H  + LG    L+      K+R+  L   +++
Sbjct:   490 RDD-IEDGDSMISSATSDTGSAKRKRNTHDSEMLG-LRRLSSKKNIRKQRMKILFNVVLE 547

Query:   625 YRDQ-DGRQPMLMFMELPSAKIYPEYYKV 652
              R+   GR+   +FM  PS K YP+YYK+
Sbjct:   548 AREPGSGRRLCDLFMVKPSKKDYPDYYKI 576

GO:0000776 "kinetochore" evidence=IEA;ISO

GO:0001890 "placenta development" evidence=IEA;ISO

GO:0003674 "molecular_function" evidence=ND

GO:0003677 "DNA binding" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA;ISO

GO:0005575 "cellular_component" evidence=ND

GO:0007507 "heart development" evidence=IEA;ISO

GO:0008150 "biological_process" evidence=ND

GO:0008285 "negative regulation of cell proliferation" evidence=IEA;ISO

UNIPROTKB|E2RRR3 PBRM1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 626 (225.4 bits), Expect = 3.5e-80, Sum P(2) = 3.5e-80
 Identities = 166/495 (33%), Positives = 254/495 (51%)

Query:   174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
             VV+ PID +KIQQKLK +EYDD++   AD +LL  NAK +YK +S E++ A +L +L+  
Sbjct:    87 VVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKAYYKPDSPEYKAACKLWDLYLR 146

Query:   234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADS 293
             TRN+ +     +             + TE S  S +     +   E L  A++ +T+   
Sbjct:   147 TRNEFVQKGEADDEDDDEDGQDNQGTVTEGSSPSYL-----KEILEQLLEAIVVATNPSG 201

Query:   294 RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT 353
             R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ+G Y S+  M KD+ L+ KNA T
Sbjct:   202 RLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKT 261

Query:   354 FNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSK----RIRGGQ----SLS 405
             +NEPGSQ++KDA ++KK+   KK EIE  + T +    R  S     R+ G      SL 
Sbjct:   262 YNEPGSQVFKDANSIKKIFYMKKAEIEHHEMTKSSLRMRTPSNLAAARLTGPSHSKGSLG 321

Query:   406 AITAALXXXXXXXXXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQK-MR 464
                                        L    ++  +A      +      A S+   M 
Sbjct:   322 EERNPTSKYYRNKRTVQGGRLSAITMALQYGSESEEDAALAAARYEEGESEAESITSFMD 381

Query:   465 I------LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYN 518
             +      LY+T++ +C    G+ ++  F  LPS+  YPDYY+ I+ P+ ++ I +KL+  
Sbjct:   382 VSNPFYQLYDTVR-SCRNNQGQLIAEPFFHLPSKKKYPDYYQQIKMPISLQQIRTKLKNQ 440

Query:   519 QYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAA 578
             +YE LD +  D   MF+NA +YN P+S IYK  L LQ+++   K  L   +D + D  + 
Sbjct:   441 EYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARRDD-IEDGDSM 499

Query:   579 VQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQ-DGRQPMLMF 637
             +    TS   S     K+        N+     K+R+  L   +++ R+   GR+   +F
Sbjct:   500 ISSA-TSDAGSAKRKSKK--------NIR----KQRMKILFNVVLEAREPGSGRRLCDLF 546

Query:   638 MELPSAKIYPEYYKV 652
             M  PS K YP+YYK+
Sbjct:   547 MVKPSKKDYPDYYKI 561

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|E2RRL7 PBRM1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 626 (225.4 bits), Expect = 4.0e-80, Sum P(2) = 4.0e-80
 Identities = 166/495 (33%), Positives = 254/495 (51%)

Query:   174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
             VV+ PID +KIQQKLK +EYDD++   AD +LL  NAK +YK +S E++ A +L +L+  
Sbjct:    87 VVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKAYYKPDSPEYKAACKLWDLYLR 146

Query:   234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADS 293
             TRN+ +     +             + TE S  S +     +   E L  A++ +T+   
Sbjct:   147 TRNEFVQKGEADDEDDDEDGQDNQGTVTEGSSPSYL-----KEILEQLLEAIVVATNPSG 201

Query:   294 RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT 353
             R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ+G Y S+  M KD+ L+ KNA T
Sbjct:   202 RLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKT 261

Query:   354 FNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSK----RIRGGQ----SLS 405
             +NEPGSQ++KDA ++KK+   KK EIE  + T +    R  S     R+ G      SL 
Sbjct:   262 YNEPGSQVFKDANSIKKIFYMKKAEIEHHEMTKSSLRMRTPSNLAAARLTGPSHSKGSLG 321

Query:   406 AITAALXXXXXXXXXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQK-MR 464
                                        L    ++  +A      +      A S+   M 
Sbjct:   322 EERNPTSKYYRNKRTVQGGRLSAITMALQYGSESEEDAALAAARYEEGESEAESITSFMD 381

Query:   465 I------LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYN 518
             +      LY+T++ +C    G+ ++  F  LPS+  YPDYY+ I+ P+ ++ I +KL+  
Sbjct:   382 VSNPFYQLYDTVR-SCRNNQGQLIAEPFFHLPSKKKYPDYYQQIKMPISLQQIRTKLKNQ 440

Query:   519 QYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAA 578
             +YE LD +  D   MF+NA +YN P+S IYK  L LQ+++   K  L   +D + D  + 
Sbjct:   441 EYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARRDD-IEDGDSM 499

Query:   579 VQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQ-DGRQPMLMF 637
             +    TS   S     K+        N+     K+R+  L   +++ R+   GR+   +F
Sbjct:   500 ISSA-TSDAGSAKRKSKK--------NIR----KQRMKILFNVVLEAREPGSGRRLCDLF 546

Query:   638 MELPSAKIYPEYYKV 652
             M  PS K YP+YYK+
Sbjct:   547 MVKPSKKDYPDYYKI 561

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|H0Y5B5 PBRM1 "Protein polybromo-1" [Homo sapiens (taxid:9606)]

 Score = 638 (229.6 bits), Expect = 4.0e-80, Sum P(2) = 4.0e-80
 Identities = 163/498 (32%), Positives = 256/498 (51%)

Query:   174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
             VV+ PID +KIQQKLK +EYDD++   AD +LL  NAK++YK +S E++ A +L +L+  
Sbjct:    31 VVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLR 90

Query:   234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADS 293
             TRN+ +     +             + TE S  + +     +   E L  A++ +T+   
Sbjct:    91 TRNEFVQKGEADDEDDDEDGQDNQGTVTEGSSPAYL-----KEILEQLLEAIVVATNPSG 145

Query:   294 RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT 353
             R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ+G Y S+  M KD+ L+ KNA T
Sbjct:   146 RLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKT 205

Query:   354 FNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSK----RIRGGQ----SLS 405
             +NEPGSQ++KDA ++KK+   KK EIE  +   +    R  S     R+ G      SL 
Sbjct:   206 YNEPGSQVFKDANSIKKIFYMKKAEIEHHEMAKSSLRMRTPSNLAAARLTGPSHSKGSLG 265

Query:   406 AITAALXXXXXXXXXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQK-MR 464
                                        L    ++  +A      +      A S+   M 
Sbjct:   266 EERNPTSKYYRNKRAVQGGRLSAITMALQYGSESEEDAALAAARYEEGESEAESITSFMD 325

Query:   465 I------LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYN 518
             +      LY+T++ +C    G+ ++  F  LPS+  YPDYY+ I+ P+ ++ I +KL+  
Sbjct:   326 VSNPFYQLYDTVR-SCRNNQGQLIAEPFYHLPSKKKYPDYYQQIKMPISLQQIRTKLKNQ 384

Query:   519 QYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAA 578
             +YE LD +  D   MF+NA +YN P+S IYK  L LQ+++   K  L   +D + D  + 
Sbjct:   385 EYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARRDD-IEDGDSM 443

Query:   579 VQELLTSLFTSVYN---HQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQ-DGRQPM 634
             +    +   ++      H  + LG    L+      K+R+  L   +++ R+   GR+  
Sbjct:   444 ISSATSDTGSAKRKRNTHDSEMLG-LRRLSSKKNIRKQRMKILFNVVLEAREPGSGRRLC 502

Query:   635 LMFMELPSAKIYPEYYKV 652
              +FM  PS K YP+YYK+
Sbjct:   503 DLFMVKPSKKDYPDYYKI 520

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|E7EVG2 PBRM1 "Protein polybromo-1" [Homo sapiens (taxid:9606)]

 Score = 621 (223.7 bits), Expect = 7.3e-80, Sum P(2) = 7.3e-80
 Identities = 164/495 (33%), Positives = 254/495 (51%)

Query:   174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
             VV+ PID +KIQQKLK +EYDD++   AD +LL  NAK++YK +S E++ A +L +L+  
Sbjct:    87 VVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLR 146

Query:   234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADS 293
             TRN+ +     +             + TE S  + +     +   E L  A++ +T+   
Sbjct:   147 TRNEFVQKGEADDEDDDEDGQDNQGTVTEGSSPAYL-----KEILEQLLEAIVVATNPSG 201

Query:   294 RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT 353
             R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ+G Y S+  M KD+ L+ KNA T
Sbjct:   202 RLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKT 261

Query:   354 FNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSK----RIRGGQ----SLS 405
             +NEPGSQ++KDA ++KK+   KK EIE  +   +    R  S     R+ G      SL 
Sbjct:   262 YNEPGSQVFKDANSIKKIFYMKKAEIEHHEMAKSSLRMRTPSNLAAARLTGPSHSKGSLG 321

Query:   406 AITAALXXXXXXXXXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQK-MR 464
                                        L    ++  +A      +      A S+   M 
Sbjct:   322 EERNPTSKYYRNKRAVQGGRLSAITMALQYGSESEEDAALAAARYEEGESEAESITSFMD 381

Query:   465 I------LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYN 518
             +      LY+T++ +C    G+ ++  F  LPS+  YPDYY+ I+ P+ ++ I +KL+  
Sbjct:   382 VSNPFYQLYDTVR-SCRNNQGQLIAEPFYHLPSKKKYPDYYQQIKMPISLQQIRTKLKNQ 440

Query:   519 QYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAA 578
             +YE LD +  D   MF+NA +YN P+S IYK  L LQ+++   K  L   +D + D  + 
Sbjct:   441 EYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARRDD-IEDGDSM 499

Query:   579 VQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQ-DGRQPMLMF 637
             +    TS   S     K+        N+     K+R+  L   +++ R+   GR+   +F
Sbjct:   500 ISSA-TSDTGSAKRKSKK--------NIR----KQRMKILFNVVLEAREPGSGRRLCDLF 546

Query:   638 MELPSAKIYPEYYKV 652
             M  PS K YP+YYK+
Sbjct:   547 MVKPSKKDYPDYYKI 561

GO:0003677 "DNA binding" evidence=IEA

MGI|MGI:1923998 Pbrm1 "polybromo 1" [Mus musculus (taxid:10090)]

 Score = 621 (223.7 bits), Expect = 1.2e-79, Sum P(2) = 1.2e-79
 Identities = 174/507 (34%), Positives = 264/507 (52%)

Query:   174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
             VV+ PID +KIQQKLK +EYDD++   AD +LL  NAK +YK +S E++ A +L +L+  
Sbjct:    87 VVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKAYYKPDSPEYKAACKLWDLYLR 146

Query:   234 TRNKLLNPQSHEGTSQKRSMDFMMASET-EDSRDSSICTEDEQNQCEDLFNAVMTSTDAD 292
             TRN+ +  Q  E   +    D      T  D        E      E L  A++ +T+  
Sbjct:   147 TRNEFV--QKGEADDEDDDEDGQDNQGTLADGSSPGYLKEI----LEQLLEAIVVATNPS 200

Query:   293 SRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC 352
              R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ+G Y S+  M KD+ L+ KNA 
Sbjct:   201 GRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAK 260

Query:   353 TFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALX 412
             T+NEPGSQ++KDA ++KK+   KK EIE  + T   KS    S RIR   +L+A  A L 
Sbjct:   261 TYNEPGSQVFKDANSIKKIFYMKKAEIEHHEMT---KS----SLRIRTASNLAA--ARLT 311

Query:   413 XXXXXXXXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFF-FG--------VTAASLQK- 462
                             P S  ++   A++  +   +     +G        + AA  ++ 
Sbjct:   312 GPSHNKSSLGEERN--PTSKYYRNKRAVQGGRLSAITMALQYGSESEEDAALAAARYEEG 369

Query:   463 ----------MRI------LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPV 506
                       M +      LY+T++ +C    G+ ++  F  LPS+  YPDYY+ I+ P+
Sbjct:   370 ESEAESITSFMDVSNPFHQLYDTVR-SCRNHQGQLIAEPFFHLPSKKKYPDYYQQIKMPI 428

Query:   507 DMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLR 566
              ++ I +KL+  +YE LD +  D   MF+NA +YN P+S IYK  L LQ+++   K  L 
Sbjct:   429 SLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELA 488

Query:   567 EDEDSVPDVPAAVQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYR 626
               +D + D  + +    TS   S     K+        N+     K+R+  L   +++ R
Sbjct:   489 RRDD-IEDGDSMISSA-TSDTGSAKRKSKK--------NIR----KQRMKILFNVVLEAR 534

Query:   627 DQ-DGRQPMLMFMELPSAKIYPEYYKV 652
             +   GR+   +FM  PS K YP+YYK+
Sbjct:   535 EPGSGRRLCDLFMVKPSKKDYPDYYKI 561

GO:0000776 "kinetochore" evidence=IDA

GO:0001890 "placenta development" evidence=IMP

GO:0001974 "blood vessel remodeling" evidence=TAS

GO:0003007 "heart morphogenesis" evidence=TAS

GO:0003349 "epicardium-derived cardiac endothelial cell differentiation" evidence=TAS

GO:0003677 "DNA binding" evidence=IEA

GO:0003682 "chromatin binding" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IC

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

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

GO:0007507 "heart development" evidence=IMP

GO:0008285 "negative regulation of cell proliferation" evidence=ISO

GO:0016568 "chromatin modification" evidence=IEA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=TAS

GO:0060948 "cardiac vascular smooth muscle cell development" evidence=TAS

GO:0060979 "vasculogenesis involved in coronary vascular morphogenesis" evidence=TAS

UNIPROTKB|Q86U86 PBRM1 "Protein polybromo-1" [Homo sapiens (taxid:9606)]

 Score = 621 (223.7 bits), Expect = 1.4e-79, Sum P(2) = 1.4e-79
 Identities = 164/495 (33%), Positives = 254/495 (51%)

Query:   174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
             VV+ PID +KIQQKLK +EYDD++   AD +LL  NAK++YK +S E++ A +L +L+  
Sbjct:    87 VVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLR 146

Query:   234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADS 293
             TRN+ +     +             + TE S  + +     +   E L  A++ +T+   
Sbjct:   147 TRNEFVQKGEADDEDDDEDGQDNQGTVTEGSSPAYL-----KEILEQLLEAIVVATNPSG 201

Query:   294 RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT 353
             R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ+G Y S+  M KD+ L+ KNA T
Sbjct:   202 RLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKT 261

Query:   354 FNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSK----RIRGGQ----SLS 405
             +NEPGSQ++KDA ++KK+   KK EIE  +   +    R  S     R+ G      SL 
Sbjct:   262 YNEPGSQVFKDANSIKKIFYMKKAEIEHHEMAKSSLRMRTPSNLAAARLTGPSHSKGSLG 321

Query:   406 AITAALXXXXXXXXXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQK-MR 464
                                        L    ++  +A      +      A S+   M 
Sbjct:   322 EERNPTSKYYRNKRAVQGGRLSAITMALQYGSESEEDAALAAARYEEGESEAESITSFMD 381

Query:   465 I------LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYN 518
             +      LY+T++ +C    G+ ++  F  LPS+  YPDYY+ I+ P+ ++ I +KL+  
Sbjct:   382 VSNPFYQLYDTVR-SCRNNQGQLIAEPFYHLPSKKKYPDYYQQIKMPISLQQIRTKLKNQ 440

Query:   519 QYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAA 578
             +YE LD +  D   MF+NA +YN P+S IYK  L LQ+++   K  L   +D + D  + 
Sbjct:   441 EYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARRDD-IEDGDSM 499

Query:   579 VQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQ-DGRQPMLMF 637
             +    TS   S     K+        N+     K+R+  L   +++ R+   GR+   +F
Sbjct:   500 ISSA-TSDTGSAKRKSKK--------NIR----KQRMKILFNVVLEAREPGSGRRLCDLF 546

Query:   638 MELPSAKIYPEYYKV 652
             M  PS K YP+YYK+
Sbjct:   547 MVKPSKKDYPDYYKI 561

GO:0003677 "DNA binding" evidence=IEA

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

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

GO:0000776 "kinetochore" evidence=IEA

GO:0001890 "placenta development" evidence=IEA

GO:0007507 "heart development" evidence=IEA

GO:0006338 "chromatin remodeling" evidence=TAS

GO:0003682 "chromatin binding" evidence=NAS

GO:0007067 "mitosis" evidence=TAS

GO:0000228 "nuclear chromosome" evidence=NAS

GO:0008285 "negative regulation of cell proliferation" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|E1BNH8 E1BNH8 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 619 (223.0 bits), Expect = 2.1e-79, Sum P(2) = 2.1e-79
 Identities = 164/495 (33%), Positives = 254/495 (51%)

Query:   174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
             VV+ PID +KIQQKLK +EYDD++   AD +LL  NAK +YK +S E++ A +L +L+  
Sbjct:    87 VVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKAYYKPDSPEYKAACKLWDLYLR 146

Query:   234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADS 293
             TRN+ +     +             + TE S    +     +   E L  A++ +T+   
Sbjct:   147 TRNEFVQKGEADDEDDDEDGQDSQGAVTEGSSPGYL-----KEILEQLLEAIVVATNPSG 201

Query:   294 RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT 353
             R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ+G Y S+  M KD+ L+ KNA T
Sbjct:   202 RLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKT 261

Query:   354 FNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAG----KSERIRSKRIRGGQ----SLS 405
             +NEPGSQ++KDA ++KK+   KK EIE  + T +      S  + + R+ G      SL 
Sbjct:   262 YNEPGSQVFKDANSIKKIFYMKKAEIEH-EMTKSSLRMRTSSNLAATRLTGPSHSKGSLG 320

Query:   406 AITAALXXXXXXXXXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQK-MR 464
                                        L    ++  +A      +      A S+   M 
Sbjct:   321 EERNPTSKYYRNKRAVQGGRLSAITMALQYGSESEEDAALAAARYEEGESEAESITSFMD 380

Query:   465 I------LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYN 518
             +      LY+T++ +C    G+ ++  F  LPS+  YPDYY+ I+ P+ ++ I +KL+  
Sbjct:   381 VSNPFYQLYDTVR-SCRNNQGQLIAEPFFHLPSKKKYPDYYQQIKTPISLQQIRTKLKNQ 439

Query:   519 QYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAA 578
             +YE LD +  D   MF+NA +YN P+S IYK  L LQ+++   K  L   +D + D  + 
Sbjct:   440 EYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARRDD-IEDGDSM 498

Query:   579 VQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQ-DGRQPMLMF 637
             +    TS   S     K+        N+     K+R+  L   +++ R+   GR+   +F
Sbjct:   499 ISSA-TSDTGSAKRKSKK--------NIR----KQRMKILFNVVLEAREPGSGRRLCDLF 545

Query:   638 MELPSAKIYPEYYKV 652
             M  PS K YP+YYK+
Sbjct:   546 MVKPSKKDYPDYYKI 560

GO:0008285 "negative regulation of cell proliferation" evidence=IEA

GO:0007507 "heart development" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0001890 "placenta development" evidence=IEA

GO:0000776 "kinetochore" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

ZFIN|ZDB-GENE-010501-3 pbrm1l "polybromo 1, like" [Danio rerio (taxid:7955)]

 Score = 629 (226.5 bits), Expect = 1.7e-78, Sum P(2) = 1.7e-78
 Identities = 159/429 (37%), Positives = 235/429 (54%)

Query:   174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
             +V+ PID +KIQQKL+ +EY D+  F AD  LL+ N K +Y+ +S EHR A +L+ +F S
Sbjct:    86 IVSQPIDMMKIQQKLRAEEYQDVEQFSADFHLLINNTKAYYQADSAEHRAASKLLNVFLS 145

Query:   234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQC------EDLFNAVMT 287
              +N+LL  Q  +G  ++   D     E+ED+ +++   E+E+         E L  A+ +
Sbjct:   146 AKNELL--QGGDG--EEAEDD----EESEDAENTNASMEEERPPSYLKAILEQLLEAIAS 197

Query:   288 STDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILM 347
              TD+  R + E+FQ LPSK  YP+YY VI  PIDLR +A++IQ G Y S+  M KD+ L+
Sbjct:   198 CTDSSGRLVSELFQKLPSKLHYPDYYAVIKEPIDLRAVAQKIQGGHYKSISAMAKDIDLL 257

Query:   348 TKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIR-----------SK 396
              KNA T+NEPGSQ++KDA  +KK+   +K+EIEQ +  P   S RIR           ++
Sbjct:   258 VKNAKTYNEPGSQVFKDANTIKKVFAQRKIEIEQAE--PTKTSLRIRQFFFSLKCFARNR 315

Query:   397 RIRGGQSLSAITAALXXXXXXXXXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFFFGVT 456
             R   G  LSAIT AL                         YD     +T+       G++
Sbjct:   316 RSAQGDRLSAITMALQAGSESDEDSILTGTVR--------YDT---GETEADC----GLS 360

Query:   457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLR 516
             A     + +LY  ++     + G  LS  F +LPSR +YPDYY  I+ P+ ++ I  K++
Sbjct:   361 AGD--PILLLYQAVRGARSVQ-GLLLSEPFLQLPSRREYPDYYHQIKNPISLQQIREKMK 417

Query:   517 YNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVP 576
                YE ++++ AD   MF+NA +YN P+S IYK A  LQ I+ Q K     D+D   DV 
Sbjct:   418 NGDYEAVEQIEADLSVMFENARRYNMPNSTIYKRAQRLQLIMQQQKKREFRDDDE-GDVS 476

Query:   577 AAVQELLTS 585
              A  ++ +S
Sbjct:   477 TANSDVGSS 485

GO:0003677 "DNA binding" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

---

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 EFICAz Software

No EC number assignment, probably not an enzyme!

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	653
cd05515	105	cd05515, Bromo_polybromo_V, Bromodomain, polybromo	1e-46
cd05517	103	cd05517, Bromo_polybromo_II, Bromodomain, polybrom	4e-45
cd05524	113	cd05524, Bromo_polybromo_I, Bromodomain, polybromo	1e-41
cd05515	105	cd05515, Bromo_polybromo_V, Bromodomain, polybromo	1e-29
cd05520	103	cd05520, Bromo_polybromo_III, Bromodomain, polybro	7e-28
smart00297	107	smart00297, BROMO, bromo domain	2e-26
smart00297	107	smart00297, BROMO, bromo domain	3e-26
cd05516	107	cd05516, Bromo_SNF2L2, Bromodomain, SNF2L2-like su	9e-26
cd05520	103	cd05520, Bromo_polybromo_III, Bromodomain, polybro	2e-24
cd04369	99	cd04369, Bromodomain, Bromodomain	2e-24
cd05518	103	cd05518, Bromo_polybromo_IV, Bromodomain, polybrom	4e-24
cd04369	99	cd04369, Bromodomain, Bromodomain	1e-23
cd05518	103	cd05518, Bromo_polybromo_IV, Bromodomain, polybrom	2e-23
cd05517	103	cd05517, Bromo_polybromo_II, Bromodomain, polybrom	1e-22
cd05519	103	cd05519, Bromo_SNF2, Bromodomain, SNF2-like subfam	2e-22
cd05519	103	cd05519, Bromo_SNF2, Bromodomain, SNF2-like subfam	1e-21
cd05522	104	cd05522, Bromo_Rsc1_2_II, Bromodomain, repeat II i	4e-20
cd05516	107	cd05516, Bromo_SNF2L2, Bromodomain, SNF2L2-like su	1e-19
cd05524	113	cd05524, Bromo_polybromo_I, Bromodomain, polybromo	9e-19
cd05521	106	cd05521, Bromo_Rsc1_2_I, Bromodomain, repeat I in	1e-18
pfam00439	84	pfam00439, Bromodomain, Bromodomain	2e-18
pfam00439	84	pfam00439, Bromodomain, Bromodomain	9e-18
cd05524	113	cd05524, Bromo_polybromo_I, Bromodomain, polybromo	1e-17
COG5076	371	COG5076, COG5076, Transcription factor involved in	7e-17
smart00297	107	smart00297, BROMO, bromo domain	1e-16
cd05509	101	cd05509, Bromo_gcn5_like, Bromodomain; Gcn5_like s	2e-16
cd05520	103	cd05520, Bromo_polybromo_III, Bromodomain, polybro	6e-16
cd05522	104	cd05522, Bromo_Rsc1_2_II, Bromodomain, repeat II i	7e-16
cd05521	106	cd05521, Bromo_Rsc1_2_I, Bromodomain, repeat I in	3e-15
COG5076	371	COG5076, COG5076, Transcription factor involved in	6e-15
cd04369	99	cd04369, Bromodomain, Bromodomain	1e-14
cd05522	104	cd05522, Bromo_Rsc1_2_II, Bromodomain, repeat II i	1e-14
cd05498	102	cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_lik	2e-14
cd05499	102	cd05499, Bromo_BDF1_2_II, Bromodomain	3e-14
cd05516	107	cd05516, Bromo_SNF2L2, Bromodomain, SNF2L2-like su	1e-13
cd05525	106	cd05525, Bromo_ASH1, Bromodomain; ASH1_like sub-fa	2e-13
cd05515	105	cd05515, Bromo_polybromo_V, Bromodomain, polybromo	4e-13
cd05509	101	cd05509, Bromo_gcn5_like, Bromodomain; Gcn5_like s	5e-13
cd05500	103	cd05500, Bromo_BDF1_2_I, Bromodomain	1e-12
cd05504	115	cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like o	1e-12
pfam00439	84	pfam00439, Bromodomain, Bromodomain	2e-12
COG5076	371	COG5076, COG5076, Transcription factor involved in	2e-12
cd05525	106	cd05525, Bromo_ASH1, Bromodomain; ASH1_like sub-fa	2e-12
cd05502	109	cd05502, Bromo_tif1_like, Bromodomain; tif1_like s	1e-11
cd05518	103	cd05518, Bromo_polybromo_IV, Bromodomain, polybrom	2e-11
cd05500	103	cd05500, Bromo_BDF1_2_I, Bromodomain	4e-11
cd05502	109	cd05502, Bromo_tif1_like, Bromodomain; tif1_like s	1e-10
cd05497	107	cd05497, Bromo_Brdt_I_like, Bromodomain, Brdt_like	1e-10
cd05504	115	cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like o	5e-10
cd05513	98	cd05513, Bromo_brd7_like, Bromodomain, brd7_like s	8e-10
cd05506	99	cd05506, Bromo_plant1, Bromodomain, uncharacterize	8e-10
cd05498	102	cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_lik	9e-10
cd05519	103	cd05519, Bromo_SNF2, Bromodomain, SNF2-like subfam	1e-09
cd05525	106	cd05525, Bromo_ASH1, Bromodomain; ASH1_like sub-fa	1e-09
cd05495	108	cd05495, Bromo_cbp_like, Bromodomain, cbp_like sub	1e-09
cd05497	107	cd05497, Bromo_Brdt_I_like, Bromodomain, Brdt_like	2e-09
cd05511	112	cd05511, Bromo_TFIID, Bromodomain, TFIID-like subf	2e-09
cd05529	128	cd05529, Bromo_WDR9_I_like, Bromodomain; WDR9 repe	3e-09
cd05511	112	cd05511, Bromo_TFIID, Bromodomain, TFIID-like subf	6e-09
cd05503	97	cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BA	6e-09
cd05517	103	cd05517, Bromo_polybromo_II, Bromodomain, polybrom	1e-08
cd05499	102	cd05499, Bromo_BDF1_2_II, Bromodomain	2e-08
cd05512	98	cd05512, Bromo_brd1_like, Bromodomain; brd1_like s	2e-08
cd05506	99	cd05506, Bromo_plant1, Bromodomain, uncharacterize	3e-08
cd05496	119	cd05496, Bromo_WDR9_II, Bromodomain; WDR9 repeat I	3e-08
cd05510	112	cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like s	3e-08
cd05504	115	cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like o	6e-08
cd05503	97	cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BA	8e-08
cd05509	101	cd05509, Bromo_gcn5_like, Bromodomain; Gcn5_like s	1e-07
cd05495	108	cd05495, Bromo_cbp_like, Bromodomain, cbp_like sub	1e-07
cd05505	97	cd05505, Bromo_WSTF_like, Bromodomain; Williams sy	1e-07
cd05515	105	cd05515, Bromo_polybromo_V, Bromodomain, polybromo	1e-06
cd05504	115	cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like o	2e-06
cd05512	98	cd05512, Bromo_brd1_like, Bromodomain; brd1_like s	2e-06
cd05510	112	cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like s	2e-06
cd05528	112	cd05528, Bromo_AAA, Bromodomain; sub-family co-occ	2e-06
cd05513	98	cd05513, Bromo_brd7_like, Bromodomain, brd7_like s	3e-06
cd05507	104	cd05507, Bromo_brd8_like, Bromodomain, brd8_like s	4e-06
cd05529	128	cd05529, Bromo_WDR9_I_like, Bromodomain; WDR9 repe	5e-06
cd05499	102	cd05499, Bromo_BDF1_2_II, Bromodomain	6e-06
cd05528	112	cd05528, Bromo_AAA, Bromodomain; sub-family co-occ	8e-06
cd05518	103	cd05518, Bromo_polybromo_IV, Bromodomain, polybrom	2e-05
cd05498	102	cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_lik	2e-05
cd05499	102	cd05499, Bromo_BDF1_2_II, Bromodomain	2e-05
cd05511	112	cd05511, Bromo_TFIID, Bromodomain, TFIID-like subf	2e-05
cd05505	97	cd05505, Bromo_WSTF_like, Bromodomain; Williams sy	2e-05
cd05500	103	cd05500, Bromo_BDF1_2_I, Bromodomain	3e-05
cd05510	112	cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like s	3e-05
cd05500	103	cd05500, Bromo_BDF1_2_I, Bromodomain	6e-05
cd05529	128	cd05529, Bromo_WDR9_I_like, Bromodomain; WDR9 repe	8e-05
cd05502	109	cd05502, Bromo_tif1_like, Bromodomain; tif1_like s	1e-04
cd05511	112	cd05511, Bromo_TFIID, Bromodomain, TFIID-like subf	3e-04
cd05512	98	cd05512, Bromo_brd1_like, Bromodomain; brd1_like s	3e-04
cd05507	104	cd05507, Bromo_brd8_like, Bromodomain, brd8_like s	3e-04
cd05519	103	cd05519, Bromo_SNF2, Bromodomain, SNF2-like subfam	6e-04
cd05498	102	cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_lik	6e-04
cd05528	112	cd05528, Bromo_AAA, Bromodomain; sub-family co-occ	6e-04
cd05492	109	cd05492, Bromo_ZMYND11, Bromodomain; ZMYND11_like	6e-04
cd05503	97	cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BA	7e-04
cd05512	98	cd05512, Bromo_brd1_like, Bromodomain; brd1_like s	7e-04
cd05513	98	cd05513, Bromo_brd7_like, Bromodomain, brd7_like s	8e-04
cd05506	99	cd05506, Bromo_plant1, Bromodomain, uncharacterize	8e-04
cd05521	106	cd05521, Bromo_Rsc1_2_I, Bromodomain, repeat I in	9e-04
cd05505	97	cd05505, Bromo_WSTF_like, Bromodomain; Williams sy	0.001
cd05528	112	cd05528, Bromo_AAA, Bromodomain; sub-family co-occ	0.001
cd05513	98	cd05513, Bromo_brd7_like, Bromodomain, brd7_like s	0.002
cd05495	108	cd05495, Bromo_cbp_like, Bromodomain, cbp_like sub	0.002
cd05503	97	cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BA	0.002
cd05505	97	cd05505, Bromo_WSTF_like, Bromodomain; Williams sy	0.002

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

 Score =  159 bits (404), Expect = 1e-46
 Identities = 64/102 (62%), Positives = 84/102 (82%), Gaps = 1/102 (0%)

Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
           QK+  LYN +K   + + GR+LS IF RLPS+ +YPDYY+VI+KP+DME I SK+  NQY
Sbjct: 3   QKLWELYNAVKNYTDGR-GRRLSLIFMRLPSKSEYPDYYDVIKKPIDMEKIRSKIEGNQY 61

Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTK 562
           + LD+MV+DF+ MFDNACKYNEPDS IYKDAL+LQ+++L+TK
Sbjct: 62  QSLDDMVSDFVLMFDNACKYNEPDSQIYKDALTLQKVLLETK 103

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|99948 cd05517, Bromo_polybromo_II, Bromodomain, polybromo repeat II

 Score =  155 bits (393), Expect = 4e-45
 Identities = 63/103 (61%), Positives = 74/103 (71%)

Query: 274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGK 333
            +   E L  AVMT+TD   R + E+FQ LPSK  YP+YY VI  PIDL+TIA+RIQ G 
Sbjct: 1   LKQILEQLLEAVMTATDPSGRLISELFQKLPSKVLYPDYYAVIKEPIDLKTIAQRIQSGY 60

Query: 334 YASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKK 376
           Y S+ DMEKDL LM KNA TFNEPGSQ+YKDA A+KK+   KK
Sbjct: 61  YKSIEDMEKDLDLMVKNAKTFNEPGSQVYKDANAIKKIFTAKK 103

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 =  146 bits (370), Expect = 1e-41
 Identities = 66/141 (46%), Positives = 85/141 (60%), Gaps = 33/141 (23%)

Query: 99  DPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTD 158
           DP    Q++YD IRN+K EDG +LC+ FIR+PK+R EP Y+EVV+NPID +KIQQKL   
Sbjct: 2   DPIAVCQELYDTIRNYKSEDGRILCESFIRVPKRRNEPEYYEVVSNPIDLLKIQQKL--- 58

Query: 159 EYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNS 218
                                         KT+EYDD+ D  AD ELL+ NAK +YK +S
Sbjct: 59  ------------------------------KTEEYDDVDDLTADFELLINNAKAYYKPDS 88

Query: 219 QEHRDAQELMELFHSTRNKLL 239
            EH+DA +L ELF S RN++L
Sbjct: 89  PEHKDACKLWELFLSARNEVL 109

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|99946 cd05515, Bromo_polybromo_V, Bromodomain, polybromo repeat V

 Score =  112 bits (282), Expect = 1e-29
 Identities = 51/105 (48%), Positives = 65/105 (61%)

Query: 274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGK 333
            Q +  +L+NAV   TD   R L  +F  LPSK  YP+YYDVI  PID+  I  +I+  +
Sbjct: 1   MQQKLWELYNAVKNYTDGRGRRLSLIFMRLPSKSEYPDYYDVIKKPIDMEKIRSKIEGNQ 60

Query: 334 YASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKME 378
           Y SL DM  D +LM  NAC +NEP SQIYKDA  L+K++   K E
Sbjct: 61  YQSLDDMVSDFVLMFDNACKYNEPDSQIYKDALTLQKVLLETKRE 105

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|99951 cd05520, Bromo_polybromo_III, Bromodomain, polybromo repeat III

 Score =  107 bits (269), Expect = 7e-28
 Identities = 42/100 (42%), Positives = 65/100 (65%), Gaps = 1/100 (1%)

Query: 463 MRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEH 522
           +  LY+TI+       G+ L+  F +LPS+  YPDYY+ I+ P+ ++ I +KL+  +YE 
Sbjct: 5   LWQLYDTIR-NARNNQGQLLAEPFLKLPSKRKYPDYYQEIKNPISLQQIRTKLKNGEYET 63

Query: 523 LDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTK 562
           L+E+ AD   MF+NA +YN P+S IYKDA  LQ+++   K
Sbjct: 64  LEELEADLNLMFENAKRYNVPNSRIYKDAEKLQKLMQAKK 103

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|197636 smart00297, BROMO, bromo domain

 Score =  103 bits (259), Expect = 2e-26
 Identities = 36/82 (43%), Positives = 51/82 (62%)

Query: 480 RQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACK 539
             LS  F +  SR + PDYY++I+KP+D++ I  KL   +Y  ++E VADF  MF NA  
Sbjct: 22  HPLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSNART 81

Query: 540 YNEPDSHIYKDALSLQRIVLQT 561
           YN PDS +YKDA  L++   + 
Sbjct: 82  YNGPDSEVYKDAKKLEKFFEKK 103

Length = 107

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

 Score =  102 bits (257), Expect = 3e-26
 Identities = 42/104 (40%), Positives = 64/104 (61%), Gaps = 2/104 (1%)

Query: 272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQD 331
              Q + ++L  AV+     DS PL   F    S+K  P+YYD+I  P+DL+TI +++++
Sbjct: 2   PKLQKKLQELLKAVLD--KLDSHPLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLEN 59

Query: 332 GKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTK 375
           GKY+S+ +   D  LM  NA T+N P S++YKDAK L+K  + K
Sbjct: 60  GKYSSVEEFVADFNLMFSNARTYNGPDSEVYKDAKKLEKFFEKK 103

Length = 107

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

 Score =  101 bits (254), Expect = 9e-26
 Identities = 42/95 (44%), Positives = 63/95 (66%)

Query: 277 QCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYAS 336
           +   + + V+   D+D R L EVF  LPS+K  PEYY++I  P+D + I  RI++ KY S
Sbjct: 5   KMNKIVDVVIKYKDSDGRQLAEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRS 64

Query: 337 LGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKL 371
           L D+EKD++L+ +NA TFN  GS IY+D+  L+ +
Sbjct: 65  LEDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSV 99

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|99951 cd05520, Bromo_polybromo_III, Bromodomain, polybromo repeat III

 Score = 97.8 bits (244), Expect = 2e-24
 Identities = 41/96 (42%), Positives = 65/96 (67%)

Query: 281 LFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDM 340
           L++ +  + +   + L E F  LPSK++YP+YY  I  PI L+ I  ++++G+Y +L ++
Sbjct: 8   LYDTIRNARNNQGQLLAEPFLKLPSKRKYPDYYQEIKNPISLQQIRTKLKNGEYETLEEL 67

Query: 341 EKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKK 376
           E DL LM +NA  +N P S+IYKDA+ L+KL+Q KK
Sbjct: 68  EADLNLMFENAKRYNVPNSRIYKDAEKLQKLMQAKK 103

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|99922 cd04369, Bromodomain, Bromodomain

 Score = 97.8 bits (244), Expect = 2e-24
 Identities = 39/101 (38%), Positives = 56/101 (55%), Gaps = 5/101 (4%)

Query: 460 LQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQ 519
            +K+R L + +K     K  R LS  F       + PDYYEVI+ P+D+  I  KL+  +
Sbjct: 2   KKKLRSLLDALK-----KLKRDLSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGE 56

Query: 520 YEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQ 560
           Y+ L+E  AD   +F NA  YN P S IYKDA  L+++  +
Sbjct: 57  YKSLEEFEADVRLIFSNAKTYNGPGSPIYKDAKKLEKLFEK 97

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

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

 Score = 96.7 bits (241), Expect = 4e-24
 Identities = 37/97 (38%), Positives = 62/97 (63%), Gaps = 1/97 (1%)

Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
           ++M  L+  + E  E  +GR+L  +F   PS+ DYPDYY++I +P+D++ I   +R ++Y
Sbjct: 3   KRMLALFLYVLEYRE-GSGRRLCDLFMEKPSKKDYPDYYKIILEPIDLKTIEHNIRNDKY 61

Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRI 557
              +E++ DF  MF NA  YNE  S +Y+DA  L+++
Sbjct: 62  ATEEELMDDFKLMFRNARHYNEEGSQVYEDANILEKV 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 = 103

>gnl|CDD|99922 cd04369, Bromodomain, Bromodomain

 Score = 95.1 bits (237), Expect = 1e-23
 Identities = 40/102 (39%), Positives = 59/102 (57%), Gaps = 4/102 (3%)

Query: 274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGK 333
            + +   L +A+        R L E F      K  P+YY+VI  P+DL TI +++++G+
Sbjct: 1   LKKKLRSLLDALKK----LKRDLSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGE 56

Query: 334 YASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTK 375
           Y SL + E D+ L+  NA T+N PGS IYKDAK L+KL +  
Sbjct: 57  YKSLEEFEADVRLIFSNAKTYNGPGSPIYKDAKKLEKLFEKL 98

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

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

 Score = 94.8 bits (236), Expect = 2e-23
 Identities = 41/96 (42%), Positives = 62/96 (64%)

Query: 281 LFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDM 340
           LF  V+   +   R L ++F   PSKK YP+YY +I  PIDL+TI   I++ KYA+  ++
Sbjct: 8   LFLYVLEYREGSGRRLCDLFMEKPSKKDYPDYYKIILEPIDLKTIEHNIRNDKYATEEEL 67

Query: 341 EKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKK 376
             D  LM +NA  +NE GSQ+Y+DA  L+K+++ K+
Sbjct: 68  MDDFKLMFRNARHYNEEGSQVYEDANILEKVLKEKR 103

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|99948 cd05517, Bromo_polybromo_II, Bromodomain, polybromo repeat II

 Score = 92.5 bits (230), Expect = 1e-22
 Identities = 36/90 (40%), Positives = 59/90 (65%)

Query: 473 TCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQ 532
           T    +GR +S +FQ+LPS+  YPDYY VI++P+D++ IA +++   Y+ +++M  D   
Sbjct: 14  TATDPSGRLISELFQKLPSKVLYPDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDL 73

Query: 533 MFDNACKYNEPDSHIYKDALSLQRIVLQTK 562
           M  NA  +NEP S +YKDA ++++I    K
Sbjct: 74  MVKNAKTFNEPGSQVYKDANAIKKIFTAKK 103

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

 Score = 91.6 bits (228), Expect = 2e-22
 Identities = 40/101 (39%), Positives = 59/101 (58%)

Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKY 334
           +    ++++AV+   D   R L E+F   PSKK YP+YY +I  PI L  I RRI+   Y
Sbjct: 2   KAAMLEIYDAVLNCEDETGRKLSELFLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAY 61

Query: 335 ASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTK 375
            SL +  +D  LM  NA T+N+ GS +Y+DA  ++K  + K
Sbjct: 62  KSLEEFLEDFHLMFANARTYNQEGSIVYEDAVEMEKAFKKK 102

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

 Score = 89.7 bits (223), Expect = 1e-21
 Identities = 35/99 (35%), Positives = 61/99 (61%), Gaps = 1/99 (1%)

Query: 463 MRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEH 522
           M  +Y+ +   CE +TGR+LS +F   PS+  YPDYY +I++P+ ++ I  ++    Y+ 
Sbjct: 5   MLEIYDAV-LNCEDETGRKLSELFLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKS 63

Query: 523 LDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQT 561
           L+E + DF  MF NA  YN+  S +Y+DA+ +++   + 
Sbjct: 64  LEEFLEDFHLMFANARTYNQEGSIVYEDAVEMEKAFKKK 102

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

 Score = 85.4 bits (212), Expect = 4e-20
 Identities = 30/78 (38%), Positives = 49/78 (62%)

Query: 479 GRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNAC 538
           GR L+  F++LP +   P+YY+ I  P+ ++ I  K++  +Y+  D+ + D   MF+NA 
Sbjct: 21  GRLLTLHFEKLPDKAREPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAK 80

Query: 539 KYNEPDSHIYKDALSLQR 556
            YNE DS  YKDA+ L++
Sbjct: 81  LYNENDSQEYKDAVLLEK 98

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

 Score = 84.0 bits (208), Expect = 1e-19
 Identities = 33/80 (41%), Positives = 54/80 (67%)

Query: 478 TGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA 537
            GRQL+ +F +LPSR + P+YYE+IRKPVD + I  ++R ++Y  L+++  D + +  NA
Sbjct: 20  DGRQLAEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNA 79

Query: 538 CKYNEPDSHIYKDALSLQRI 557
             +N   S IY+D++ LQ +
Sbjct: 80  QTFNLEGSLIYEDSIVLQSV 99

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|99954 cd05524, Bromo_polybromo_I, Bromodomain, polybromo repeat I

 Score = 82.0 bits (203), Expect = 9e-19
 Identities = 37/105 (35%), Positives = 61/105 (58%), Gaps = 1/105 (0%)

Query: 466 LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDE 525
           LY+TI+   + + GR L   F R+P R + P+YYEV+  P+D+  I  KL+  +Y+ +D+
Sbjct: 10  LYDTIRNY-KSEDGRILCESFIRVPKRRNEPEYYEVVSNPIDLLKIQQKLKTEEYDDVDD 68

Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDED 570
           + ADF  + +NA  Y +PDS  +KDA  L  + L  +  +    +
Sbjct: 69  LTADFELLINNAKAYYKPDSPEHKDACKLWELFLSARNEVLSGGE 113

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

 Score = 81.6 bits (202), Expect = 1e-18
 Identities = 30/101 (29%), Positives = 53/101 (52%), Gaps = 2/101 (1%)

Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKY 334
             + + L++ + T  + +   +H +F +LP +K YP+YY +I  P+ L T+ +R+    Y
Sbjct: 3   SKKLKPLYDGIYTLKEENGIEIHPIFNVLPLRKDYPDYYKIIKNPLSLNTVKKRLP--HY 60

Query: 335 ASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTK 375
            +  +   DL  +  NA  +N  GS IYK A  L+K +   
Sbjct: 61  TNAQEFVNDLAQIPWNARLYNTKGSVIYKYALILEKYINDV 101

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|215921 pfam00439, Bromodomain, Bromodomain

 Score = 79.8 bits (197), Expect = 2e-18
 Identities = 35/78 (44%), Positives = 47/78 (60%)

Query: 289 TDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMT 348
            D    PL E F      + YP+YY+VI  P+DL TI ++++ GKY SL +  KD+ L+ 
Sbjct: 6   EDLMEHPLAEPFLEPVDPEEYPDYYEVIKEPMDLSTIRQKLKSGKYKSLAEFLKDVELIF 65

Query: 349 KNACTFNEPGSQIYKDAK 366
            NA T+N   S IYKDAK
Sbjct: 66  SNAITYNGEDSDIYKDAK 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|215921 pfam00439, Bromodomain, Bromodomain

 Score = 78.2 bits (193), Expect = 9e-18
 Identities = 33/82 (40%), Positives = 44/82 (53%)

Query: 470 IKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVAD 529
             E  E      L+  F       +YPDYYEVI++P+D+  I  KL+  +Y+ L E + D
Sbjct: 1   CLEILEDLMEHPLAEPFLEPVDPEEYPDYYEVIKEPMDLSTIRQKLKSGKYKSLAEFLKD 60

Query: 530 FIQMFDNACKYNEPDSHIYKDA 551
              +F NA  YN  DS IYKDA
Sbjct: 61  VELIFSNAITYNGEDSDIYKDA 82

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|99954 cd05524, Bromo_polybromo_I, Bromodomain, polybromo repeat I

 Score = 78.9 bits (195), Expect = 1e-17
 Identities = 34/111 (30%), Positives = 59/111 (53%)

Query: 272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQD 331
            D    C++L++ +      D R L E F  +P ++  PEYY+V+  PIDL  I ++++ 
Sbjct: 1   LDPIAVCQELYDTIRNYKSEDGRILCESFIRVPKRRNEPEYYEVVSNPIDLLKIQQKLKT 60

Query: 332 GKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQG 382
            +Y  + D+  D  L+  NA  + +P S  +KDA  L +L  + + E+  G
Sbjct: 61  EEYDDVDDLTADFELLINNAKAYYKPDSPEHKDACKLWELFLSARNEVLSG 111

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

 Score = 82.5 bits (204), Expect = 7e-17
 Identities = 38/81 (46%), Positives = 52/81 (64%)

Query: 475 EPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMF 534
             + GR LS IF  LPS+ +YPDYYE+I+ P+D+  I  KL+  +Y+  +E V+D   MF
Sbjct: 158 FLRDGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMF 217

Query: 535 DNACKYNEPDSHIYKDALSLQ 555
           DN   YN PDS +Y DA  L+
Sbjct: 218 DNCKLYNGPDSSVYVDAKELE 238

Length = 371

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

 Score = 75.8 bits (187), Expect = 1e-16
 Identities = 28/135 (20%), Positives = 60/135 (44%), Gaps = 35/135 (25%)

Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
           +Q++   + +        L  PF++   +++ P Y++++  P+D       LKT      
Sbjct: 8   LQELLKAVLDKLDSH--PLSWPFLKPVSRKEAPDYYDIIKKPMD-------LKT------ 52

Query: 164 SDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRD 223
                               I++KL+  +Y  + +F AD  L+  NA+T+   +S+ ++D
Sbjct: 53  --------------------IKKKLENGKYSSVEEFVADFNLMFSNARTYNGPDSEVYKD 92

Query: 224 AQELMELFHSTRNKL 238
           A++L + F     +L
Sbjct: 93  AKKLEKFFEKKLREL 107

Length = 107

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

 Score = 74.5 bits (184), Expect = 2e-16
 Identities = 28/65 (43%), Positives = 39/65 (60%)

Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDYY+VI+KP+D+  +  KL    Y  L+E VAD   +FDN   YN PD+  YK A  L+
Sbjct: 32  PDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDTEYYKCANKLE 91

Query: 556 RIVLQ 560
           +   +
Sbjct: 92  KFFWK 96

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|99951 cd05520, Bromo_polybromo_III, Bromodomain, polybromo repeat III

 Score = 73.5 bits (181), Expect = 6e-16
 Identities = 41/135 (30%), Positives = 69/135 (51%), Gaps = 33/135 (24%)

Query: 101 SDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEY 160
           S+ + Q+YD IRN +   G LL +PF+++P KR+ P Y++        IK          
Sbjct: 2   SNPLWQLYDTIRNARNNQGQLLAEPFLKLPSKRKYPDYYQE-------IK---------- 44

Query: 161 DDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQE 220
                           NPI   +I+ KLK  EY+ L + +AD+ L+ +NAK +   NS+ 
Sbjct: 45  ----------------NPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYNVPNSRI 88

Query: 221 HRDAQELMELFHSTR 235
           ++DA++L +L  + +
Sbjct: 89  YKDAEKLQKLMQAKK 103

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

 Score = 73.4 bits (181), Expect = 7e-16
 Identities = 36/82 (43%), Positives = 45/82 (54%)

Query: 289 TDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMT 348
            D + R L   F+ LP K R PEYY  I  PI L  I ++++  KY S      DL LM 
Sbjct: 17  RDENGRLLTLHFEKLPDKAREPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMF 76

Query: 349 KNACTFNEPGSQIYKDAKALKK 370
           +NA  +NE  SQ YKDA  L+K
Sbjct: 77  ENAKLYNENDSQEYKDAVLLEK 98

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

 Score = 71.6 bits (176), Expect = 3e-15
 Identities = 37/105 (35%), Positives = 56/105 (53%), Gaps = 3/105 (2%)

Query: 462 KMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYE 521
           K++ LY+ I  T + + G ++  IF  LP R DYPDYY++I+ P+ +  +  K R   Y 
Sbjct: 5   KLKPLYDGIY-TLKEENGIEIHPIFNVLPLRKDYPDYYKIIKNPLSLNTV--KKRLPHYT 61

Query: 522 HLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLR 566
           +  E V D  Q+  NA  YN   S IYK AL L++ +    +   
Sbjct: 62  NAQEFVNDLAQIPWNARLYNTKGSVIYKYALILEKYINDVIIPNL 106

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

 Score = 76.8 bits (189), Expect = 6e-15
 Identities = 44/154 (28%), Positives = 69/154 (44%), Gaps = 9/154 (5%)

Query: 292 DSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNA 351
           D R L  +F  LPSK+ YP+YY++I  P+DL TI +++++G+Y S  +   DL LM  N 
Sbjct: 161 DGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNC 220

Query: 352 CTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAAL 411
             +N P S +Y DAK L+K        IE  +         I+  R    +  S +    
Sbjct: 221 KLYNGPDSSVYVDAKELEKYF---LKLIE--EIPEEMLELSIKPGREEREERESVLITNS 275

Query: 412 ESEDDESEDDEEIDQEDPNSPLWQVYDAIRNAKT 445
           ++          +  E+        Y  IR+   
Sbjct: 276 QAHVGAWPFLRPVSDEEV----PDYYKDIRDPMD 305

Length = 371

>gnl|CDD|99922 cd04369, Bromodomain, Bromodomain

 Score = 70.1 bits (172), Expect = 1e-14
 Identities = 29/89 (32%), Positives = 47/89 (52%), Gaps = 7/89 (7%)

Query: 150 KIQQKLKTDEYDDLSDFQADIELL-------VVTNPIDFIKIQQKLKTDEYDDLSDFQAD 202
            +   LK  + D    F   ++         V+ NP+D   I++KLK  EY  L +F+AD
Sbjct: 7   SLLDALKKLKRDLSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEAD 66

Query: 203 IELLVKNAKTFYKRNSQEHRDAQELMELF 231
           + L+  NAKT+    S  ++DA++L +LF
Sbjct: 67  VRLIFSNAKTYNGPGSPIYKDAKKLEKLF 95

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

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

 Score = 70.0 bits (172), Expect = 1e-14
 Identities = 33/129 (25%), Positives = 57/129 (44%), Gaps = 33/129 (25%)

Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
           ++ I   +R  + E+G LL   F ++P K +EP Y++ ++NPI                 
Sbjct: 6   IKNILKGLRKERDENGRLLTLHFEKLPDKAREPEYYQEISNPI----------------- 48

Query: 164 SDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRD 223
                          +D IK   K+K  +Y     F  D+ L+ +NAK + + +SQE++D
Sbjct: 49  --------------SLDDIKK--KVKRRKYKSFDQFLNDLNLMFENAKLYNENDSQEYKD 92

Query: 224 AQELMELFH 232
           A  L +   
Sbjct: 93  AVLLEKEAR 101

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|99930 cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_like subfamily, repeat II

 Score = 69.2 bits (170), Expect = 2e-14
 Identities = 23/62 (37%), Positives = 33/62 (53%)

Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
            DY+++I+ P+D+  I  KL   +Y    E  AD   MF N  KYN PD  ++  A  LQ
Sbjct: 36  HDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYNPPDHPVHAMARKLQ 95

Query: 556 RI 557
            +
Sbjct: 96  DV 97

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|99931 cd05499, Bromo_BDF1_2_II, Bromodomain

 Score = 68.9 bits (169), Expect = 3e-14
 Identities = 24/66 (36%), Positives = 42/66 (63%)

Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
           P Y+ +I  P+DL TI++++Q+G+Y S  + E+D+ L+ KN  TFN  G+ +Y     L+
Sbjct: 36  PNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFNPEGTDVYMMGHQLE 95

Query: 370 KLVQTK 375
           ++   K
Sbjct: 96  EVFNDK 101

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

 Score = 67.1 bits (164), Expect = 1e-13
 Identities = 25/71 (35%), Positives = 46/71 (64%)

Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
           M +I DV+  +K  DG  L + FI++P +++ P Y+E++  P+DF KI+++++  +Y  L
Sbjct: 6   MNKIVDVVIKYKDSDGRQLAEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSL 65

Query: 164 SDFQADIELLV 174
            D + D+ LL 
Sbjct: 66  EDLEKDVMLLC 76

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|99955 cd05525, Bromo_ASH1, Bromodomain; ASH1_like sub-family

 Score = 66.3 bits (162), Expect = 2e-13
 Identities = 33/134 (24%), Positives = 59/134 (44%), Gaps = 33/134 (24%)

Query: 102 DAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYD 161
             +++I D I  +K  +G  L  PFI +P K++ P Y+E +T+P+D   I++++ T  Y 
Sbjct: 5   QVLKEICDAIITYKDSNGQSLAIPFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYY- 63

Query: 162 DLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH 221
                                      KT E      F +D+  + +NA+ +Y R S   
Sbjct: 64  ---------------------------KTPE-----AFDSDMLKVFRNAEKYYGRKSPIG 91

Query: 222 RDAQELMELFHSTR 235
           RD   L + ++  +
Sbjct: 92  RDVCRLRKAYYQAK 105

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

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

 Score = 65.8 bits (161), Expect = 4e-13
 Identities = 22/71 (30%), Positives = 42/71 (59%)

Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
           + ++Y+ ++N+    G  L   F+R+P K + P Y++V+  PID  KI+ K++ ++Y  L
Sbjct: 5   LWELYNAVKNYTDGRGRRLSLIFMRLPSKSEYPDYYDVIKKPIDMEKIRSKIEGNQYQSL 64

Query: 164 SDFQADIELLV 174
            D  +D  L+ 
Sbjct: 65  DDMVSDFVLMF 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. Length = 105

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

 Score = 64.9 bits (159), Expect = 5e-13
 Identities = 26/70 (37%), Positives = 41/70 (58%)

Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
           P+YYDVI  P+DL T+  ++++G Y +L +   DL L+  N   +N P ++ YK A  L+
Sbjct: 32  PDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDTEYYKCANKLE 91

Query: 370 KLVQTKKMEI 379
           K    K  E+
Sbjct: 92  KFFWKKLKEL 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|99932 cd05500, Bromo_BDF1_2_I, Bromodomain

 Score = 64.3 bits (157), Expect = 1e-12
 Identities = 23/67 (34%), Positives = 36/67 (53%)

Query: 490 PSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYK 549
           P + + P Y  +I+KP+D+  I  KL+ N Y  ++E  ADF  M DN   +N P+  + +
Sbjct: 31  PVKLNIPHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTFNGPEHPVSQ 90

Query: 550 DALSLQR 556
               LQ 
Sbjct: 91  MGKRLQA 97

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|99936 cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like or BAZ1A_like subfamily

 Score = 64.3 bits (157), Expect = 1e-12
 Identities = 26/74 (35%), Positives = 42/74 (56%)

Query: 486 FQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDS 545
           F R  S+ + PDYY++I+KP+D+  I  KL   +Y+  +E ++D   +F N   YN   +
Sbjct: 33  FLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLVFSNCFLYNPEHT 92

Query: 546 HIYKDALSLQRIVL 559
            +YK    LQR  +
Sbjct: 93  SVYKAGTRLQRFFI 106

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|215921 pfam00439, Bromodomain, Bromodomain

 Score = 63.2 bits (154), Expect = 2e-12
 Identities = 20/53 (37%), Positives = 35/53 (66%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQE 226
           V+  P+D   I+QKLK+ +Y  L++F  D+EL+  NA T+   +S  ++DA++
Sbjct: 32  VIKEPMDLSTIRQKLKSGKYKSLAEFLKDVELIFSNAITYNGEDSDIYKDAKK 84

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

 Score = 68.7 bits (168), Expect = 2e-12
 Identities = 57/270 (21%), Positives = 98/270 (36%), Gaps = 59/270 (21%)

Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
            + I    +     DG  L   F+ +P KR+ P Y+E++ +P+D + IQ+KLK   Y   
Sbjct: 147 NKAIAKFKKQLFLRDGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSF 206

Query: 164 SDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRD 223
            +F +D+ L+                                   N K +   +S  + D
Sbjct: 207 EEFVSDLNLMFD---------------------------------NCKLYNGPDSSVYVD 233

Query: 224 AQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFN 283
           A+EL + F     KL+         +   +      E  + R+S + T  + +       
Sbjct: 234 AKELEKYF----LKLIEEIP----EEMLELSIKPGREEREERESVLITNSQAH------- 278

Query: 284 AVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKD 343
                     RP         S +  P+YY  I  P+DL T   ++++  Y       +D
Sbjct: 279 ---VGAWPFLRP--------VSDEEVPDYYKDIRDPMDLSTKELKLRNNYYRPEETFVRD 327

Query: 344 LILMTKNACTFNEPGSQIYKDAKALKKLVQ 373
             L   N   +N   +  YK+A  L+  V 
Sbjct: 328 AKLFFDNCVMYNGEVTDYYKNANVLEDFVI 357

Length = 371

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

 Score = 63.6 bits (155), Expect = 2e-12
 Identities = 31/97 (31%), Positives = 54/97 (55%)

Query: 280 DLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGD 339
           ++ +A++T  D++ + L   F  LPSKK+ P+YY+ I  P+DL TI ++I  G Y +   
Sbjct: 9   EICDAIITYKDSNGQSLAIPFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYYKTPEA 68

Query: 340 MEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKK 376
            + D++ + +NA  +    S I +D   L+K     K
Sbjct: 69  FDSDMLKVFRNAEKYYGRKSPIGRDVCRLRKAYYQAK 105

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

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

 Score = 61.2 bits (149), Expect = 1e-11
 Identities = 27/82 (32%), Positives = 39/82 (47%), Gaps = 8/82 (9%)

Query: 292 DSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDG---KYASLGDMEKDLILMT 348
            S P HE     P     P YY +I  P+DL  I +++Q      Y+S  +   D+ LM 
Sbjct: 21  LSLPFHE-----PVSPSVPNYYKIIKTPMDLSLIRKKLQPKSPQHYSSPEEFVADVRLMF 75

Query: 349 KNACTFNEPGSQIYKDAKALKK 370
           KN   FNE  S++ +  K L+ 
Sbjct: 76  KNCYKFNEEDSEVAQAGKELEL 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|99949 cd05518, Bromo_polybromo_IV, Bromodomain, polybromo repeat IV

 Score = 60.9 bits (148), Expect = 2e-11
 Identities = 18/42 (42%), Positives = 28/42 (66%)

Query: 611 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
            K+R+  L   +++YR+  GR+   +FME PS K YP+YYK+
Sbjct: 1   RKKRMLALFLYVLEYREGSGRRLCDLFMEKPSKKDYPDYYKI 42

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|99932 cd05500, Bromo_BDF1_2_I, Bromodomain

 Score = 59.6 bits (145), Expect = 4e-11
 Identities = 23/67 (34%), Positives = 33/67 (49%)

Query: 304 PSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYK 363
           P K   P Y  +I  P+DL TI R+++   Y S+ +   D  LM  N  TFN P   + +
Sbjct: 31  PVKLNIPHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTFNGPEHPVSQ 90

Query: 364 DAKALKK 370
             K L+ 
Sbjct: 91  MGKRLQA 97

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|99934 cd05502, Bromo_tif1_like, Bromodomain; tif1_like subfamily

 Score = 58.5 bits (142), Expect = 1e-10
 Identities = 27/78 (34%), Positives = 40/78 (51%), Gaps = 4/78 (5%)

Query: 482 LSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLR---YNQYEHLDEMVADFIQMFDNAC 538
           LS  F   P     P+YY++I+ P+D+ +I  KL+      Y   +E VAD   MF N  
Sbjct: 21  LSLPFHE-PVSPSVPNYYKIIKTPMDLSLIRKKLQPKSPQHYSSPEEFVADVRLMFKNCY 79

Query: 539 KYNEPDSHIYKDALSLQR 556
           K+NE DS + +    L+ 
Sbjct: 80  KFNEEDSEVAQAGKELEL 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|99929 cd05497, Bromo_Brdt_I_like, Bromodomain, Brdt_like subfamily, repeat I

 Score = 58.6 bits (142), Expect = 1e-10
 Identities = 23/65 (35%), Positives = 37/65 (56%)

Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDY+++I+ P+D+  I  +L  N Y    E + DF  MF N   YN+P   +   A +L+
Sbjct: 38  PDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLE 97

Query: 556 RIVLQ 560
           ++ LQ
Sbjct: 98  KLFLQ 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|99936 cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like or BAZ1A_like subfamily

 Score = 57.0 bits (138), Expect = 5e-10
 Identities = 27/98 (27%), Positives = 44/98 (44%), Gaps = 6/98 (6%)

Query: 278 CEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASL 337
            E L   ++     DS P    F    SK   P+YYD+I  P+DL TI  ++  G+Y   
Sbjct: 17  LEQLLVEIVK--HKDSWP----FLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLA 70

Query: 338 GDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTK 375
            +   D+ L+  N   +N   + +YK    L++    +
Sbjct: 71  EEFLSDIQLVFSNCFLYNPEHTSVYKAGTRLQRFFIKR 108

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|99945 cd05513, Bromo_brd7_like, Bromodomain, brd7_like subgroup

 Score = 55.9 bits (135), Expect = 8e-10
 Identities = 22/56 (39%), Positives = 34/56 (60%)

Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDA 551
           P Y  +I+ P+D   +  K++ N Y+ ++E   DF  M +NA KYN+PD+  YK A
Sbjct: 32  PGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYNKPDTIYYKAA 87

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|99938 cd05506, Bromo_plant1, Bromodomain, uncharacterized subfamily specific to plants

 Score = 55.8 bits (135), Expect = 8e-10
 Identities = 23/72 (31%), Positives = 43/72 (59%)

Query: 304 PSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYK 363
                 P+Y+D+I  P+DL T+ ++++ G+Y+S  +   D+ L   NA  +N PG+ ++ 
Sbjct: 27  VVALGLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPPGNDVHT 86

Query: 364 DAKALKKLVQTK 375
            AK L K+ +T+
Sbjct: 87  MAKELLKIFETR 98

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|99930 cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_like subfamily, repeat II

 Score = 55.7 bits (135), Expect = 9e-10
 Identities = 18/66 (27%), Positives = 37/66 (56%)

Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
            +Y+D+I  P+DL TI +++ + +YA   +   D+ LM  N   +N P   ++  A+ L+
Sbjct: 36  HDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYNPPDHPVHAMARKLQ 95

Query: 370 KLVQTK 375
            + + +
Sbjct: 96  DVFEDR 101

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

 Score = 55.4 bits (134), Expect = 1e-09
 Identities = 22/72 (30%), Positives = 39/72 (54%)

Query: 103 AMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDD 162
           AM +IYD + N + E G  L + F+  P K+  P Y+ ++  PI   +I+++++   Y  
Sbjct: 4   AMLEIYDAVLNCEDETGRKLSELFLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKS 63

Query: 163 LSDFQADIELLV 174
           L +F  D  L+ 
Sbjct: 64  LEEFLEDFHLMF 75

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|99955 cd05525, Bromo_ASH1, Bromodomain; ASH1_like sub-family

 Score = 55.5 bits (134), Expect = 1e-09
 Identities = 32/102 (31%), Positives = 52/102 (50%), Gaps = 1/102 (0%)

Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
           Q ++ + + I  T +   G+ L+  F  LPS+   PDYYE I  PVD+  I  ++    Y
Sbjct: 5   QVLKEICDAI-ITYKDSNGQSLAIPFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYY 63

Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTK 562
           +  +   +D +++F NA KY    S I +D   L++   Q K
Sbjct: 64  KTPEAFDSDMLKVFRNAEKYYGRKSPIGRDVCRLRKAYYQAK 105

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

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

 Score = 55.9 bits (135), Expect = 1e-09
 Identities = 24/65 (36%), Positives = 35/65 (53%)

Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDY+++++ P+D+  I  KL   QY+   + V D   MFDNA  YN   S +YK    L 
Sbjct: 37  PDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLYNRKTSRVYKYCTKLA 96

Query: 556 RIVLQ 560
            +  Q
Sbjct: 97  EVFEQ 101

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|99929 cd05497, Bromo_Brdt_I_like, Bromodomain, Brdt_like subfamily, repeat I

 Score = 55.1 bits (133), Expect = 2e-09
 Identities = 22/66 (33%), Positives = 37/66 (56%)

Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
           P+Y+ +I  P+DL TI +R+++  Y S  +  +D   M  N   +N+PG  +   A+ L+
Sbjct: 38  PDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLE 97

Query: 370 KLVQTK 375
           KL   K
Sbjct: 98  KLFLQK 103

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|99943 cd05511, Bromo_TFIID, Bromodomain, TFIID-like subfamily

 Score = 55.3 bits (134), Expect = 2e-09
 Identities = 24/75 (32%), Positives = 44/75 (58%), Gaps = 3/75 (4%)

Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDYY++I++P+D++ I  K+  ++Y+  +E + D   + DN+  YN PDS   K A   +
Sbjct: 31  PDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDSVYTKKA---K 87

Query: 556 RIVLQTKMHLREDED 570
            ++   +  L E E+
Sbjct: 88  EMLELAEELLAEREE 102

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|99958 cd05529, Bromo_WDR9_I_like, Bromodomain; WDR9 repeat I_like subfamily

 Score = 55.4 bits (134), Expect = 3e-09
 Identities = 35/108 (32%), Positives = 54/108 (50%), Gaps = 3/108 (2%)

Query: 263 DSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVF-QLLPSKKRYPEYYDVIDVPID 321
           D         DE+   E L + +     +    + E F   +  +  YP+Y++ + VP+D
Sbjct: 13  DPGWEQPHIRDEE--RERLISGLDKLLLSLQLEIAEYFEYPVDLRAWYPDYWNRVPVPMD 70

Query: 322 LRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
           L TI  R+++  Y SL  +  D+ L+  NA TFNEP S+I K AK L 
Sbjct: 71  LETIRSRLENRYYRSLEALRHDVRLILSNAETFNEPNSEIAKKAKRLS 118

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|99943 cd05511, Bromo_TFIID, Bromodomain, TFIID-like subfamily

 Score = 53.8 bits (130), Expect = 6e-09
 Identities = 27/76 (35%), Positives = 44/76 (57%)

Query: 306 KKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDA 365
           KK+ P+YY +I  P+DL+TI ++I   KY S  +  +D+ L+  N+  +N P S   K A
Sbjct: 27  KKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDSVYTKKA 86

Query: 366 KALKKLVQTKKMEIEQ 381
           K + +L +    E E+
Sbjct: 87  KEMLELAEELLAEREE 102

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|99935 cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BAZ2B_like subfamily

 Score = 53.5 bits (129), Expect = 6e-09
 Identities = 21/61 (34%), Positives = 35/61 (57%)

Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           P Y ++I+KP+D   I  KL   QY+ L+E   D   +FDN   +NE DS + +   +++
Sbjct: 31  PGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFNEDDSEVGRAGHNMR 90

Query: 556 R 556
           +
Sbjct: 91  K 91

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|99948 cd05517, Bromo_polybromo_II, Bromodomain, polybromo repeat II

 Score = 52.8 bits (127), Expect = 1e-08
 Identities = 32/113 (28%), Positives = 53/113 (46%), Gaps = 33/113 (29%)

Query: 119 GALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNP 178
           G L+ + F ++P K   P Y+ V+  PID       LKT                     
Sbjct: 20  GRLISELFQKLPSKVLYPDYYAVIKEPID-------LKT--------------------- 51

Query: 179 IDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
                I Q++++  Y  + D + D++L+VKNAKTF +  SQ ++DA  + ++F
Sbjct: 52  -----IAQRIQSGYYKSIEDMEKDLDLMVKNAKTFNEPGSQVYKDANAIKKIF 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|99931 cd05499, Bromo_BDF1_2_II, Bromodomain

 Score = 51.9 bits (125), Expect = 2e-08
 Identities = 18/63 (28%), Positives = 33/63 (52%)

Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           P+Y+ +I+KP+D+  I+ KL+  QY+   E   D   +F N   +N   + +Y     L+
Sbjct: 36  PNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFNPEGTDVYMMGHQLE 95

Query: 556 RIV 558
            + 
Sbjct: 96  EVF 98

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|99944 cd05512, Bromo_brd1_like, Bromodomain; brd1_like subfamily

 Score = 52.0 bits (125), Expect = 2e-08
 Identities = 22/72 (30%), Positives = 37/72 (51%)

Query: 484 HIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEP 543
            IF       + PDY + I++P+D   +  KL   +Y  L++  ADF  + +N   YN  
Sbjct: 20  EIFSEPVDLSEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNAK 79

Query: 544 DSHIYKDALSLQ 555
           D+  Y+ A+ L+
Sbjct: 80  DTIFYRAAVRLR 91

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|99938 cd05506, Bromo_plant1, Bromodomain, uncharacterized subfamily specific to plants

 Score = 51.6 bits (124), Expect = 3e-08
 Identities = 22/66 (33%), Positives = 32/66 (48%), Gaps = 2/66 (3%)

Query: 490 PSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEP--DSHI 547
                 PDY+++I+KP+D+  +  KL   +Y   +E  AD    F NA +YN P  D H 
Sbjct: 27  VVALGLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPPGNDVHT 86

Query: 548 YKDALS 553
               L 
Sbjct: 87  MAKELL 92

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|99928 cd05496, Bromo_WDR9_II, Bromodomain; WDR9 repeat II_like subfamily

 Score = 52.1 bits (125), Expect = 3e-08
 Identities = 28/87 (32%), Positives = 45/87 (51%), Gaps = 7/87 (8%)

Query: 277 QCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYAS 336
           QC++L N +    D  S P  +   LL    +YP+Y D+ID P+DL T+   +  G Y  
Sbjct: 9   QCKELVNLMWDCED--SEPFRQPVDLL----KYPDYRDIIDTPMDLGTVKETLFGGNYDD 62

Query: 337 LGDMEKDLILMTKNACTFN-EPGSQIY 362
             +  KD+ L+  N+ ++     S+IY
Sbjct: 63  PMEFAKDVRLIFSNSKSYTPNKRSRIY 89

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|99942 cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like subfamily

 Score = 51.7 bits (124), Expect = 3e-08
 Identities = 26/75 (34%), Positives = 40/75 (53%)

Query: 475 EPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMF 534
           E KT  + S  F    S+ + PDYY++I+KP+D+  +  KL+  QY+   E V D   ++
Sbjct: 18  ELKTYTEHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIW 77

Query: 535 DNACKYNEPDSHIYK 549
            N   YN   SH  +
Sbjct: 78  KNCLLYNSDPSHPLR 92

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|99936 cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like or BAZ1A_like subfamily

 Score = 50.9 bits (122), Expect = 6e-08
 Identities = 18/66 (27%), Positives = 34/66 (51%), Gaps = 3/66 (4%)

Query: 108 YDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQ 167
             ++    K   +    PF+R   K + P Y++++  P+D   I++KL   EY    +F 
Sbjct: 18  EQLLVEIVKHKDSW---PFLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFL 74

Query: 168 ADIELL 173
           +DI+L+
Sbjct: 75  SDIQLV 80

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|99935 cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BAZ2B_like subfamily

 Score = 50.1 bits (120), Expect = 8e-08
 Identities = 21/76 (27%), Positives = 40/76 (52%)

Query: 300 FQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGS 359
           F    + K  P Y  +I  P+D  TI  +++ G+Y +L +  +D+ L+  N  TFNE  S
Sbjct: 21  FLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFNEDDS 80

Query: 360 QIYKDAKALKKLVQTK 375
           ++ +    ++K  + +
Sbjct: 81  EVGRAGHNMRKFFEKR 96

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|99941 cd05509, Bromo_gcn5_like, Bromodomain; Gcn5_like subfamily

 Score = 49.9 bits (120), Expect = 1e-07
 Identities = 15/59 (25%), Positives = 34/59 (57%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFH 232
           V+  P+D   +++KL+   Y  L +F AD++L+  N + +   +++ ++ A +L + F 
Sbjct: 37  VIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDTEYYKCANKLEKFFW 95

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|99927 cd05495, Bromo_cbp_like, Bromodomain, cbp_like subfamily

 Score = 50.1 bits (120), Expect = 1e-07
 Identities = 21/64 (32%), Positives = 36/64 (56%)

Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
           P+Y+D++  P+DL TI R++  G+Y        D+ LM  NA  +N   S++YK    L 
Sbjct: 37  PDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLYNRKTSRVYKYCTKLA 96

Query: 370 KLVQ 373
           ++ +
Sbjct: 97  EVFE 100

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

 Score = 49.8 bits (119), Expect = 1e-07
 Identities = 18/62 (29%), Positives = 32/62 (51%)

Query: 486 FQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDS 545
           F+   +  +  DY +VI  P+D++ + +K     Y  + E + D   +F NA KY E  S
Sbjct: 21  FREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYYENGS 80

Query: 546 HI 547
           ++
Sbjct: 81  YV 82

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|99946 cd05515, Bromo_polybromo_V, Bromodomain, polybromo repeat V

 Score = 46.9 bits (112), Expect = 1e-06
 Identities = 17/42 (40%), Positives = 27/42 (64%)

Query: 611 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
           ++++L+ L   + +Y D  GR+  L+FM LPS   YP+YY V
Sbjct: 1   MQQKLWELYNAVKNYTDGRGRRLSLIFMRLPSKSEYPDYYDV 42

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|99936 cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like or BAZ1A_like subfamily

 Score = 46.6 bits (111), Expect = 2e-06
 Identities = 16/65 (24%), Positives = 30/65 (46%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           ++  P+D   I++KL   EY    +F +DI+L+  N   +   ++  ++    L   F  
Sbjct: 48  IIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLVFSNCFLYNPEHTSVYKAGTRLQRFFIK 107

Query: 234 TRNKL 238
              KL
Sbjct: 108 RCRKL 112

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|99944 cd05512, Bromo_brd1_like, Bromodomain; brd1_like subfamily

 Score = 46.2 bits (110), Expect = 2e-06
 Identities = 18/63 (28%), Positives = 32/63 (50%)

Query: 307 KRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAK 366
              P+Y D I  P+D  T+ ++++  +Y +L D E D  L+  N   +N   +  Y+ A 
Sbjct: 29  SEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNAKDTIFYRAAV 88

Query: 367 ALK 369
            L+
Sbjct: 89  RLR 91

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|99942 cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like subfamily

 Score = 46.3 bits (110), Expect = 2e-06
 Identities = 29/95 (30%), Positives = 49/95 (51%), Gaps = 6/95 (6%)

Query: 277 QCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYAS 336
             + + N + T T+  S P    F    SK+  P+YYD+I  P+DL T+ +++++ +Y S
Sbjct: 11  SLDKVLNELKTYTE-HSTP----FLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKS 65

Query: 337 LGDMEKDLILMTKNACTFNEPGSQIYKD-AKALKK 370
             +   DL L+ KN   +N   S   +  A  +KK
Sbjct: 66  KAEFVDDLNLIWKNCLLYNSDPSHPLRRHANFMKK 100

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

 Score = 46.6 bits (111), Expect = 2e-06
 Identities = 18/48 (37%), Positives = 30/48 (62%)

Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYN 541
           + PDYYE+I++P+D++ I  KL  +QY    + + D   +  NA +YN
Sbjct: 32  EVPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYN 79

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|99945 cd05513, Bromo_brd7_like, Bromodomain, brd7_like subgroup

 Score = 45.5 bits (108), Expect = 3e-06
 Identities = 21/59 (35%), Positives = 34/59 (57%)

Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKAL 368
           P Y  +I  P+D  T+  +I++  Y S+ + + D  LM +NA  +N+P +  YK AK L
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|99939 cd05507, Bromo_brd8_like, Bromodomain, brd8_like subgroup

 Score = 45.4 bits (108), Expect = 4e-06
 Identities = 22/72 (30%), Positives = 38/72 (52%), Gaps = 4/72 (5%)

Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
           P Y+ V+  P+DL TI + I++G   S  + ++D++LM +NA  +N     +Y  A    
Sbjct: 34  PGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYNSSDHDVYLMA---- 89

Query: 370 KLVQTKKMEIEQ 381
             +Q + M   Q
Sbjct: 90  VEMQREVMSQIQ 101

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|99958 cd05529, Bromo_WDR9_I_like, Bromodomain; WDR9 repeat I_like subfamily

 Score = 45.8 bits (109), Expect = 5e-06
 Identities = 24/68 (35%), Positives = 36/68 (52%)

Query: 495 YPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSL 554
           YPDY+  +  P+D+E I S+L    Y  L+ +  D   +  NA  +NEP+S I K A  L
Sbjct: 58  YPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLILSNAETFNEPNSEIAKKAKRL 117

Query: 555 QRIVLQTK 562
              +L+  
Sbjct: 118 SDWLLRIL 125

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 = 45.0 bits (107), Expect = 6e-06
 Identities = 16/58 (27%), Positives = 30/58 (51%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
           ++  P+D   I +KL+  +Y    +F+ D+ L+ KN  TF    +  +    +L E+F
Sbjct: 41  IIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFNPEGTDVYMMGHQLEEVF 98

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

 Score = 45.0 bits (107), Expect = 8e-06
 Identities = 21/70 (30%), Positives = 35/70 (50%), Gaps = 4/70 (5%)

Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFN----EPGSQIYKDA 365
           P+YY++I  P+DL+TI +++   +Y +  D  KD+ L+  NA  +N         I   A
Sbjct: 34  PDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYNPDRDPADKLIRSRA 93

Query: 366 KALKKLVQTK 375
             L+  V   
Sbjct: 94  CELRDEVHAM 103

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|99949 cd05518, Bromo_polybromo_IV, Bromodomain, polybromo repeat IV

 Score = 44.0 bits (104), Expect = 2e-05
 Identities = 18/70 (25%), Positives = 37/70 (52%)

Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
           M  ++  +  +++  G  LCD F+  P K+  P Y++++  PID   I+  ++ D+Y   
Sbjct: 5   MLALFLYVLEYREGSGRRLCDLFMEKPSKKDYPDYYKIILEPIDLKTIEHNIRNDKYATE 64

Query: 164 SDFQADIELL 173
            +   D +L+
Sbjct: 65  EELMDDFKLM 74

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|99930 cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_like subfamily, repeat II

 Score = 43.4 bits (103), Expect = 2e-05
 Identities = 14/39 (35%), Positives = 24/39 (61%)

Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 174
             YH+++ +P+D   I++KL   EY D  +F AD+ L+ 
Sbjct: 36  HDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMF 74

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|99931 cd05499, Bromo_BDF1_2_II, Bromodomain

 Score = 43.4 bits (103), Expect = 2e-05
 Identities = 11/39 (28%), Positives = 22/39 (56%)

Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 174
           P+Y  ++  P+D   I +KL+  +Y    +F+ D+ L+ 
Sbjct: 36  PNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIF 74

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|99943 cd05511, Bromo_TFIID, Bromodomain, TFIID-like subfamily

 Score = 44.2 bits (105), Expect = 2e-05
 Identities = 16/52 (30%), Positives = 29/52 (55%)

Query: 123 CDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 174
             PF     K++ P Y++++  P+D   I++K+   +Y    +F  DIEL+V
Sbjct: 18  SWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIV 69

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

 Score = 43.3 bits (102), Expect = 2e-05
 Identities = 23/88 (26%), Positives = 42/88 (47%), Gaps = 6/88 (6%)

Query: 274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGK 333
           E  +CE++ + ++      S P  E      +     +Y  VI  P+DL+T+  +   G 
Sbjct: 1   ELQKCEEILSKILKYRF--SWPFREP----VTADEAEDYKKVITNPMDLQTMQTKCSCGS 54

Query: 334 YASLGDMEKDLILMTKNACTFNEPGSQI 361
           Y+S+ +   D+ L+  NA  + E GS +
Sbjct: 55  YSSVQEFLDDMKLVFSNAEKYYENGSYV 82

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|99932 cd05500, Bromo_BDF1_2_I, Bromodomain

 Score = 42.7 bits (101), Expect = 3e-05
 Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 1/46 (2%)

Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDF 181
           P Y  ++  P+D   I++KLK++ Y  + +F AD   L+V N + F
Sbjct: 37  PHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFN-LMVDNCLTF 81

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|99942 cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like subfamily

 Score = 43.2 bits (102), Expect = 3e-05
 Identities = 15/49 (30%), Positives = 29/49 (59%)

Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
           PF+    KR+ P Y++++  P+D   + +KLK  +Y   ++F  D+ L+
Sbjct: 28  PFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLI 76

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|99932 cd05500, Bromo_BDF1_2_I, Bromodomain

 Score = 42.3 bits (100), Expect = 6e-05
 Identities = 20/58 (34%), Positives = 31/58 (53%), Gaps = 3/58 (5%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
           ++  P+D   I++KLK++ Y  + +F AD  L+V N  TF   N  EH  +Q    L 
Sbjct: 42  IIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTF---NGPEHPVSQMGKRLQ 96

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 = 42.3 bits (100), Expect = 8e-05
 Identities = 18/65 (27%), Positives = 33/65 (50%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
            V  P+D   I+ +L+   Y  L   + D+ L++ NA+TF + NS+  + A+ L +    
Sbjct: 64  RVPVPMDLETIRSRLENRYYRSLEALRHDVRLILSNAETFNEPNSEIAKKAKRLSDWLLR 123

Query: 234 TRNKL 238
             + L
Sbjct: 124 ILSSL 128

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|99934 cd05502, Bromo_tif1_like, Bromodomain; tif1_like subfamily

 Score = 41.1 bits (97), Expect = 1e-04
 Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 4/72 (5%)

Query: 174 VVTNPIDFIKIQQKLK---TDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMEL 230
           ++  P+D   I++KL+      Y    +F AD+ L+ KN   F + +S+  +  +EL EL
Sbjct: 39  IIKTPMDLSLIRKKLQPKSPQHYSSPEEFVADVRLMFKNCYKFNEEDSEVAQAGKEL-EL 97

Query: 231 FHSTRNKLLNPQ 242
           F   + K + P 
Sbjct: 98  FFEEQLKEILPD 109

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|99943 cd05511, Bromo_TFIID, Bromodomain, TFIID-like subfamily

 Score = 40.7 bits (96), Expect = 3e-04
 Identities = 17/57 (29%), Positives = 33/57 (57%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMEL 230
           ++  P+D   I++K+   +Y    +F  DIEL+V N+  +   +S   + A+E++EL
Sbjct: 36  IIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDSVYTKKAKEMLEL 92

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|99944 cd05512, Bromo_brd1_like, Bromodomain; brd1_like subfamily

 Score = 40.1 bits (94), Expect = 3e-04
 Identities = 14/39 (35%), Positives = 25/39 (64%)

Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 174
           P Y + +  P+DF  +++KL++  Y  L DF+AD  L++
Sbjct: 32  PDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLII 70

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|99939 cd05507, Bromo_brd8_like, Bromodomain, brd8_like subgroup

 Score = 40.0 bits (94), Expect = 3e-04
 Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 2/76 (2%)

Query: 486 FQR-LPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPD 544
           F + +      P Y+ V+ +P+D+  I   +         E   D + MF NA  YN  D
Sbjct: 24  FLKPVTEDIA-PGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYNSSD 82

Query: 545 SHIYKDALSLQRIVLQ 560
             +Y  A+ +QR V+ 
Sbjct: 83  HDVYLMAVEMQREVMS 98

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

 Score = 39.2 bits (92), Expect = 6e-04
 Identities = 14/40 (35%), Positives = 25/40 (62%)

Query: 611 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYY 650
           LK  +  +   +++  D+ GR+   +F+E PS K+YP+YY
Sbjct: 1   LKAAMLEIYDAVLNCEDETGRKLSELFLEKPSKKLYPDYY 40

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|99930 cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_like subfamily, repeat II

 Score = 39.2 bits (92), Expect = 6e-04
 Identities = 17/58 (29%), Positives = 32/58 (55%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
           ++ +P+D   I++KL   EY D  +F AD+ L+  N   +   +   H  A++L ++F
Sbjct: 41  IIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYNPPDHPVHAMARKLQDVF 98

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

 Score = 39.6 bits (93), Expect = 6e-04
 Identities = 16/43 (37%), Positives = 23/43 (53%)

Query: 172 LLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFY 214
             ++  P+D   I QKL T +Y    DF  DI+L+V NA  + 
Sbjct: 37  YEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYN 79

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|99924 cd05492, Bromo_ZMYND11, Bromodomain; ZMYND11_like sub-family

 Score = 39.7 bits (93), Expect = 6e-04
 Identities = 16/57 (28%), Positives = 33/57 (57%)

Query: 172 LLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELM 228
             ++   +D   IQ+K+ +++Y  L +F+AD  LL+ N   F+  +S+++  A+ L 
Sbjct: 40  RRLIHTHLDVADIQEKINSEKYTSLEEFKADALLLLHNTAIFHGADSEQYDAARWLY 96

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|99935 cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BAZ2B_like subfamily

 Score = 38.9 bits (91), Expect = 7e-04
 Identities = 15/49 (30%), Positives = 29/49 (59%)

Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
           PF+     +  P Y +++  P+DF  I++KL++ +Y  L +F  D+ L+
Sbjct: 20  PFLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLV 68

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|99944 cd05512, Bromo_brd1_like, Bromodomain; brd1_like subfamily

 Score = 38.9 bits (91), Expect = 7e-04
 Identities = 16/57 (28%), Positives = 32/57 (56%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMEL 230
            +  P+DF  +++KL++  Y  L DF+AD  L++ N   +  +++  +R A  L + 
Sbjct: 37  HIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNAKDTIFYRAAVRLRDQ 93

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|99945 cd05513, Bromo_brd7_like, Bromodomain, brd7_like subgroup

 Score = 38.9 bits (91), Expect = 8e-04
 Identities = 14/56 (25%), Positives = 38/56 (67%)

Query: 173 LVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELM 228
            ++ +P+DF  +++K+K ++Y  + +F+ D +L+ +NA  + K ++  ++ A++L+
Sbjct: 36  SIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYNKPDTIYYKAAKKLL 91

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|99938 cd05506, Bromo_plant1, Bromodomain, uncharacterized subfamily specific to plants

 Score = 38.9 bits (91), Expect = 8e-04
 Identities = 17/60 (28%), Positives = 33/60 (55%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           ++  P+D   +++KL+  EY    +F AD+ L   NA  +    +  H  A+EL+++F +
Sbjct: 38  IIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPPGNDVHTMAKELLKIFET 97

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

 Score = 38.8 bits (91), Expect = 9e-04
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 2/70 (2%)

Query: 101 SDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEY 160
           S  ++ +YD I   K+E+G  +   F  +P ++  P Y++++ NP+    ++++L    Y
Sbjct: 3   SKKLKPLYDGIYTLKEENGIEIHPIFNVLPLRKDYPDYYKIIKNPLSLNTVKKRLPH--Y 60

Query: 161 DDLSDFQADI 170
            +  +F  D+
Sbjct: 61  TNAQEFVNDL 70

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

 Score = 38.3 bits (89), Expect = 0.001
 Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 4/73 (5%)

Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV----VTNPID 180
           PF       +   Y +V+TNP+D   +Q K     Y  + +F  D++L+           
Sbjct: 20  PFREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYYENG 79

Query: 181 FIKIQQKLKTDEY 193
              +    KT++ 
Sbjct: 80  SYVLSCMRKTEQC 92

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

 Score = 38.9 bits (91), Expect = 0.001
 Identities = 19/44 (43%), Positives = 27/44 (61%), Gaps = 1/44 (2%)

Query: 134 QEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTN 177
           + P Y+E++  P+D   I QKL T +Y    DF  DI+ L+VTN
Sbjct: 32  EVPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDID-LIVTN 74

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|99945 cd05513, Bromo_brd7_like, Bromodomain, brd7_like subgroup

 Score = 37.4 bits (87), Expect = 0.002
 Identities = 11/38 (28%), Positives = 26/38 (68%)

Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
           P Y  ++ +P+DF  +++K+K ++Y  + +F+ D +L+
Sbjct: 32  PGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLM 69

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|99927 cd05495, Bromo_cbp_like, Bromodomain, cbp_like subfamily

 Score = 37.8 bits (88), Expect = 0.002
 Identities = 18/60 (30%), Positives = 34/60 (56%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           +V NP+D   I++KL T +Y D   +  D+ L+  NA  + ++ S+ ++   +L E+F  
Sbjct: 42  IVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLYNRKTSRVYKYCTKLAEVFEQ 101

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|99935 cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BAZ2B_like subfamily

 Score = 37.4 bits (87), Expect = 0.002
 Identities = 15/45 (33%), Positives = 29/45 (64%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNS 218
           ++  P+DF  I++KL++ +Y  L +F  D+ L+  N +TF + +S
Sbjct: 36  IIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFNEDDS 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 = 37.5 bits (87), Expect = 0.002
 Identities = 15/45 (33%), Positives = 26/45 (57%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNS 218
           V+TNP+D   +Q K     Y  + +F  D++L+  NA+ +Y+  S
Sbjct: 36  VITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYYENGS 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	653
KOG1474|consensus	640		99.95
KOG0008|consensus	1563		99.94
KOG1474|consensus	640		99.94
cd05524	113	Bromo_polybromo_I Bromodomain, polybromo repeat I.	99.93
cd05516	107	Bromo_SNF2L2 Bromodomain, SNF2L2-like subfamily, s	99.93
cd05515	105	Bromo_polybromo_V Bromodomain, polybromo repeat V.	99.93
cd05525	106	Bromo_ASH1 Bromodomain; ASH1_like sub-family. ASH1	99.93
cd05517	103	Bromo_polybromo_II Bromodomain, polybromo repeat I	99.93
cd05516	107	Bromo_SNF2L2 Bromodomain, SNF2L2-like subfamily, s	99.92
cd05525	106	Bromo_ASH1 Bromodomain; ASH1_like sub-family. ASH1	99.92
cd05515	105	Bromo_polybromo_V Bromodomain, polybromo repeat V.	99.92
cd05524	113	Bromo_polybromo_I Bromodomain, polybromo repeat I.	99.92
cd05517	103	Bromo_polybromo_II Bromodomain, polybromo repeat I	99.92
cd05518	103	Bromo_polybromo_IV Bromodomain, polybromo repeat I	99.92
cd05520	103	Bromo_polybromo_III Bromodomain, polybromo repeat	99.92
cd05520	103	Bromo_polybromo_III Bromodomain, polybromo repeat	99.92
cd05518	103	Bromo_polybromo_IV Bromodomain, polybromo repeat I	99.91
cd05519	103	Bromo_SNF2 Bromodomain, SNF2-like subfamily, speci	99.91
cd05519	103	Bromo_SNF2 Bromodomain, SNF2-like subfamily, speci	99.91
cd05522	104	Bromo_Rsc1_2_II Bromodomain, repeat II in Rsc1/2_l	99.91
cd05526	110	Bromo_polybromo_VI Bromodomain, polybromo repeat V	99.91
cd05521	106	Bromo_Rsc1_2_I Bromodomain, repeat I in Rsc1/2_lik	99.9
cd05505	97	Bromo_WSTF_like Bromodomain; Williams syndrome tra	99.9
cd05521	106	Bromo_Rsc1_2_I Bromodomain, repeat I in Rsc1/2_lik	99.9
COG5076	371	Transcription factor involved in chromatin remodel	99.9
cd05522	104	Bromo_Rsc1_2_II Bromodomain, repeat II in Rsc1/2_l	99.89
cd05496	119	Bromo_WDR9_II Bromodomain; WDR9 repeat II_like sub	99.89
cd05505	97	Bromo_WSTF_like Bromodomain; Williams syndrome tra	99.89
cd05497	107	Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily	99.89
COG5076	371	Transcription factor involved in chromatin remodel	99.89
cd05504	115	Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_li	99.88
cd05495	108	Bromo_cbp_like Bromodomain, cbp_like subfamily. Cb	99.88
cd05497	107	Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily	99.88
cd05503	97	Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like s	99.88
cd05496	119	Bromo_WDR9_II Bromodomain; WDR9 repeat II_like sub	99.88
cd05499	102	Bromo_BDF1_2_II Bromodomain. BDF1/BDF2 like subfam	99.88
cd05504	115	Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_li	99.87
cd05502	109	Bromo_tif1_like Bromodomain; tif1_like subfamily.	99.87
cd05503	97	Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like s	99.87
cd05508	99	Bromo_RACK7 Bromodomain, RACK7_like subfamily. RAC	99.87
cd05507	104	Bromo_brd8_like Bromodomain, brd8_like subgroup. I	99.87
cd05510	112	Bromo_SPT7_like Bromodomain; SPT7_like subfamily.	99.87
cd05495	108	Bromo_cbp_like Bromodomain, cbp_like subfamily. Cb	99.87
cd05501	102	Bromo_SP100C_like Bromodomain, SP100C_like subfami	99.87
cd05508	99	Bromo_RACK7 Bromodomain, RACK7_like subfamily. RAC	99.87
cd05509	101	Bromo_gcn5_like Bromodomain; Gcn5_like subfamily.	99.87
cd05507	104	Bromo_brd8_like Bromodomain, brd8_like subgroup. I	99.86
cd05498	102	Bromo_Brdt_II_like Bromodomain, Brdt_like subfamil	99.86
cd05526	110	Bromo_polybromo_VI Bromodomain, polybromo repeat V	99.86
cd05509	101	Bromo_gcn5_like Bromodomain; Gcn5_like subfamily.	99.86
cd05510	112	Bromo_SPT7_like Bromodomain; SPT7_like subfamily.	99.86
cd05499	102	Bromo_BDF1_2_II Bromodomain. BDF1/BDF2 like subfam	99.85
cd05511	112	Bromo_TFIID Bromodomain, TFIID-like subfamily. Hum	99.85
cd05513	98	Bromo_brd7_like Bromodomain, brd7_like subgroup. T	99.85
cd05513	98	Bromo_brd7_like Bromodomain, brd7_like subgroup. T	99.85
cd05506	99	Bromo_plant1 Bromodomain, uncharacterized subfamil	99.85
cd05500	103	Bromo_BDF1_2_I Bromodomain. BDF1/BDF2 like subfami	99.85
cd05511	112	Bromo_TFIID Bromodomain, TFIID-like subfamily. Hum	99.85
cd05512	98	Bromo_brd1_like Bromodomain; brd1_like subfamily.	99.85
cd05528	112	Bromo_AAA Bromodomain; sub-family co-occurring wit	99.84
cd05501	102	Bromo_SP100C_like Bromodomain, SP100C_like subfami	99.84
cd05512	98	Bromo_brd1_like Bromodomain; brd1_like subfamily.	99.84
cd05502	109	Bromo_tif1_like Bromodomain; tif1_like subfamily.	99.84
cd05498	102	Bromo_Brdt_II_like Bromodomain, Brdt_like subfamil	99.84
cd05528	112	Bromo_AAA Bromodomain; sub-family co-occurring wit	99.84
cd05529	128	Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like	99.84
cd05506	99	Bromo_plant1 Bromodomain, uncharacterized subfamil	99.83
cd05529	128	Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like	99.83
cd05500	103	Bromo_BDF1_2_I Bromodomain. BDF1/BDF2 like subfami	99.82
smart00297	107	BROMO bromo domain.	99.81
smart00297	107	BROMO bromo domain.	99.81
KOG1827|consensus	629		99.8
KOG1472|consensus	720		99.77
PF00439	84	Bromodomain: Bromodomain; InterPro: IPR001487 Brom	99.76
cd05492	109	Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family	99.76
cd05492	109	Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family	99.76
cd04369	99	Bromodomain Bromodomain. Bromodomains are found in	99.75
PF00439	84	Bromodomain: Bromodomain; InterPro: IPR001487 Brom	99.75
KOG1827|consensus	629		99.74
cd04369	99	Bromodomain Bromodomain. Bromodomains are found in	99.74
KOG1472|consensus	720		99.74
KOG0008|consensus	1563		99.7
KOG1245|consensus	1404		99.59
KOG1245|consensus	1404		99.5
KOG0386|consensus	1157		99.27
KOG1828|consensus	418		99.26
KOG1828|consensus	418		99.22
KOG0386|consensus	1157		99.16
cd05494	114	Bromodomain_1 Bromodomain; uncharacterized subfami	98.95
cd05491	119	Bromo_TBP7_like Bromodomain; TBP7_like subfamily,	98.78
cd05494	114	Bromodomain_1 Bromodomain; uncharacterized subfami	98.73
cd05491	119	Bromo_TBP7_like Bromodomain; TBP7_like subfamily,	98.72
KOG0955|consensus	1051		98.56
KOG0955|consensus	1051		98.49
cd05493	131	Bromo_ALL-1 Bromodomain, ALL-1 like proteins. ALL-	94.51
cd05493	131	Bromo_ALL-1 Bromodomain, ALL-1 like proteins. ALL-	93.01
KOG0644|consensus	1113		87.45
KOG0644|consensus	1113		80.1

>KOG1474|consensus

Probab=99.95  E-value=6.9e-28  Score=276.54  Aligned_cols=224  Identities=24%  Similarity=0.380  Sum_probs=180.2

Q ss_pred             ccccccccCCC--CCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchHHHHhhhcccCcCCCHHH
Q psy15468        121 LLCDPFIRIPK--KRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSD  198 (653)
Q Consensus       121 ~~~~~F~~~v~--~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~~~~~~~~~~~~Y~~~~~  198 (653)
                      .++|+|..||+  ....|+||++|++|||+.||..++.+ .|                                |....+
T Consensus         8 ~~~~~f~~~v~~v~l~~~~~~~~~~~~~d~~~~~~~~e~-n~--------------------------------~~~~~~   54 (640)
T KOG1474|consen    8 KLAWPFLEPVDAVALNLPAYYEIIKRPMDIGTIEKRVEN-NY--------------------------------YFSASE   54 (640)
T ss_pred             cccccccCccchhhccchhhhcccCCCCCchhhhhhhcc-Cc--------------------------------cccHhh
Confidence            46999999996  78999999999999999999999999 54                                899999


Q ss_pred             HHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccCCCCCCC--------------c---------cc------
Q psy15468        199 FQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEG--------------T---------SQ------  249 (653)
Q Consensus       199 f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~~~~~~~--------------~---------~~------  249 (653)
                      ..+|+..+|.||..||...-.+...+..+.+++.+....+........              +         ..      
T Consensus        55 ~~~~f~~~~sn~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  134 (640)
T KOG1474|consen   55 CIADFKTKFSNCYLFNDSGDDVVRMKQSLEKLFPKKLRSMPSDEEDKSSVGPKASKIPLDKDSSSQVRKLSERLKQELQQ  134 (640)
T ss_pred             hhhhccccccchhcccCCccchhhccccchhhcccccccccccccCCcccccccccCcCCCCchhhhhhhhhcccccccc
Confidence            999999999999999999999999999999988766654432211100              0         00      


Q ss_pred             ----ccccc---------c---------------cCCC----------cccCC------C--C-----------------
Q psy15468        250 ----KRSMD---------F---------------MMAS----------ETEDS------R--D-----------------  266 (653)
Q Consensus       250 ----~r~~~---------~---------------~~~~----------~~~~~------~--~-----------------  266 (653)
                          ..++.         .               ...+          ...++      .  .                 
T Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  214 (640)
T KOG1474|consen  135 VRPLTKAVEFSPEPSVVSPVSPASQPFKSKNGVKKVADTCVKSYKSKSEREPSPGQKREGTVAPNSSRESGDSAAEEEAK  214 (640)
T ss_pred             CCcccccccccccccccCCCCCcccccccccchhhhhccccccccccCcCCCCccccccccccCcccccccccccccccc
Confidence                00000         0               0000          00000      0  0                 


Q ss_pred             -CCCCChHHHHHHHHHHHHHHhccCCCCccccccccccccc--CCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHH
Q psy15468        267 -SSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSK--KRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKD  343 (653)
Q Consensus       267 -ss~~~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~--~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D  343 (653)
                       .+..+.+..+.|..||..|+.+++      +|||..||+.  .++||||+||++||||+||+.||.++.|.++.+|..|
T Consensus       215 ~~~~~~~~~lk~C~~iLk~l~~~k~------awpF~~PVD~v~LgLpDY~~IIK~PMDLgTIK~kL~~~~Y~~~~eF~~D  288 (640)
T KOG1474|consen  215 PKSKLTVELLKQCLSILKRLMKHKH------AWPFNEPVDVVKLGLPDYHDIIKHPMDLGTIKKKLEKGEYKSAEEFAAD  288 (640)
T ss_pred             ccccccHHHHHHHHHHHHHHHhccC------CCCcCCCcCHHhcCCcchhhhcCCCccHHHHHhhhcccccCCHHHHHHH
Confidence             011123457999999999999998      7999999875  6899999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhhCCCCCHHHHHHHHHHHHHHHHHHhhhcCC
Q psy15468        344 LILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGK  383 (653)
Q Consensus       344 v~Lmf~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~~~  383 (653)
                      |+|||.||++||++|++||.+|..|+.+|+.+|+.+....
T Consensus       289 VRL~F~Ncm~YNp~g~dV~~Ma~~L~~~Fe~rw~~~~~~~  328 (640)
T KOG1474|consen  289 VRLTFDNCMTYNPEGSDVYAMAKKLQEVFEERWASMPLEI  328 (640)
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhhccccc
Confidence            9999999999999999999999999999999999876543

>KOG0008|consensus

Probab=99.94  E-value=1e-27  Score=277.00  Aligned_cols=331  Identities=21%  Similarity=0.335  Sum_probs=262.7

Q ss_pred             CCCCccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCChHHHHHHHHHHHHhh-hhhcCCccccccccC
Q psy15468         51 ATLPPKRFIMGKRRRASSLTRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNF-KKEDGALLCDPFIRI  129 (653)
Q Consensus        51 ~~~~~~~~~~~krr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~-k~~~~~~~~~~F~~~  129 (653)
                      .+..|+.++..++||.++..+     ++....      +.++..|++.||...++.|+.+|.+- +.-.   ...||..|
T Consensus      1220 ~Lk~p~~a~~~sKrrs~~~~h-----~dyl~~------~~k~~~r~r~dP~V~~ss~l~~i~n~~~~~~---~t~~f~~P 1285 (1563)
T KOG0008|consen 1220 KLKIPSKAKPKSKRRSGTTVH-----CDYLQR------PRKRGHRRRTDPSVSLSSILETIINQARSSP---NTYPFPTP 1285 (1563)
T ss_pred             eeccCcccccccccccCCCch-----hhhccc------chhhhhhhcCCCeeecccchHHHHHHHhcCC---CCcCCCCc
Confidence            445566666567777776665     334422      36788899999999999999988764 3333   48999999


Q ss_pred             CCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchHHHHhhhcccCcCCCHHHHHHHHHHHHHh
Q psy15468        130 PKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKN  209 (653)
Q Consensus       130 v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~N  209 (653)
                      |+...++|||.||+.||||+|+++.+....                                 |...+.|+.|+.||++|
T Consensus      1286 v~~k~v~dyy~vi~~P~~lq~~kk~v~kr~---------------------------------y~~r~~fle~~~~~~~n 1332 (1563)
T KOG0008|consen 1286 VNAKEVKDYYRVITPPMDLQTQKKLVRKRL---------------------------------YESREHFLEELPLIVSN 1332 (1563)
T ss_pred             cchhhccchhhccCCCcchHHHHHHHHHHH---------------------------------HHHHHHHHHHhHHHhhc
Confidence            999999999999999999999999999999                                 99999999999999999


Q ss_pred             hhccccCCCHHHHHHHHHHHHHHHHhhhccCCCCCCCccccccccccCCCcccCCCCCCCCChHHHHHHHHHHHHHHhcc
Q psy15468        210 AKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTST  289 (653)
Q Consensus       210 a~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~ss~~~~~~~~~~~~ll~~l~~~~  289 (653)
                      ...||++.+.+.+.++.+...+-..+.+-   ++.. ....+.|++.+++++..             .+ .+++.+... 
T Consensus      1333 s~~yng~~~~~t~~~q~mls~~~~~~~ek---edk~-~~lEk~Inplld~~d~v-------------~~-~~~d~~vs~- 1393 (1563)
T KOG0008|consen 1333 STKYNGPLASLTRQQQSMLSLCFEKLKEK---EDKL-WRLEKAINPLLDDDDQV-------------AF-FILDNIVSQ- 1393 (1563)
T ss_pred             hhhhcCchHHHHHHHHHHHHHHHHhhchh---HHHH-HHHHhhcCcccCccchh-------------hH-hhhhhHHHH-
Confidence            99999999999999999887766544321   1100 11234566666665432             23 566665543 


Q ss_pred             CCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhCCCCCHHHHHHHHHH
Q psy15468        290 DADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK  369 (653)
Q Consensus       290 d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN~~~S~i~~~A~~L~  369 (653)
                       ....+-+|+|+++++++..|+||.+|++||||.+|.+++..+.|.+.++|.+|+++|+.||..||++.+....-|+.+-
T Consensus      1394 -~~~ipes~~f~~~v~~k~~~~yy~kik~pmdl~~i~~n~~~~~y~s~~e~l~dv~~i~~n~~~~ng~e~~y~~k~~k~~ 1472 (1563)
T KOG0008|consen 1394 -MKEIPESWPFHEPVNKKRVPDYYKKIKNPMDLETILKNIPPHKYDSRSEFLDDVNLIYVNSVEYNGAESAYTKKARKIG 1472 (1563)
T ss_pred             -HHhcchhcccccccchhhchHHHHHhcChhhHHHHhhcCCccccccHHHHhhhhHhhcccceeecCccccccHHHHHHH
Confidence             2345669999999999999999999999999999999999999999999999999999999999999999888888877


Q ss_pred             HHHHHHHHhhhcCCCCCCCcccccccccccCCCCchhhhhcCCCCCCCCCCcccccCCCCCCCchhhhhhhhccccCCcc
Q psy15468        370 KLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQEDPNSPLWQVYDAIRNAKTQGVI  449 (653)
Q Consensus       370 ~~~~~~~~~i~~~~~~~~~k~~r~~~~~~~~~~~~~~~~~~~~~e~~~~sd~e~~~~~~~~~P~~~~~~~ir~~~~~g~~  449 (653)
                      .+....+.+...                                                                    
T Consensus      1473 ev~~~~~~e~~~-------------------------------------------------------------------- 1484 (1563)
T KOG0008|consen 1473 EVGLANLLEYIE-------------------------------------------------------------------- 1484 (1563)
T ss_pred             HHHHHHHHHHHH--------------------------------------------------------------------
Confidence            766554332210                                                                    


Q ss_pred             cccccCCHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHH
Q psy15468        450 FFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVAD  529 (653)
Q Consensus       450 ~~~s~~~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D  529 (653)
                                        +.+ .++     ..+|..|..++.+.+.|+|-+++.  ||+.+|..++..-.|.+-.+|-+|
T Consensus      1485 ------------------~~~-~le-----~~is~~~~~a~~~~ea~~~dd~~~--~d~~t~~d~~~d~e~~~~~~~~~~ 1538 (1563)
T KOG0008|consen 1485 ------------------HLL-QLE-----ENISTLFEAAVEKAEAPDYDDIVP--GDLSTIPDDVRDTEYSDSMQRDAD 1538 (1563)
T ss_pred             ------------------HHH-HHH-----HhHHHHHHHHHHhhhcCCccccCC--CCCCCCcchhhccccchhhhcccc
Confidence                              000 011     225677888888888999999988  999999999999999999999999


Q ss_pred             HHHHHHHHhhhcC
Q psy15468        530 FIQMFDNACKYNE  542 (653)
Q Consensus       530 ~~Lmf~Na~~YN~  542 (653)
                      +.++=.||-.|-+
T Consensus      1539 ~~q~~~n~~~~~g 1551 (1563)
T KOG0008|consen 1539 VWQIKSNAHVYDG 1551 (1563)
T ss_pred             eeeeccccccccC
Confidence            9999999988843

>KOG1474|consensus

Probab=99.94  E-value=7.7e-27  Score=267.95  Aligned_cols=266  Identities=21%  Similarity=0.308  Sum_probs=175.8

Q ss_pred             ccccccccccccc--CCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhCCCCCHHHHHHHHHHHH
Q psy15468        294 RPLHEVFQLLPSK--KRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKL  371 (653)
Q Consensus       294 ~~~a~~F~~~p~~--~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN~~~S~i~~~A~~L~~~  371 (653)
                      +.++|+|..+++.  ...|+||.+|++|||+++|..++.++.|.+..+..+|+..+|.||..||.++-.|+.++..++.+
T Consensus         7 ~~~~~~f~~~v~~v~l~~~~~~~~~~~~~d~~~~~~~~e~n~~~~~~~~~~~f~~~~sn~~~~~~~~~~v~~~~~~~~~~   86 (640)
T KOG1474|consen    7 HKLAWPFLEPVDAVALNLPAYYEIIKRPMDIGTIEKRVENNYYFSASECIADFKTKFSNCYLFNDSGDDVVRMKQSLEKL   86 (640)
T ss_pred             ccccccccCccchhhccchhhhcccCCCCCchhhhhhhccCccccHhhhhhhccccccchhcccCCccchhhccccchhh
Confidence            4569999999874  57899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhcCCCCCC---Ccccc-------------cccccccCCCCchhhhhcCC---------C-CCCC--------
Q psy15468        372 VQTKKMEIEQGKFTPA---GKSER-------------IRSKRIRGGQSLSAITAALE---------S-EDDE--------  417 (653)
Q Consensus       372 ~~~~~~~i~~~~~~~~---~k~~r-------------~~~~~~~~~~~~~~~~~~~~---------~-e~~~--------  417 (653)
                      |.......+.......   .+...             +..+....-...........         . ..+.        
T Consensus        87 ~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (640)
T KOG1474|consen   87 FPKKLRSMPSDEEDKSSVGPKASKIPLDKDSSSQVRKLSERLKQELQQVRPLTKAVEFSPEPSVVSPVSPASQPFKSKNG  166 (640)
T ss_pred             cccccccccccccCCcccccccccCcCCCCchhhhhhhhhccccccccCCcccccccccccccccCCCCCcccccccccc
Confidence            9877776654432110   00000             00000000000000000000         0 0000        


Q ss_pred             -CCCcccc-cC---C--CCCCCchhhhhhhhcc---ccCC------cccccccCCHHHHHHHHHHHHHHHhhcCCCCCcc
Q psy15468        418 -SEDDEEI-DQ---E--DPNSPLWQVYDAIRNA---KTQG------VIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQ  481 (653)
Q Consensus       418 -~sd~e~~-~~---~--~~~~P~~~~~~~ir~~---~~~g------~~~~~s~~~~~~~~~lk~l~~~l~~~~d~~g~~~  481 (653)
                       ....+.. ..   .  ...++.. ........   ...+      .....+..+..+...|..|++.|..       +.
T Consensus       167 ~~~~~d~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lk~C~~iLk~l~~-------~k  238 (640)
T KOG1474|consen  167 VKKVADTCVKSYKSKSEREPSPGQ-KREGTVAPNSSRESGDSAAEEEAKPKSKLTVELLKQCLSILKRLMK-------HK  238 (640)
T ss_pred             hhhhhccccccccccCcCCCCccc-cccccccCccccccccccccccccccccccHHHHHHHHHHHHHHHh-------cc
Confidence             0000000 00   0  0000000 00000000   0000      0000011123334445555555554       33


Q ss_pred             cccccccCcCC--CCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHH
Q psy15468        482 LSHIFQRLPSR--HDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVL  559 (653)
Q Consensus       482 ls~~F~~lP~~--~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~~YN~~~S~iy~dA~~L~~~~~  559 (653)
                      .+|+|..|++.  .++||||+||++||||+||++||.++.|.++.+|.+||+|||.||++||++|+.||.+|..|+.+|+
T Consensus       239 ~awpF~~PVD~v~LgLpDY~~IIK~PMDLgTIK~kL~~~~Y~~~~eF~~DVRL~F~Ncm~YNp~g~dV~~Ma~~L~~~Fe  318 (640)
T KOG1474|consen  239 HAWPFNEPVDVVKLGLPDYHDIIKHPMDLGTIKKKLEKGEYKSAEEFAADVRLTFDNCMTYNPEGSDVYAMAKKLQEVFE  318 (640)
T ss_pred             CCCCcCCCcCHHhcCCcchhhhcCCCccHHHHHhhhcccccCCHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence            46999999876  5799999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcC
Q psy15468        560 QTKMHLRE  567 (653)
Q Consensus       560 ~~~~eL~~  567 (653)
                      .+|..+..
T Consensus       319 ~rw~~~~~  326 (640)
T KOG1474|consen  319 ERWASMPL  326 (640)
T ss_pred             HHHhhccc
Confidence            99998654

>cd05524 Bromo_polybromo_I Bromodomain, polybromo repeat I

Probab=99.93  E-value=5.7e-26  Score=205.96  Aligned_cols=111  Identities=59%  Similarity=1.028  Sum_probs=107.3

Q ss_pred             CChHHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcC
Q psy15468         98 IDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTN  177 (653)
Q Consensus        98 ~~~~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~  177 (653)
                      .||.+.|..|++.|+++++++|++++.+|+++|++..+||||++|++||||+||++||+++.                  
T Consensus         1 ~~~~~~c~~il~~l~~~~~~~g~~l~~~F~~~p~~~~~PdYy~iI~~Pmdl~tI~~kl~~~~------------------   62 (113)
T cd05524           1 LDPIAVCQELYDTIRNYKSEDGRILCESFIRVPKRRNEPEYYEVVSNPIDLLKIQQKLKTEE------------------   62 (113)
T ss_pred             CcHHHHHHHHHHHHHhhcccCCCchhHHHhcCCCcccCCCHHHHhCCccCHHHHHHHhCcCC------------------
Confidence            37899999999999999999999999999999999999999999999999999999999999                  


Q ss_pred             CchHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccCC
Q psy15468        178 PIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNP  241 (653)
Q Consensus       178 P~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~~  241 (653)
                                     |.++.+|..|+.|||+||..||+++|.++++|..|++.|.+.+++++..
T Consensus        63 ---------------Y~s~~~f~~D~~lm~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~~~~  111 (113)
T cd05524          63 ---------------YDDVDDLTADFELLINNAKAYYKPDSPEHKDACKLWELFLSARNEVLSG  111 (113)
T ss_pred             ---------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHhhcc
Confidence                           9999999999999999999999999999999999999999999888654

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.

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

Probab=99.93  E-value=1.2e-25  Score=202.05  Aligned_cols=105  Identities=32%  Similarity=0.621  Sum_probs=101.4

Q ss_pred             HHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy15468        459 SLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNAC  538 (653)
Q Consensus       459 ~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~  538 (653)
                      ++++|+.|++.|++++++.| ++++++|.++|++..+||||++|++||||++|++||++|.|.++++|..||.|||.||+
T Consensus         2 l~~~~~~il~~v~~~~d~~g-~~~s~~F~~~p~~~~~pdYy~iI~~Pmdl~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~   80 (107)
T cd05516           2 LTKKMNKIVDVVIKYKDSDG-RQLAEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNAQ   80 (107)
T ss_pred             HHHHHHHHHHHHHhhhCcCC-CEeeHHhhcCCCcccCCCHHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHH
Confidence            57889999999999999988 99999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCHHHHHHHHHHHHHHHHHHh
Q psy15468        539 KYNEPDSHIYKDALSLQRIVLQTKMH  564 (653)
Q Consensus       539 ~YN~~~S~iy~dA~~L~~~~~~~~~e  564 (653)
                      +||+++|.||.+|..|+++|.+.+++
T Consensus        81 ~yN~~~s~i~~~a~~l~~~f~~~~~~  106 (107)
T cd05516          81 TFNLEGSLIYEDSIVLQSVFKSARQK  106 (107)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999988765

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.

>cd05515 Bromo_polybromo_V Bromodomain, polybromo repeat V

Probab=99.93  E-value=9.5e-26  Score=202.11  Aligned_cols=103  Identities=61%  Similarity=1.037  Sum_probs=99.9

Q ss_pred             HHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhh
Q psy15468        460 LQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACK  539 (653)
Q Consensus       460 ~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~~  539 (653)
                      +++|+.|+++|++++++.| ++++++|+++|++.++|+||++|++||||++|++||+++.|.|+++|.+||.|||.||++
T Consensus         2 ~~~~~~~~~~i~~~~d~~~-~~~a~~F~~~p~~~~~pdYy~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~l~~~Na~~   80 (105)
T cd05515           2 QQKLWELYNAVKNYTDGRG-RRLSLIFMRLPSKSEYPDYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNACK   80 (105)
T ss_pred             hHHHHHHHHHHHHhhCcCC-CcccHHhccCCCcccCCcHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHH
Confidence            6899999999999999988 999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCCHHHHHHHHHHHHHHHHHH
Q psy15468        540 YNEPDSHIYKDALSLQRIVLQTKM  563 (653)
Q Consensus       540 YN~~~S~iy~dA~~L~~~~~~~~~  563 (653)
                      ||+++|.+|.+|..|+++|.+++.
T Consensus        81 yN~~~s~i~~~A~~L~~~~~~~~~  104 (105)
T cd05515          81 YNEPDSQIYKDALTLQKVLLETKR  104 (105)
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHc
Confidence            999999999999999999987764

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=99.93  E-value=1.2e-25  Score=201.40  Aligned_cols=104  Identities=29%  Similarity=0.458  Sum_probs=100.2

Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q psy15468        458 ASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA  537 (653)
Q Consensus       458 ~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na  537 (653)
                      .+.+.|+.|++.|.+++++.| +.+|++|+++|++..+||||++|++||||++|++||++|.|.|+++|..||.|||.||
T Consensus         2 ~l~~~l~~i~~~i~~~kd~~g-~~~s~~F~~lp~k~~~pdYy~~I~~P~dL~tI~~kl~~~~Y~s~~ef~~D~~l~f~Na   80 (106)
T cd05525           2 RLAQVLKEICDAIITYKDSNG-QSLAIPFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRNA   80 (106)
T ss_pred             hHHHHHHHHHHHHHHhhccCC-CcccHhhccCCCcccCCchhhhCCCCcCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Confidence            367789999999999999998 9999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcCCCCHHHHHHHHHHHHHHHHH
Q psy15468        538 CKYNEPDSHIYKDALSLQRIVLQTK  562 (653)
Q Consensus       538 ~~YN~~~S~iy~dA~~L~~~~~~~~  562 (653)
                      ++||+++|.||++|..|+++|++.+
T Consensus        81 ~~yn~~~S~i~~~A~~L~~~f~~~~  105 (106)
T cd05525          81 EKYYGRKSPIGRDVCRLRKAYYQAK  105 (106)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHcc
Confidence            9999999999999999999998764

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.

>cd05517 Bromo_polybromo_II Bromodomain, polybromo repeat II

Probab=99.93  E-value=1.3e-25  Score=200.44  Aligned_cols=101  Identities=61%  Similarity=0.911  Sum_probs=97.9

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      ++.|.+|+++|++++|++|++++++|+.+|++..+|+||++|++||||++|++||+++.|.++.+|..||+|||.||+.|
T Consensus         2 ~~~~~~l~~~i~~~~d~~gr~~~~~F~~lp~~~~~pdYy~vI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~~y   81 (103)
T cd05517           2 KQILEQLLEAVMTATDPSGRLISELFQKLPSKVLYPDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDLMVKNAKTF   81 (103)
T ss_pred             hHHHHHHHHHHHHhhCcCCCChhHHHhcCCCCCCCCCHHHHcCCCcCHHHHHHHHCcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHH
Q psy15468        355 NEPGSQIYKDAKALKKLVQTK  375 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~  375 (653)
                      |+++|.||.+|..|+++|..+
T Consensus        82 N~~~s~i~~~A~~l~~~f~~~  102 (103)
T cd05517          82 NEPGSQVYKDANAIKKIFTAK  102 (103)
T ss_pred             CCCCCHHHHHHHHHHHHHHhc
Confidence            999999999999999999753

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.

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

Probab=99.92  E-value=1.8e-25  Score=200.96  Aligned_cols=104  Identities=40%  Similarity=0.729  Sum_probs=100.8

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      .+.|..|++.|+++++++|++++++|+++|++..+||||++|++||||++|++||++|.|.++++|..||.|||.||+.|
T Consensus         3 ~~~~~~il~~v~~~~d~~g~~~s~~F~~~p~~~~~pdYy~iI~~Pmdl~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~y   82 (107)
T cd05516           3 TKKMNKIVDVVIKYKDSDGRQLAEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNAQTF   82 (107)
T ss_pred             HHHHHHHHHHHHhhhCcCCCEeeHHhhcCCCcccCCCHHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHH
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHh
Q psy15468        355 NEPGSQIYKDAKALKKLVQTKKME  378 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~~~~  378 (653)
                      |+++|.||.+|..|+++|.+.+..
T Consensus        83 N~~~s~i~~~a~~l~~~f~~~~~~  106 (107)
T cd05516          83 NLEGSLIYEDSIVLQSVFKSARQK  106 (107)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhc
Confidence            999999999999999999987764

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.

>cd05525 Bromo_ASH1 Bromodomain; ASH1_like sub-family

Probab=99.92  E-value=3e-25  Score=198.88  Aligned_cols=101  Identities=30%  Similarity=0.487  Sum_probs=98.1

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      .+.|..|++.|..+++++|++++++|+++|++..+|+||++|++||||++|++||++|.|.++++|..|+.|||.||+.|
T Consensus         4 ~~~l~~i~~~i~~~kd~~g~~~s~~F~~lp~k~~~pdYy~~I~~P~dL~tI~~kl~~~~Y~s~~ef~~D~~l~f~Na~~y   83 (106)
T cd05525           4 AQVLKEICDAIITYKDSNGQSLAIPFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRNAEKY   83 (106)
T ss_pred             HHHHHHHHHHHHHhhccCCCcccHhhccCCCcccCCchhhhCCCCcCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            46799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHH
Q psy15468        355 NEPGSQIYKDAKALKKLVQTK  375 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~  375 (653)
                      |+++|.||.+|..|+++|++.
T Consensus        84 n~~~S~i~~~A~~L~~~f~~~  104 (106)
T cd05525          84 YGRKSPIGRDVCRLRKAYYQA  104 (106)
T ss_pred             CCCCCHHHHHHHHHHHHHHHc
Confidence            999999999999999999864

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.

>cd05515 Bromo_polybromo_V Bromodomain, polybromo repeat V

Probab=99.92  E-value=3.1e-25  Score=198.84  Aligned_cols=102  Identities=48%  Similarity=0.794  Sum_probs=98.9

Q ss_pred             HHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhC
Q psy15468        276 NQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFN  355 (653)
Q Consensus       276 ~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN  355 (653)
                      +.|..|++.|+.++|+.|++++++|+++|++..+|+||++|++||||++|++||+++.|.++++|..||.|||.||++||
T Consensus         3 ~~~~~~~~~i~~~~d~~~~~~a~~F~~~p~~~~~pdYy~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~l~~~Na~~yN   82 (105)
T cd05515           3 QKLWELYNAVKNYTDGRGRRLSLIFMRLPSKSEYPDYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNACKYN   82 (105)
T ss_pred             HHHHHHHHHHHHhhCcCCCcccHHhccCCCcccCCcHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHH
Q psy15468        356 EPGSQIYKDAKALKKLVQTKKM  377 (653)
Q Consensus       356 ~~~S~i~~~A~~L~~~~~~~~~  377 (653)
                      +++|.||.+|..|+++|.++..
T Consensus        83 ~~~s~i~~~A~~L~~~~~~~~~  104 (105)
T cd05515          83 EPDSQIYKDALTLQKVLLETKR  104 (105)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHc
Confidence            9999999999999999987643

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.

>cd05524 Bromo_polybromo_I Bromodomain, polybromo repeat I

Probab=99.92  E-value=3.5e-25  Score=200.86  Aligned_cols=108  Identities=31%  Similarity=0.565  Sum_probs=104.6

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      .+.|..|++.|+++++++|++++.+|.++|++..+|+||++|++||||+||++||+++.|.++++|..||.|||.||+.|
T Consensus         4 ~~~c~~il~~l~~~~~~~g~~l~~~F~~~p~~~~~PdYy~iI~~Pmdl~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~~y   83 (113)
T cd05524           4 IAVCQELYDTIRNYKSEDGRILCESFIRVPKRRNEPEYYEVVSNPIDLLKIQQKLKTEEYDDVDDLTADFELLINNAKAY   83 (113)
T ss_pred             HHHHHHHHHHHHhhcccCCCchhHHHhcCCCcccCCCHHHHhCCccCHHHHHHHhCcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhhhcC
Q psy15468        355 NEPGSQIYKDAKALKKLVQTKKMEIEQG  382 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~~~~i~~~  382 (653)
                      |+++|.+|.+|..|+++|++.+.++..+
T Consensus        84 N~~~s~~~~~A~~L~~~f~~~~~~~~~~  111 (113)
T cd05524          84 YKPDSPEHKDACKLWELFLSARNEVLSG  111 (113)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHhhcc
Confidence            9999999999999999999998887655

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=99.92  E-value=2.5e-25  Score=198.52  Aligned_cols=101  Identities=36%  Similarity=0.687  Sum_probs=97.6

Q ss_pred             HHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhh
Q psy15468        460 LQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACK  539 (653)
Q Consensus       460 ~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~~  539 (653)
                      ++.|..|+++|++++|+.| ++++++|.++|++..+||||++|++||||++|++||+++.|.|+++|..||.|||.||++
T Consensus         2 ~~~~~~l~~~i~~~~d~~g-r~~~~~F~~lp~~~~~pdYy~vI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~~   80 (103)
T cd05517           2 KQILEQLLEAVMTATDPSG-RLISELFQKLPSKVLYPDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDLMVKNAKT   80 (103)
T ss_pred             hHHHHHHHHHHHHhhCcCC-CChhHHHhcCCCCCCCCCHHHHcCCCcCHHHHHHHHCcCCCCCHHHHHHHHHHHHHHHHH
Confidence            6789999999999999987 999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCCHHHHHHHHHHHHHHHH
Q psy15468        540 YNEPDSHIYKDALSLQRIVLQT  561 (653)
Q Consensus       540 YN~~~S~iy~dA~~L~~~~~~~  561 (653)
                      ||+++|.+|.+|..|+++|..+
T Consensus        81 yN~~~s~i~~~A~~l~~~f~~~  102 (103)
T cd05517          81 FNEPGSQVYKDANAIKKIFTAK  102 (103)
T ss_pred             HCCCCCHHHHHHHHHHHHHHhc
Confidence            9999999999999999999653

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.

>cd05518 Bromo_polybromo_IV Bromodomain, polybromo repeat IV

Probab=99.92  E-value=3.2e-25  Score=197.74  Aligned_cols=101  Identities=36%  Similarity=0.677  Sum_probs=97.3

Q ss_pred             HHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhh
Q psy15468        460 LQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACK  539 (653)
Q Consensus       460 ~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~~  539 (653)
                      +++|+.|++.|.+++|..| +.++.+|+.+|++..+||||++|++||||++|++||+++.|.|+++|.+||.|||.||+.
T Consensus         2 ~~~~~~l~~~v~~~~d~~g-r~~~~~F~~~p~~~~~pdYy~iIk~Pmdl~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~   80 (103)
T cd05518           2 KKRMLALFLYVLEYREGSG-RRLCDLFMEKPSKKDYPDYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNARH   80 (103)
T ss_pred             hHHHHHHHHHHHHhhccCC-CcccHHHhcCCCcccCccHHHHcCCCcCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHH
Confidence            4789999999999999888 999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCCHHHHHHHHHHHHHHHH
Q psy15468        540 YNEPDSHIYKDALSLQRIVLQT  561 (653)
Q Consensus       540 YN~~~S~iy~dA~~L~~~~~~~  561 (653)
                      ||+++|.||.+|..|+++|.++
T Consensus        81 yN~~~s~i~~~A~~le~~~~~~  102 (103)
T cd05518          81 YNEEGSQVYEDANILEKVLKEK  102 (103)
T ss_pred             HCCCCCHHHHHHHHHHHHHHhc
Confidence            9999999999999999999764

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.

>cd05520 Bromo_polybromo_III Bromodomain, polybromo repeat III

Probab=99.92  E-value=3.6e-25  Score=197.48  Aligned_cols=100  Identities=41%  Similarity=0.731  Sum_probs=96.9

Q ss_pred             HHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhC
Q psy15468        276 NQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFN  355 (653)
Q Consensus       276 ~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN  355 (653)
                      +.+..|+++|+++++++|++++++|+++|++..+|+||++|++||||+||++||+++.|.++++|..||+|||.||+.||
T Consensus         3 ~~~~~l~~~i~~~~~~~g~~~s~pF~~~p~~~~~PdYy~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~~yN   82 (103)
T cd05520           3 NPLWQLYDTIRNARNNQGQLLAEPFLKLPSKRKYPDYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYN   82 (103)
T ss_pred             chHHHHHHHHHhhcCCCCCCccHhhhcCCCcccCCCHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            45889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHH
Q psy15468        356 EPGSQIYKDAKALKKLVQTK  375 (653)
Q Consensus       356 ~~~S~i~~~A~~L~~~~~~~  375 (653)
                      +++|.+|.+|..|+++|+++
T Consensus        83 ~~~s~i~~~A~~L~~~f~~~  102 (103)
T cd05520          83 VPNSRIYKDAEKLQKLMQAK  102 (103)
T ss_pred             CCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999864

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.

>cd05520 Bromo_polybromo_III Bromodomain, polybromo repeat III

Probab=99.92  E-value=5e-25  Score=196.58  Aligned_cols=99  Identities=40%  Similarity=0.755  Sum_probs=95.4

Q ss_pred             HHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhc
Q psy15468        462 KMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYN  541 (653)
Q Consensus       462 ~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~~YN  541 (653)
                      .+..|+++|++++++.| ++++++|+++|++..+||||++|++||||++|++||+++.|.++++|++||+|||.||++||
T Consensus         4 ~~~~l~~~i~~~~~~~g-~~~s~pF~~~p~~~~~PdYy~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~~yN   82 (103)
T cd05520           4 PLWQLYDTIRNARNNQG-QLLAEPFLKLPSKRKYPDYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYN   82 (103)
T ss_pred             hHHHHHHHHHhhcCCCC-CCccHhhhcCCCcccCCCHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            46789999999999988 99999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHH
Q psy15468        542 EPDSHIYKDALSLQRIVLQT  561 (653)
Q Consensus       542 ~~~S~iy~dA~~L~~~~~~~  561 (653)
                      +++|.+|.+|..|+++|+++
T Consensus        83 ~~~s~i~~~A~~L~~~f~~~  102 (103)
T cd05520          83 VPNSRIYKDAEKLQKLMQAK  102 (103)
T ss_pred             CCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999765

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.

>cd05518 Bromo_polybromo_IV Bromodomain, polybromo repeat IV

Probab=99.91  E-value=9.5e-25  Score=194.72  Aligned_cols=100  Identities=41%  Similarity=0.685  Sum_probs=97.1

Q ss_pred             HHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhC
Q psy15468        276 NQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFN  355 (653)
Q Consensus       276 ~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN  355 (653)
                      +++..|++.|++++|.+|+.++.+|+.+|++..+||||++|++||||+||++||.++.|.++++|..||.|||.||+.||
T Consensus         3 ~~~~~l~~~v~~~~d~~gr~~~~~F~~~p~~~~~pdYy~iIk~Pmdl~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN   82 (103)
T cd05518           3 KRMLALFLYVLEYREGSGRRLCDLFMEKPSKKDYPDYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNARHYN   82 (103)
T ss_pred             HHHHHHHHHHHHhhccCCCcccHHHhcCCCcccCccHHHHcCCCcCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHH
Q psy15468        356 EPGSQIYKDAKALKKLVQTK  375 (653)
Q Consensus       356 ~~~S~i~~~A~~L~~~~~~~  375 (653)
                      +++|.||.+|..|+++|.++
T Consensus        83 ~~~s~i~~~A~~le~~~~~~  102 (103)
T cd05518          83 EEGSQVYEDANILEKVLKEK  102 (103)
T ss_pred             CCCCHHHHHHHHHHHHHHhc
Confidence            99999999999999999763

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=99.91  E-value=1.6e-24  Score=193.58  Aligned_cols=102  Identities=30%  Similarity=0.615  Sum_probs=98.2

Q ss_pred             HHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy15468        459 SLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNAC  538 (653)
Q Consensus       459 ~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~  538 (653)
                      +++.|+.|+++|+++++..| ++++++|.++|++..+|+||++|++||||++|++||++|.|.|+++|.+||+|||.||+
T Consensus         1 ~~~~~~~i~~~v~~~~~~~~-~~~~~~F~~~p~~~~~pdYy~iIk~Pmdl~~I~~kl~~~~Y~s~~~f~~D~~li~~Na~   79 (103)
T cd05519           1 LKAAMLEIYDAVLNCEDETG-RKLSELFLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANAR   79 (103)
T ss_pred             CHHHHHHHHHHHHHhcCcCC-CchhHHhcCCCCCCCCcCHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHH
Confidence            36789999999999998888 99999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCHHHHHHHHHHHHHHHH
Q psy15468        539 KYNEPDSHIYKDALSLQRIVLQT  561 (653)
Q Consensus       539 ~YN~~~S~iy~dA~~L~~~~~~~  561 (653)
                      +||+++|.+|.+|..|++.|.++
T Consensus        80 ~yn~~~s~i~~~A~~l~~~f~~~  102 (103)
T cd05519          80 TYNQEGSIVYEDAVEMEKAFKKK  102 (103)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999765

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.

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

Probab=99.91  E-value=2.2e-24  Score=192.76  Aligned_cols=101  Identities=40%  Similarity=0.655  Sum_probs=98.0

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      .+.|.+|+++|+++++..|++++++|+.+|++..+|+||++|++||||++|++||++|.|.++++|..||+|||.||+.|
T Consensus         2 ~~~~~~i~~~v~~~~~~~~~~~~~~F~~~p~~~~~pdYy~iIk~Pmdl~~I~~kl~~~~Y~s~~~f~~D~~li~~Na~~y   81 (103)
T cd05519           2 KAAMLEIYDAVLNCEDETGRKLSELFLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANARTY   81 (103)
T ss_pred             HHHHHHHHHHHHHhcCcCCCchhHHhcCCCCCCCCcCHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHH
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHH
Q psy15468        355 NEPGSQIYKDAKALKKLVQTK  375 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~  375 (653)
                      |+++|.+|.+|..|++.|..+
T Consensus        82 n~~~s~i~~~A~~l~~~f~~~  102 (103)
T cd05519          82 NQEGSIVYEDAVEMEKAFKKK  102 (103)
T ss_pred             CCCCCHHHHHHHHHHHHHHHh
Confidence            999999999999999999764

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.

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

Probab=99.91  E-value=2.8e-24  Score=192.19  Aligned_cols=102  Identities=28%  Similarity=0.553  Sum_probs=99.0

Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q psy15468        458 ASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA  537 (653)
Q Consensus       458 ~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na  537 (653)
                      |++++++.+++.|+++++..| ++++.+|+++|++..+|+||++|++||||++|++||+++.|.|+++|..||.|||.||
T Consensus         1 ~~~~~~~~i~~~v~~~~d~~g-~~l~~~F~~~p~~~~~pdYy~~I~~Pmdl~tI~~kl~~~~Y~s~~~f~~D~~li~~Na   79 (104)
T cd05522           1 PYEARIKNILKGLRKERDENG-RLLTLHFEKLPDKAREPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENA   79 (104)
T ss_pred             CHHHHHHHHHHHHHHHhCcCC-CcccHHHhcCCCccccCcHHHHhCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHH
Confidence            468999999999999999999 9999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcCCCCHHHHHHHHHHHHHHH
Q psy15468        538 CKYNEPDSHIYKDALSLQRIVLQ  560 (653)
Q Consensus       538 ~~YN~~~S~iy~dA~~L~~~~~~  560 (653)
                      +.||+++|.+|.+|..|++.|..
T Consensus        80 ~~yn~~~s~i~~~A~~l~~~f~~  102 (104)
T cd05522          80 KLYNENDSQEYKDAVLLEKEARL  102 (104)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999964

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.

>cd05526 Bromo_polybromo_VI Bromodomain, polybromo repeat VI

Probab=99.91  E-value=5.7e-24  Score=190.17  Aligned_cols=107  Identities=21%  Similarity=0.380  Sum_probs=102.0

Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q psy15468        458 ASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA  537 (653)
Q Consensus       458 ~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na  537 (653)
                      .+++.+..|+++|++++|+.| |.+|.+|++||+.  .++||.+|++||||++|++||++|.|.++++|..||.+||.||
T Consensus         3 ~vq~~l~~l~~~V~~~~D~~G-r~~s~~f~~LP~~--~~~~~~~ik~Pi~l~~Ik~ki~~~~Y~~ld~~~~D~~lmf~NA   79 (110)
T cd05526           3 LVQELLATLFVSVMNHQDEEG-RCYSDSLAELPEL--AVDGVGPKKIPLTLDIIKRNVDKGRYRRLDKFQEDMFEVLERA   79 (110)
T ss_pred             HHHHHHHHHHHHHHhccCCCC-CCchHHHHHCCCc--ccCchhhhcCCccHHHHHHHHHcCCcCcHHHHHHHHHHHHHHH
Confidence            467889999999999999999 9999999999994  5788999999999999999999999999999999999999999


Q ss_pred             hhhcCCCCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        538 CKYNEPDSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       538 ~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      ++||+++|+||.+|..||++|..++.++.+
T Consensus        80 r~yN~~~S~iy~dA~eLq~~f~~~rd~~~~  109 (110)
T cd05526          80 RRLSRTDSEIYEDAVELQQFFIKIRDELCK  109 (110)
T ss_pred             HHhCcccCHHHHHHHHHHHHHHHHHHHHhc
Confidence            999999999999999999999999998875

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.

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

Probab=99.90  E-value=6.3e-24  Score=190.23  Aligned_cols=101  Identities=35%  Similarity=0.559  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy15468        459 SLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNAC  538 (653)
Q Consensus       459 ~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~  538 (653)
                      +.++|+.+++.|++++++.| ++++.+|..+|++..+||||++|++||||++|++||++  |.|+++|.+|+.|||.||+
T Consensus         2 l~~~~~~l~~~i~~~~~~~g-~~~~~~F~~lp~~~~~pdYy~iI~~PmdL~tI~~kl~~--Y~s~~ef~~D~~li~~Na~   78 (106)
T cd05521           2 LSKKLKPLYDGIYTLKEENG-IEIHPIFNVLPLRKDYPDYYKIIKNPLSLNTVKKRLPH--YTNAQEFVNDLAQIPWNAR   78 (106)
T ss_pred             HHHHHHHHHHHHHhhcCcCC-CCchHhhhcCCccccCccHHHHhcCCCCHHHHHHHHHc--CCCHHHHHHHHHHHHHHHH
Confidence            57889999999999999988 99999999999999999999999999999999999998  9999999999999999999


Q ss_pred             hhcCCCCHHHHHHHHHHHHHHHHH
Q psy15468        539 KYNEPDSHIYKDALSLQRIVLQTK  562 (653)
Q Consensus       539 ~YN~~~S~iy~dA~~L~~~~~~~~  562 (653)
                      .||+++|.+|.+|..|+++|..+.
T Consensus        79 ~yN~~~s~i~~~A~~le~~~~~~~  102 (106)
T cd05521          79 LYNTKGSVIYKYALILEKYINDVI  102 (106)
T ss_pred             HHcCCCCHHHHHHHHHHHHHHHhh
Confidence            999999999999999999997664

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.

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

Probab=99.90  E-value=5.3e-24  Score=187.88  Aligned_cols=95  Identities=21%  Similarity=0.352  Sum_probs=91.4

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      .++|..|++.|+++++      +++|..||++..+||||++|++||||+||++||++|.|.++++|.+||+|||.||+.|
T Consensus         2 ~~~c~~il~~l~~~~~------s~~F~~pv~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~y   75 (97)
T cd05505           2 LQKCEEILSKILKYRF------SWPFREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKY   75 (97)
T ss_pred             HHHHHHHHHHHHhCCC------cccccCCCChhhcccHHHHcCCcCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            5789999999998876      8999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHH
Q psy15468        355 NEPGSQIYKDAKALKKLVQTK  375 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~  375 (653)
                      |+++|.|+..|..|++.|.+.
T Consensus        76 N~~~s~i~~~a~~le~~f~~~   96 (97)
T cd05505          76 YENGSYVLSCMRKTEQCCVNL   96 (97)
T ss_pred             CCCCCHHHHHHHHHHHHHHHh
Confidence            999999999999999999764

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.

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

Probab=99.90  E-value=1.1e-23  Score=188.67  Aligned_cols=101  Identities=30%  Similarity=0.601  Sum_probs=97.3

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      .++|+.|++.|+++++++|++++.+|+.+|++..+||||++|++||||++|++||++  |.++++|..|+.|||+||+.|
T Consensus         3 ~~~~~~l~~~i~~~~~~~g~~~~~~F~~lp~~~~~pdYy~iI~~PmdL~tI~~kl~~--Y~s~~ef~~D~~li~~Na~~y   80 (106)
T cd05521           3 SKKLKPLYDGIYTLKEENGIEIHPIFNVLPLRKDYPDYYKIIKNPLSLNTVKKRLPH--YTNAQEFVNDLAQIPWNARLY   80 (106)
T ss_pred             HHHHHHHHHHHHhhcCcCCCCchHhhhcCCccccCccHHHHhcCCCCHHHHHHHHHc--CCCHHHHHHHHHHHHHHHHHH
Confidence            467999999999999999999999999999999999999999999999999999998  999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHH
Q psy15468        355 NEPGSQIYKDAKALKKLVQTKKM  377 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~~~  377 (653)
                      |+++|.+|.+|..|+++|..++.
T Consensus        81 N~~~s~i~~~A~~le~~~~~~~~  103 (106)
T cd05521          81 NTKGSVIYKYALILEKYINDVII  103 (106)
T ss_pred             cCCCCHHHHHHHHHHHHHHHhhc
Confidence            99999999999999999987653

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.

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

Probab=99.90  E-value=8.3e-24  Score=229.81  Aligned_cols=219  Identities=26%  Similarity=0.395  Sum_probs=183.6

Q ss_pred             HHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchH
Q psy15468        102 DAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDF  181 (653)
Q Consensus       102 ~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~  181 (653)
                      +.+..++..+..+.+.+|+.+..+|+.+|+++.+|+||+||+.||||++|++||++++                      
T Consensus       145 ~~~~~i~~~~~~~~~~~~~~~s~~F~~~p~k~~~PdYy~iIk~Pm~L~~i~kkl~~~~----------------------  202 (371)
T COG5076         145 ADNKAIAKFKKQLFLRDGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGR----------------------  202 (371)
T ss_pred             HHHHHHHHHHHHhhcccccccccccccCCccccCCChheeecchhhHHHHHHHHHhhh----------------------
Confidence            5567788888899999999999999999999999999999999999999999999999                      


Q ss_pred             HHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccCCCCCCCccccccccccCCCcc
Q psy15468        182 IKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASET  261 (653)
Q Consensus       182 ~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~  261 (653)
                                 |.++++|..|+.|||+||..||+++|.++.+|..|.+.+....+.+.......  ...+.       ..
T Consensus       203 -----------Y~s~eef~~D~~lM~~N~~~yN~~~s~v~~~a~~l~~~~~~~i~~~~~~~~~~--~~~~~-------~~  262 (371)
T COG5076         203 -----------YKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFLKLIEEIPEEMLEL--SIKPG-------RE  262 (371)
T ss_pred             -----------hhhHHHHHHHHHHHHHhhhhccCCCcchhhhhHHHHHHHHHHHHhccccchhh--ccCcc-------cc
Confidence                       99999999999999999999999999999999999999999888764422211  00000       00


Q ss_pred             cCCCCCCCCChHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHH
Q psy15468        262 EDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDME  341 (653)
Q Consensus       262 ~~~~~ss~~~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~  341 (653)
                      ...           .+-..++..+      ..+.-+|+|..+++....|+|++.|..++++.+.+.++..+.|...++|.
T Consensus       263 ~~~-----------~~~~~~i~~~------~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  325 (371)
T COG5076         263 ERE-----------ERESVLITNS------QAHVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTKELKLRNNYYRPEETFV  325 (371)
T ss_pred             ccc-----------cchhhccccc------ccccccccccccCCcccccchhhhhhcccccccchhhhhcccCCCccccc
Confidence            000           0111112222      23445899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhCCCCCHHHHHHHHHHHHHHHHHHhh
Q psy15468        342 KDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEI  379 (653)
Q Consensus       342 ~Dv~Lmf~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i  379 (653)
                      .|..++++||..||+...+.+..+..+...+......+
T Consensus       326 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  363 (371)
T COG5076         326 RDAKLFFDNCVMYNGEVTDYYKNANVLEDFVIKKTRLI  363 (371)
T ss_pred             cccchhhhcccccchhhhhhhhhccchhhhHhhhhhhh
Confidence            99999999999999999999999999988887665443

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

Probab=99.89  E-value=2.6e-23  Score=185.97  Aligned_cols=99  Identities=36%  Similarity=0.552  Sum_probs=96.6

Q ss_pred             HHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhC
Q psy15468        276 NQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFN  355 (653)
Q Consensus       276 ~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN  355 (653)
                      +.+..|++.|++++|++|++++++|+++|++..+|+||++|++||||++|++||+++.|.++++|..|+.|||.||+.||
T Consensus         4 ~~~~~i~~~v~~~~d~~g~~l~~~F~~~p~~~~~pdYy~~I~~Pmdl~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yn   83 (104)
T cd05522           4 ARIKNILKGLRKERDENGRLLTLHFEKLPDKAREPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAKLYN   83 (104)
T ss_pred             HHHHHHHHHHHHHhCcCCCcccHHHhcCCCccccCcHHHHhCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHH
Q psy15468        356 EPGSQIYKDAKALKKLVQT  374 (653)
Q Consensus       356 ~~~S~i~~~A~~L~~~~~~  374 (653)
                      +++|.+|.+|..|++.|+.
T Consensus        84 ~~~s~i~~~A~~l~~~f~~  102 (104)
T cd05522          84 ENDSQEYKDAVLLEKEARL  102 (104)
T ss_pred             CCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999975

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.

>cd05496 Bromo_WDR9_II Bromodomain; WDR9 repeat II_like subfamily

Probab=99.89  E-value=4.1e-23  Score=188.52  Aligned_cols=101  Identities=29%  Similarity=0.502  Sum_probs=96.3

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      .+.|..|++.|+++.+      +++|+.||+...+||||++|++||||+||++||.+|.|.++++|..||+|||.||+.|
T Consensus         7 ~~~c~~il~~l~~~~~------s~~F~~PVd~~~~pdY~~iIk~PmDL~tIk~kL~~~~Y~~~~ef~~D~~lif~Na~~y   80 (119)
T cd05496           7 KKQCKELVNLMWDCED------SEPFRQPVDLLKYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSNSKSY   80 (119)
T ss_pred             HHHHHHHHHHHHhCCc------cccccCCCChhhcCcHHHHhCCcccHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            6889999999999876      9999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCC-CCHHHHHHHHHHHHHHHHHHhhhc
Q psy15468        355 NEP-GSQIYKDAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       355 N~~-~S~i~~~A~~L~~~~~~~~~~i~~  381 (653)
                      |++ +|.||.+|..|+++|++++.++..
T Consensus        81 N~~~~s~i~~~a~~L~~~F~~~~~~l~~  108 (119)
T cd05496          81 TPNKRSRIYSMTLRLSALFEEHIKKIIS  108 (119)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            985 999999999999999999988754

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.

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

Probab=99.89  E-value=3.7e-23  Score=182.52  Aligned_cols=95  Identities=21%  Similarity=0.364  Sum_probs=90.1

Q ss_pred             HHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCch
Q psy15468        101 SDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPID  180 (653)
Q Consensus       101 ~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d  180 (653)
                      .+.|..|++.|.+++.      ++||+.||++..+||||+||++||||+||++||++|.                     
T Consensus         2 ~~~c~~il~~l~~~~~------s~~F~~pv~~~~~pdY~~iIk~PmDL~tI~~kl~~~~---------------------   54 (97)
T cd05505           2 LQKCEEILSKILKYRF------SWPFREPVTADEAEDYKKVITNPMDLQTMQTKCSCGS---------------------   54 (97)
T ss_pred             HHHHHHHHHHHHhCCC------cccccCCCChhhcccHHHHcCCcCCHHHHHHHHcCCC---------------------
Confidence            4678999999998764      8999999999999999999999999999999999999                     


Q ss_pred             HHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHH
Q psy15468        181 FIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHST  234 (653)
Q Consensus       181 ~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~  234 (653)
                                  |.++++|..|+.|||+||..||+++|.++..|.+|++.|...
T Consensus        55 ------------Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~a~~le~~f~~~   96 (97)
T cd05505          55 ------------YSSVQEFLDDMKLVFSNAEKYYENGSYVLSCMRKTEQCCVNL   96 (97)
T ss_pred             ------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHh
Confidence                        999999999999999999999999999999999999998764

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=99.89  E-value=5.9e-23  Score=184.51  Aligned_cols=99  Identities=26%  Similarity=0.381  Sum_probs=90.4

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccC--CCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKK--RYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC  352 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~--~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~  352 (653)
                      ...++.|++.|+++..      |++|..||+..  ++||||++|++||||+||++||+++.|.++++|.+||+|||.||+
T Consensus         7 ~~~~~~il~~l~~~~~------s~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~D~~li~~Na~   80 (107)
T cd05497           7 QYLLKVVLKALWKHKF------AWPFQQPVDAVKLNLPDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCY   80 (107)
T ss_pred             HHHHHHHHHHHHhCCc------CccccCCCCcccccCCcHHHHHcCcccHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHH
Confidence            3455677888887654      99999999865  799999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHHhh
Q psy15468        353 TFNEPGSQIYKDAKALKKLVQTKKMEI  379 (653)
Q Consensus       353 ~yN~~~S~i~~~A~~L~~~~~~~~~~i  379 (653)
                      .||+++|.|+.+|..|+++|.++++++
T Consensus        81 ~yN~~~s~i~~~A~~l~~~f~~~l~~~  107 (107)
T cd05497          81 IYNKPGDDVVLMAQTLEKLFLQKLAQM  107 (107)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHcC
Confidence            999999999999999999999988753

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.

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

Probab=99.89  E-value=4.3e-23  Score=224.19  Aligned_cols=218  Identities=31%  Similarity=0.479  Sum_probs=182.0

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      .+.+..++..+....+.+|+.+..+|+.+|++..+|+||++|+.||||.+|++||+.+.|.++++|..|+.|||.||+.|
T Consensus       144 ~~~~~~i~~~~~~~~~~~~~~~s~~F~~~p~k~~~PdYy~iIk~Pm~L~~i~kkl~~~~Y~s~eef~~D~~lM~~N~~~y  223 (371)
T COG5076         144 YADNKAIAKFKKQLFLRDGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNCKLY  223 (371)
T ss_pred             HHHHHHHHHHHHHhhcccccccccccccCCccccCCChheeecchhhHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhc
Confidence            57788888888888888999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhhhcCCCCCCCcccccccccccCCCCchhhhhcCCCCCCCCCCcccccCCCCCCCch
Q psy15468        355 NEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQEDPNSPLW  434 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~~~~i~~~~~~~~~k~~r~~~~~~~~~~~~~~~~~~~~~e~~~~sd~e~~~~~~~~~P~~  434 (653)
                      |+++|.||.+|..|++.+...+..++.........     ..               .   .   ..+       ..+. 
T Consensus       224 N~~~s~v~~~a~~l~~~~~~~i~~~~~~~~~~~~~-----~~---------------~---~---~~~-------~~~~-  269 (371)
T COG5076         224 NGPDSSVYVDAKELEKYFLKLIEEIPEEMLELSIK-----PG---------------R---E---ERE-------ERES-  269 (371)
T ss_pred             cCCCcchhhhhHHHHHHHHHHHHhccccchhhccC-----cc---------------c---c---ccc-------cchh-
Confidence            99999999999999999999988876543211000     00               0   0   000       0000 


Q ss_pred             hhhhhhhccccCCcccccccCCHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHH
Q psy15468        435 QVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASK  514 (653)
Q Consensus       435 ~~~~~ir~~~~~g~~~~~s~~~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~k  514 (653)
                                                    .++..+      .. +.-+|+|++++.....|+|++.|..++++++.+.+
T Consensus       270 ------------------------------~~i~~~------~~-~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  312 (371)
T COG5076         270 ------------------------------VLITNS------QA-HVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTKELK  312 (371)
T ss_pred             ------------------------------hccccc------cc-ccccccccccCCcccccchhhhhhcccccccchhh
Confidence                                          000000      11 34478999999999999999999999999999999


Q ss_pred             HhcCCCCCHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHH
Q psy15468        515 LRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKM  563 (653)
Q Consensus       515 l~~~~Y~s~~ef~~D~~Lmf~Na~~YN~~~S~iy~dA~~L~~~~~~~~~  563 (653)
                      +..+.|...++|+.|..++|.||..||+.....++-+..+..++.....
T Consensus       313 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  361 (371)
T COG5076         313 LRNNYYRPEETFVRDAKLFFDNCVMYNGEVTDYYKNANVLEDFVIKKTR  361 (371)
T ss_pred             hhcccCCCccccccccchhhhcccccchhhhhhhhhccchhhhHhhhhh
Confidence            9999999999999999999999999999999999999999888866544

>cd05504 Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_like subfamily

Probab=99.88  E-value=9.8e-23  Score=185.40  Aligned_cols=104  Identities=24%  Similarity=0.405  Sum_probs=98.6

Q ss_pred             ChHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHh
Q psy15468        271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN  350 (653)
Q Consensus       271 ~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~N  350 (653)
                      ...+...|..|++.|+.+.+      +++|..||+...+|+||++|++||||+||++||++|.|.++++|..||.|||.|
T Consensus        10 ~~~~~~~c~~il~~l~~~~~------s~~F~~pvd~~~~pdY~~vI~~PmDL~tI~~kL~~~~Y~s~~~f~~Dv~LI~~N   83 (115)
T cd05504          10 GPLNLSALEQLLVEIVKHKD------SWPFLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLVFSN   83 (115)
T ss_pred             CHHHHHHHHHHHHHHHhCCC------chhhcCCCCccccccHHHHhcCcccHHHHHHHHccCCCCCHHHHHHHHHHHHHH
Confidence            45678999999999998765      899999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        351 ACTFNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       351 a~~yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      |+.||+++|.++.+|..|+++|.++++++.
T Consensus        84 a~~yN~~~s~i~~~A~~l~~~f~~~~~~~~  113 (115)
T cd05504          84 CFLYNPEHTSVYKAGTRLQRFFIKRCRKLG  113 (115)
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999999999999999988763

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=99.88  E-value=1.3e-22  Score=182.73  Aligned_cols=102  Identities=24%  Similarity=0.422  Sum_probs=95.0

Q ss_pred             hHHHHHHHHHHHHHHhc-cCCCCcccccccccccccC--CCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q psy15468        272 EDEQNQCEDLFNAVMTS-TDADSRPLHEVFQLLPSKK--RYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMT  348 (653)
Q Consensus       272 ~~~~~~~~~ll~~l~~~-~d~~g~~~a~~F~~~p~~~--~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf  348 (653)
                      ++..+.|..+++.|+++ ..      |++|..||+..  ++|+||++|++||||+||++||.+|.|.++++|.+|++|||
T Consensus         2 ~~l~~~~~~il~~l~~~~~~------s~~F~~PV~~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~D~~li~   75 (108)
T cd05495           2 EELRQALMPTLEKLYKQDPE------SLPFRQPVDPKLLGIPDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMF   75 (108)
T ss_pred             HHHHHHHHHHHHHHHHcCcc------cchhcCCCCccccCCCcHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence            34578899999999987 54      99999999875  79999999999999999999999999999999999999999


Q ss_pred             HhhhhhCCCCCHHHHHHHHHHHHHHHHHHhh
Q psy15468        349 KNACTFNEPGSQIYKDAKALKKLVQTKKMEI  379 (653)
Q Consensus       349 ~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i  379 (653)
                      .||+.||+++|.+|.+|..|++.|++.+..+
T Consensus        76 ~Na~~yN~~~s~i~~~a~~l~~~F~~~~~~~  106 (108)
T cd05495          76 DNAWLYNRKTSRVYKYCTKLAEVFEQEIDPV  106 (108)
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999988765

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.

>cd05497 Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily, repeat I

Probab=99.88  E-value=7.6e-23  Score=183.80  Aligned_cols=96  Identities=21%  Similarity=0.362  Sum_probs=87.2

Q ss_pred             HHHHHHHHHhhhhhcCCccccccccCCCCC--CCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchH
Q psy15468        104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKR--QEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDF  181 (653)
Q Consensus       104 ~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~--~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~  181 (653)
                      ++.|++.|..++      .|+||..||+..  .+||||+||++||||+||++||+++.                      
T Consensus        10 ~~~il~~l~~~~------~s~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~----------------------   61 (107)
T cd05497          10 LKVVLKALWKHK------FAWPFQQPVDAVKLNLPDYHKIIKTPMDLGTIKKRLENNY----------------------   61 (107)
T ss_pred             HHHHHHHHHhCC------cCccccCCCCcccccCCcHHHHHcCcccHHHHHHHHcCCC----------------------
Confidence            356677776654      499999999865  79999999999999999999999999                      


Q ss_pred             HHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhc
Q psy15468        182 IKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL  238 (653)
Q Consensus       182 ~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~  238 (653)
                                 |.++++|..|++|||.||..||+++|+++.+|..|.+.|.+.+.++
T Consensus        62 -----------Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~A~~l~~~f~~~l~~~  107 (107)
T cd05497          62 -----------YWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLEKLFLQKLAQM  107 (107)
T ss_pred             -----------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHcC
Confidence                       9999999999999999999999999999999999999999887654

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=99.88  E-value=7.9e-23  Score=180.73  Aligned_cols=96  Identities=25%  Similarity=0.469  Sum_probs=91.7

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      ...|..|++.|+.+..      +++|+.||+...+|+||++|++||||+||++||++|.|.++++|..|++|||.||+.|
T Consensus         2 ~~~c~~il~~l~~~~~------~~~F~~pv~~~~~p~Y~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~y   75 (97)
T cd05503           2 LALCETILDEMEAHED------AWPFLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETF   75 (97)
T ss_pred             HHHHHHHHHHHHcCCC------chhhcCCCCccccCCHHHHhCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHH
Confidence            5789999999998754      9999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHH
Q psy15468        355 NEPGSQIYKDAKALKKLVQTKK  376 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~~  376 (653)
                      |+++|.++.+|..|++.|+++|
T Consensus        76 N~~~s~i~~~a~~l~~~f~~~~   97 (97)
T cd05503          76 NEDDSEVGRAGHNMRKFFEKRW   97 (97)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhC
Confidence            9999999999999999998764

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=99.88  E-value=1.6e-22  Score=184.65  Aligned_cols=104  Identities=22%  Similarity=0.334  Sum_probs=97.1

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy15468        457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDN  536 (653)
Q Consensus       457 ~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~N  536 (653)
                      ..|++.|..|++.|.+       +..+++|..||+...+||||++|++||||+||++||.+|.|.++++|.+||+|||.|
T Consensus         4 ~~w~~~c~~il~~l~~-------~~~s~~F~~PVd~~~~pdY~~iIk~PmDL~tIk~kL~~~~Y~~~~ef~~D~~lif~N   76 (119)
T cd05496           4 SDWKKQCKELVNLMWD-------CEDSEPFRQPVDLLKYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSN   76 (119)
T ss_pred             HHHHHHHHHHHHHHHh-------CCccccccCCCChhhcCcHHHHhCCcccHHHHHHHHhCCCCCCHHHHHHHHHHHHHH
Confidence            3588899999999987       456899999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCC-CCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        537 ACKYNEP-DSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       537 a~~YN~~-~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      |++||++ +|.||.+|..|+++|++.+.+|..
T Consensus        77 a~~yN~~~~s~i~~~a~~L~~~F~~~~~~l~~  108 (119)
T cd05496          77 SKSYTPNKRSRIYSMTLRLSALFEEHIKKIIS  108 (119)
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999985 999999999999999999888754

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.

>cd05499 Bromo_BDF1_2_II Bromodomain

Probab=99.88  E-value=1.6e-22  Score=180.37  Aligned_cols=99  Identities=28%  Similarity=0.545  Sum_probs=93.2

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccC--CCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKK--RYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC  352 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~--~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~  352 (653)
                      .+.|..|++.|++.++   +.++++|+.||+..  .+|+||++|++||||++|++||+++.|.++++|..|++|||.||+
T Consensus         2 ~~~c~~Il~~l~~~~~---~~~s~~F~~pvd~~~~~~pdY~~~I~~P~dL~~I~~kl~~~~Y~s~~ef~~D~~li~~N~~   78 (102)
T cd05499           2 LKFCEEVLKELMKPKH---SAYNWPFLDPVDPVALNIPNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCY   78 (102)
T ss_pred             hHHHHHHHHHHHcccC---CcccchhcCCCCccccCCCCHHHHhcCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHH
Confidence            5789999999998753   67899999998877  999999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHH
Q psy15468        353 TFNEPGSQIYKDAKALKKLVQTKK  376 (653)
Q Consensus       353 ~yN~~~S~i~~~A~~L~~~~~~~~  376 (653)
                      .||+++|.++.+|..|++.|+++|
T Consensus        79 ~yn~~~s~~~~~a~~l~~~fe~~~  102 (102)
T cd05499          79 TFNPEGTDVYMMGHQLEEVFNDKW  102 (102)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHhC
Confidence            999999999999999999998764

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.

>cd05504 Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_like subfamily

Probab=99.87  E-value=1.8e-22  Score=183.62  Aligned_cols=101  Identities=26%  Similarity=0.412  Sum_probs=95.6

Q ss_pred             ChHHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCC
Q psy15468         99 DPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNP  178 (653)
Q Consensus        99 ~~~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P  178 (653)
                      -....|..|++.|..++.      +++|+.||+...+||||++|++||||+||++||++|.                   
T Consensus        12 ~~~~~c~~il~~l~~~~~------s~~F~~pvd~~~~pdY~~vI~~PmDL~tI~~kL~~~~-------------------   66 (115)
T cd05504          12 LNLSALEQLLVEIVKHKD------SWPFLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGE-------------------   66 (115)
T ss_pred             HHHHHHHHHHHHHHhCCC------chhhcCCCCccccccHHHHhcCcccHHHHHHHHccCC-------------------
Confidence            356889999999998753      8999999999999999999999999999999999999                   


Q ss_pred             chHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhc
Q psy15468        179 IDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL  238 (653)
Q Consensus       179 ~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~  238 (653)
                                    |.++++|..|+.|||+||..||+++|+++++|..|++.|.+.++++
T Consensus        67 --------------Y~s~~~f~~Dv~LI~~Na~~yN~~~s~i~~~A~~l~~~f~~~~~~~  112 (115)
T cd05504          67 --------------YKLAEEFLSDIQLVFSNCFLYNPEHTSVYKAGTRLQRFFIKRCRKL  112 (115)
T ss_pred             --------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence                          9999999999999999999999999999999999999999998876

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.

>cd05502 Bromo_tif1_like Bromodomain; tif1_like subfamily

Probab=99.87  E-value=4.5e-22  Score=179.62  Aligned_cols=103  Identities=30%  Similarity=0.471  Sum_probs=96.8

Q ss_pred             hHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhC---CCCCCHHHHHHHHHHHH
Q psy15468        272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQD---GKYASLGDMEKDLILMT  348 (653)
Q Consensus       272 ~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~---~~Y~s~~ef~~Dv~Lmf  348 (653)
                      ..+.+.|+.|+..|+++.      .+++|..||++ .+|+||++|++||||+||++||++   |.|.++++|.+||+|||
T Consensus         3 ~~~~~~c~~il~~l~~~~------~s~~F~~pv~~-~~p~Y~~iI~~PmdL~tI~~kL~~~~~~~Y~s~~~f~~D~~li~   75 (109)
T cd05502           3 PIDQRKCERLLLELYCHE------LSLPFHEPVSP-SVPNYYKIIKTPMDLSLIRKKLQPKSPQHYSSPEEFVADVRLMF   75 (109)
T ss_pred             HHHHHHHHHHHHHHHhCC------CChhhcCCCCC-CCCCHHHHCCCCccHHHHHHHHhcCCCCCCCCHHHHHHHHHHHH
Confidence            467899999999999874      49999999998 899999999999999999999998   69999999999999999


Q ss_pred             HhhhhhCCCCCHHHHHHHHHHHHHHHHHHhhhc
Q psy15468        349 KNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       349 ~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~  381 (653)
                      +||+.||+++|.++.+|..|++.|++++.++.+
T Consensus        76 ~Na~~yN~~~s~i~~~a~~l~~~f~~~~~~~~p  108 (109)
T cd05502          76 KNCYKFNEEDSEVAQAGKELELFFEEQLKEILP  108 (109)
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCc
Confidence            999999999999999999999999999987653

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.

>cd05503 Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like subfamily

Probab=99.87  E-value=2.1e-22  Score=178.00  Aligned_cols=96  Identities=24%  Similarity=0.512  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCch
Q psy15468        101 SDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPID  180 (653)
Q Consensus       101 ~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d  180 (653)
                      +..|..|++.|..+.      .+++|+.||+...+||||++|++||||+||++||++|.                     
T Consensus         2 ~~~c~~il~~l~~~~------~~~~F~~pv~~~~~p~Y~~iIk~PmdL~tI~~kl~~~~---------------------   54 (97)
T cd05503           2 LALCETILDEMEAHE------DAWPFLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQ---------------------   54 (97)
T ss_pred             HHHHHHHHHHHHcCC------CchhhcCCCCccccCCHHHHhCCCCCHHHHHHHHccCC---------------------
Confidence            467999999999864      38999999999999999999999999999999999999                     


Q ss_pred             HHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHh
Q psy15468        181 FIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTR  235 (653)
Q Consensus       181 ~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~  235 (653)
                                  |.++.+|..|+.|||.||..||+++|.++++|..|.+.|++.|
T Consensus        55 ------------Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~a~~l~~~f~~~~   97 (97)
T cd05503          55 ------------YKTLEEFAEDVRLVFDNCETFNEDDSEVGRAGHNMRKFFEKRW   97 (97)
T ss_pred             ------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence                        9999999999999999999999999999999999999998865

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.

>cd05508 Bromo_RACK7 Bromodomain, RACK7_like subfamily

Probab=99.87  E-value=2.7e-22  Score=177.55  Aligned_cols=80  Identities=19%  Similarity=0.419  Sum_probs=77.4

Q ss_pred             cccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchHHHHhhhcccCcCCCHHHHHH
Q psy15468        122 LCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQA  201 (653)
Q Consensus       122 ~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~~~~~~~~~~~~Y~~~~~f~~  201 (653)
                      .|+||..||+...+||||++|++||||+||++||++|.                                 |.++++|.+
T Consensus        19 ~s~~F~~PV~~~~~pdY~~iIk~PmDL~tI~~kl~~~~---------------------------------Y~s~~ef~~   65 (99)
T cd05508          19 GAEPFLKPVDLEQFPDYAQYVFKPMDLSTLEKNVRKKA---------------------------------YGSTDAFLA   65 (99)
T ss_pred             CcchhcCCCChhhCCCHHHHcCCCCCHHHHHHHHhcCC---------------------------------CCCHHHHHH
Confidence            39999999999999999999999999999999999999                                 999999999


Q ss_pred             HHHHHHHhhhccccCCCHHHHHHHHHHHHHHHH
Q psy15468        202 DIELLVKNAKTFYKRNSQEHRDAQELMELFHST  234 (653)
Q Consensus       202 D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~  234 (653)
                      |+.|||+||..||+++|.++.+|..|.+.|...
T Consensus        66 Dv~LI~~Na~~YN~~~s~i~~~A~~l~~~~~~e   98 (99)
T cd05508          66 DAKWILHNAIIYNGGDHKLTQAAKAIVKICEQE   98 (99)
T ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999988764

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.

>cd05507 Bromo_brd8_like Bromodomain, brd8_like subgroup

Probab=99.87  E-value=3.6e-22  Score=178.72  Aligned_cols=98  Identities=22%  Similarity=0.389  Sum_probs=92.9

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      .+.|..+++.|.+++.      +++|.+||+...+|+||++|++||||+||++||++|.|.++++|.+||.|||.||..|
T Consensus         5 ~~~~~~il~~l~~~~~------a~~F~~pV~~~~~p~Y~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~y   78 (104)
T cd05507           5 KKAILLVYRTLASHRY------ASVFLKPVTEDIAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMY   78 (104)
T ss_pred             HHHHHHHHHHHHcCCC------CHhhcCCCCccccCCHHHHhCCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            5779999999998865      9999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHh
Q psy15468        355 NEPGSQIYKDAKALKKLVQTKKME  378 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~~~~  378 (653)
                      |+++|.++.+|..|++.+.+.+..
T Consensus        79 N~~~s~v~~~A~~l~~~~~~~~~~  102 (104)
T cd05507          79 NSSDHDVYLMAVEMQREVMSQIQQ  102 (104)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhhc
Confidence            999999999999999999887654

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=99.87  E-value=5.2e-22  Score=179.61  Aligned_cols=103  Identities=27%  Similarity=0.396  Sum_probs=95.2

Q ss_pred             HHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhh
Q psy15468        273 DEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC  352 (653)
Q Consensus       273 ~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~  352 (653)
                      +..+.|..|++.|++++     ..+++|+.||++..+|+||++|++||||+||++||++|.|.++++|.+|++|||.||+
T Consensus         7 ~~~~~~~~il~~l~~~~-----~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~Li~~N~~   81 (112)
T cd05510           7 EFYESLDKVLNELKTYT-----EHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWKNCL   81 (112)
T ss_pred             HHHHHHHHHHHHHHhcC-----ccccchhcCCChhhcCCHHHHhcCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHH
Confidence            34688999999999983     2399999999999999999999999999999999999999999999999999999999


Q ss_pred             hhCCCCC-HHHHHHHHHHHHHHHHHHhhh
Q psy15468        353 TFNEPGS-QIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       353 ~yN~~~S-~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      .||+++| .++.+|..|++.++..+..++
T Consensus        82 ~yN~~~s~~~~~~A~~l~~~~~~~~~~~~  110 (112)
T cd05510          82 LYNSDPSHPLRRHANFMKKKAEHLLKLIP  110 (112)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHCC
Confidence            9999876 678999999999999988775

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.

>cd05495 Bromo_cbp_like Bromodomain, cbp_like subfamily

Probab=99.87  E-value=5.1e-22  Score=178.80  Aligned_cols=100  Identities=23%  Similarity=0.414  Sum_probs=87.5

Q ss_pred             HHHHHHHHHHHhhhhhcCCccccccccCCCCC--CCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCc
Q psy15468        102 DAMQQIYDVIRNFKKEDGALLCDPFIRIPKKR--QEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPI  179 (653)
Q Consensus       102 ~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~--~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~  179 (653)
                      ..|..+++.+.++.  .   .|++|+.||+..  .+||||+||++||||+||++||++|.                    
T Consensus         6 ~~~~~il~~l~~~~--~---~s~~F~~PV~~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~--------------------   60 (108)
T cd05495           6 QALMPTLEKLYKQD--P---ESLPFRQPVDPKLLGIPDYFDIVKNPMDLSTIRRKLDTGQ--------------------   60 (108)
T ss_pred             HHHHHHHHHHHHcC--c---ccchhcCCCCccccCCCcHHHHhCCCCCHHHHHHHHhcCC--------------------
Confidence            34455555555541  2   399999999865  79999999999999999999999999                    


Q ss_pred             hHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhcc
Q psy15468        180 DFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLL  239 (653)
Q Consensus       180 d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~  239 (653)
                                   |.++.+|..|++|||+||..||+++|.++++|.+|.+.|.+.++.++
T Consensus        61 -------------Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~a~~l~~~F~~~~~~~~  107 (108)
T cd05495          61 -------------YQDPWQYVDDVWLMFDNAWLYNRKTSRVYKYCTKLAEVFEQEIDPVM  107 (108)
T ss_pred             -------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHh
Confidence                         99999999999999999999999999999999999999999877653

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.

>cd05501 Bromo_SP100C_like Bromodomain, SP100C_like subfamily

Probab=99.87  E-value=7.3e-22  Score=174.80  Aligned_cols=97  Identities=21%  Similarity=0.288  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhh
Q psy15468        274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT  353 (653)
Q Consensus       274 ~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~  353 (653)
                      +.+.|+.|+..|+.+.+      +++|...|  ..+||||++|++||||+||++||.+|.|.++++|.+||+|||.||++
T Consensus         3 ~l~~ce~il~~l~~~~~------s~~f~~~p--~~~pdY~~iIk~PMDL~tI~~kL~~~~Y~s~~ef~~D~~Lif~N~~~   74 (102)
T cd05501           3 ELLKCEFLLLKVYCMSK------SGFFISKP--YYIRDYCQGIKEPMWLNKVKERLNERVYHTVEGFVRDMRLIFHNHKL   74 (102)
T ss_pred             HHHHHHHHHHHHHhCcc------cccccCCC--CCCCchHHHcCCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH
Confidence            56789999999999876      88897655  48999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHHhh
Q psy15468        354 FNEPGSQIYKDAKALKKLVQTKKMEI  379 (653)
Q Consensus       354 yN~~~S~i~~~A~~L~~~~~~~~~~i  379 (653)
                      ||+++ .++.+|..|++.|+++++++
T Consensus        75 yN~~~-~~~~~a~~L~~~Fek~~~~~   99 (102)
T cd05501          75 FYKDD-DFGQVGITLEKKFEKNFKEV   99 (102)
T ss_pred             HcCCC-HHHHHHHHHHHHHHHHHHHH
Confidence            99999 99999999999999998865

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.

>cd05508 Bromo_RACK7 Bromodomain, RACK7_like subfamily

Probab=99.87  E-value=5.2e-22  Score=175.73  Aligned_cols=94  Identities=20%  Similarity=0.325  Sum_probs=85.1

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      ...|..+++.+. +      +.+++|.+||+...+||||++|++||||+||++||++|.|.++++|.+|++|||.||..|
T Consensus         5 ~~~L~~~~~~~~-~------~~s~~F~~PV~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~LI~~Na~~Y   77 (99)
T cd05508           5 SKLLKFALERMK-Q------PGAEPFLKPVDLEQFPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNAIIY   77 (99)
T ss_pred             HHHHHHHHHHHh-C------cCcchhcCCCChhhCCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            345566666665 4      349999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHH
Q psy15468        355 NEPGSQIYKDAKALKKLVQTK  375 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~  375 (653)
                      |+++|.++.+|..|.+.|...
T Consensus        78 N~~~s~i~~~A~~l~~~~~~e   98 (99)
T cd05508          78 NGGDHKLTQAAKAIVKICEQE   98 (99)
T ss_pred             CCCCCHHHHHHHHHHHHHHhh
Confidence            999999999999999988753

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.

>cd05509 Bromo_gcn5_like Bromodomain; Gcn5_like subfamily

Probab=99.87  E-value=6.1e-22  Score=176.39  Aligned_cols=99  Identities=29%  Similarity=0.503  Sum_probs=94.4

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      ...|..|++.|.++..      +++|..||+...+|+||++|++||||+||++||+++.|.++++|..||+|||.||+.|
T Consensus         3 ~~~~~~il~~l~~~~~------a~~F~~pv~~~~~p~Y~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na~~y   76 (101)
T cd05509           3 YTQLKKVLDSLKNHKS------AWPFLEPVDKEEAPDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLY   76 (101)
T ss_pred             HHHHHHHHHHHHhCCC------chhhcCCCChhhcCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            4689999999999876      9999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhh
Q psy15468        355 NEPGSQIYKDAKALKKLVQTKKMEI  379 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~~~~i  379 (653)
                      |+++|.++.+|..|++.|++.++++
T Consensus        77 N~~~s~~~~~a~~l~~~f~~~~~~~  101 (101)
T cd05509          77 NGPDTEYYKCANKLEKFFWKKLKEL  101 (101)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhhC
Confidence            9999999999999999999988753

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.

>cd05507 Bromo_brd8_like Bromodomain, brd8_like subgroup

Probab=99.86  E-value=8.8e-22  Score=176.17  Aligned_cols=101  Identities=25%  Similarity=0.439  Sum_probs=94.4

Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q psy15468        458 ASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA  537 (653)
Q Consensus       458 ~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na  537 (653)
                      .|++.|..+++.|.+       ++.+++|.++|+...+|+||++|++||||++|++||++|.|.|+++|.+|+.|||.||
T Consensus         3 ~~~~~~~~il~~l~~-------~~~a~~F~~pV~~~~~p~Y~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na   75 (104)
T cd05507           3 AWKKAILLVYRTLAS-------HRYASVFLKPVTEDIAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNA   75 (104)
T ss_pred             HHHHHHHHHHHHHHc-------CCCCHhhcCCCCccccCCHHHHhCCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Confidence            578889999999986       5679999999999899999999999999999999999999999999999999999999


Q ss_pred             hhhcCCCCHHHHHHHHHHHHHHHHHHhh
Q psy15468        538 CKYNEPDSHIYKDALSLQRIVLQTKMHL  565 (653)
Q Consensus       538 ~~YN~~~S~iy~dA~~L~~~~~~~~~eL  565 (653)
                      ..||+++|.+|.+|..|++.+.+..+++
T Consensus        76 ~~yN~~~s~v~~~A~~l~~~~~~~~~~~  103 (104)
T cd05507          76 IMYNSSDHDVYLMAVEMQREVMSQIQQL  103 (104)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHhhcc
Confidence            9999999999999999999998776643

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.

>cd05498 Bromo_Brdt_II_like Bromodomain, Brdt_like subfamily, repeat II

Probab=99.86  E-value=8.3e-22  Score=175.82  Aligned_cols=99  Identities=20%  Similarity=0.411  Sum_probs=92.6

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccC--CCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKK--RYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC  352 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~--~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~  352 (653)
                      .+.|..|++.|+++   .|++++++|+.|++..  .+|+||++|++||||++|++||++|.|.++++|..||+|||.||+
T Consensus         2 ~~~c~~il~~l~~~---~~~~~a~~F~~pv~~~~~~~p~Y~~~I~~Pmdl~~I~~kl~~~~Y~s~~ef~~D~~li~~Na~   78 (102)
T cd05498           2 LKFCSGILKELFSK---KHKAYAWPFYKPVDPEALGLHDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCY   78 (102)
T ss_pred             hhHHHHHHHHHHhC---CCccccCcccCcCCccccCCCcHHHHccCCCcHHHHHHHHccCCCCCHHHHHHHHHHHHHHHH
Confidence            57899999999997   4578999999998754  699999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHH
Q psy15468        353 TFNEPGSQIYKDAKALKKLVQTKK  376 (653)
Q Consensus       353 ~yN~~~S~i~~~A~~L~~~~~~~~  376 (653)
                      .||+++|.++.+|..|++.|+++|
T Consensus        79 ~yn~~~s~i~~~a~~l~~~fe~~~  102 (102)
T cd05498          79 KYNPPDHPVHAMARKLQDVFEDRW  102 (102)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHhC
Confidence            999999999999999999998764

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.

>cd05526 Bromo_polybromo_VI Bromodomain, polybromo repeat VI

Probab=99.86  E-value=1.6e-21  Score=174.35  Aligned_cols=104  Identities=24%  Similarity=0.401  Sum_probs=98.0

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      +..+..|+++|++++|++||.++.+|.++|+  ..|+||.+|++||||.+|++||++|.|+++++|..||.+||.||++|
T Consensus         5 q~~l~~l~~~V~~~~D~~Gr~~s~~f~~LP~--~~~~~~~~ik~Pi~l~~Ik~ki~~~~Y~~ld~~~~D~~lmf~NAr~y   82 (110)
T cd05526           5 QELLATLFVSVMNHQDEEGRCYSDSLAELPE--LAVDGVGPKKIPLTLDIIKRNVDKGRYRRLDKFQEDMFEVLERARRL   82 (110)
T ss_pred             HHHHHHHHHHHHhccCCCCCCchHHHHHCCC--cccCchhhhcCCccHHHHHHHHHcCCcCcHHHHHHHHHHHHHHHHHh
Confidence            5678999999999999999999999999999  45788999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        355 NEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      |.+||.||.+|..|+++|.....++.
T Consensus        83 N~~~S~iy~dA~eLq~~f~~~rd~~~  108 (110)
T cd05526          83 SRTDSEIYEDAVELQQFFIKIRDELC  108 (110)
T ss_pred             CcccCHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999988766653

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.

>cd05509 Bromo_gcn5_like Bromodomain; Gcn5_like subfamily

Probab=99.86  E-value=1.5e-21  Score=173.83  Aligned_cols=101  Identities=31%  Similarity=0.562  Sum_probs=94.1

Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q psy15468        458 ASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA  537 (653)
Q Consensus       458 ~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na  537 (653)
                      |+.++|..+++.|.+       +..+++|.++|+...+|+||++|++||||++|++||+++.|.|+++|.+||.|||.||
T Consensus         1 ~~~~~~~~il~~l~~-------~~~a~~F~~pv~~~~~p~Y~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na   73 (101)
T cd05509           1 PLYTQLKKVLDSLKN-------HKSAWPFLEPVDKEEAPDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNC   73 (101)
T ss_pred             ChHHHHHHHHHHHHh-------CCCchhhcCCCChhhcCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Confidence            356788899999987       4568999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcCCCCHHHHHHHHHHHHHHHHHHhh
Q psy15468        538 CKYNEPDSHIYKDALSLQRIVLQTKMHL  565 (653)
Q Consensus       538 ~~YN~~~S~iy~dA~~L~~~~~~~~~eL  565 (653)
                      +.||+++|.++.+|..|++.|++...+|
T Consensus        74 ~~yN~~~s~~~~~a~~l~~~f~~~~~~~  101 (101)
T cd05509          74 RLYNGPDTEYYKCANKLEKFFWKKLKEL  101 (101)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHhhC
Confidence            9999999999999999999999887764

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.

>cd05510 Bromo_SPT7_like Bromodomain; SPT7_like subfamily

Probab=99.86  E-value=2.4e-21  Score=175.30  Aligned_cols=104  Identities=24%  Similarity=0.381  Sum_probs=95.0

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy15468        457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDN  536 (653)
Q Consensus       457 ~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~N  536 (653)
                      ..+.+.|..+++.|+++.      +.+++|..+|++..+||||++|++||||++|++||++|+|+|+++|.+|+.|||.|
T Consensus         6 ~~~~~~~~~il~~l~~~~------~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~Li~~N   79 (112)
T cd05510           6 EEFYESLDKVLNELKTYT------EHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWKN   79 (112)
T ss_pred             HHHHHHHHHHHHHHHhcC------ccccchhcCCChhhcCCHHHHhcCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHH
Confidence            467888999999998753      45899999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCCCC-HHHHHHHHHHHHHHHHHHhhc
Q psy15468        537 ACKYNEPDS-HIYKDALSLQRIVLQTKMHLR  566 (653)
Q Consensus       537 a~~YN~~~S-~iy~dA~~L~~~~~~~~~eL~  566 (653)
                      |+.||+++| .+++.|..|++.+......|+
T Consensus        80 ~~~yN~~~s~~~~~~A~~l~~~~~~~~~~~~  110 (112)
T cd05510          80 CLLYNSDPSHPLRRHANFMKKKAEHLLKLIP  110 (112)
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHHCC
Confidence            999999877 577999999999988877765

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.

>cd05499 Bromo_BDF1_2_II Bromodomain

Probab=99.85  E-value=1.8e-21  Score=173.75  Aligned_cols=98  Identities=19%  Similarity=0.365  Sum_probs=89.6

Q ss_pred             HHHHHHHHHHHhhcCCCCCcccccccccCcCCC--CCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy15468        461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRH--DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNAC  538 (653)
Q Consensus       461 ~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~--~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~  538 (653)
                      +.|..|++.|.+...    +.++++|+.+|+..  .+|+||++|++||||++|++||+++.|+|+++|.+||+|||.||+
T Consensus         3 ~~c~~Il~~l~~~~~----~~~s~~F~~pvd~~~~~~pdY~~~I~~P~dL~~I~~kl~~~~Y~s~~ef~~D~~li~~N~~   78 (102)
T cd05499           3 KFCEEVLKELMKPKH----SAYNWPFLDPVDPVALNIPNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCY   78 (102)
T ss_pred             HHHHHHHHHHHcccC----CcccchhcCCCCccccCCCCHHHHhcCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHH
Confidence            467778887776433    67899999998877  899999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCHHHHHHHHHHHHHHHHH
Q psy15468        539 KYNEPDSHIYKDALSLQRIVLQTK  562 (653)
Q Consensus       539 ~YN~~~S~iy~dA~~L~~~~~~~~  562 (653)
                      .||+++|.++.+|..|++.|+++|
T Consensus        79 ~yn~~~s~~~~~a~~l~~~fe~~~  102 (102)
T cd05499          79 TFNPEGTDVYMMGHQLEEVFNDKW  102 (102)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHhC
Confidence            999999999999999999998764

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.

>cd05511 Bromo_TFIID Bromodomain, TFIID-like subfamily

Probab=99.85  E-value=2.3e-21  Score=175.65  Aligned_cols=100  Identities=30%  Similarity=0.474  Sum_probs=94.7

Q ss_pred             HHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhC
Q psy15468        276 NQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFN  355 (653)
Q Consensus       276 ~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN  355 (653)
                      ..++.|++.|+++..      +++|+.||++..+|+||++|++||||++|++||+++.|.++++|.+|++|||.||..||
T Consensus         3 ~~l~~ii~~l~~~~~------s~~F~~pv~~~~~p~Y~~~I~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~yN   76 (112)
T cd05511           3 FILDEIVNELKNLPD------SWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYN   76 (112)
T ss_pred             HHHHHHHHHHHhCCC------chhhcCCCChhhcccHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            457889999998765      99999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhhhc
Q psy15468        356 EPGSQIYKDAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       356 ~~~S~i~~~A~~L~~~~~~~~~~i~~  381 (653)
                      +++|.++.+|..|.+.|...+.+++.
T Consensus        77 ~~~s~i~~~A~~l~~~~~~~~~~~~~  102 (112)
T cd05511          77 GPDSVYTKKAKEMLELAEELLAEREE  102 (112)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHhHH
Confidence            99999999999999999999988864

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.

>cd05513 Bromo_brd7_like Bromodomain, brd7_like subgroup

Probab=99.85  E-value=1.9e-21  Score=171.82  Aligned_cols=92  Identities=21%  Similarity=0.422  Sum_probs=84.4

Q ss_pred             HHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchH
Q psy15468        102 DAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDF  181 (653)
Q Consensus       102 ~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~  181 (653)
                      .+|..|++.|..+..      +++|..||+...+||||++|++||||+||++||+++.                      
T Consensus         4 ~~l~~il~~l~~~~~------~~~F~~PV~~~~~pdY~~vIk~PmDL~tI~~kl~~~~----------------------   55 (98)
T cd05513           4 KALEQLIRQLQRKDP------HGFFAFPVTDFIAPGYSSIIKHPMDFSTMKEKIKNND----------------------   55 (98)
T ss_pred             HHHHHHHHHHHcCCc------cccccCcCCccccccHHHHHcCccCHHHHHHHHhCCC----------------------
Confidence            567778888876543      8999999999999999999999999999999999999                      


Q ss_pred             HHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHH
Q psy15468        182 IKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFH  232 (653)
Q Consensus       182 ~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~  232 (653)
                                 |.++++|..|++|||.||..||+++|.++++|.+|++.-.
T Consensus        56 -----------Y~s~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~~~   95 (98)
T cd05513          56 -----------YQSIEEFKDDFKLMCENAMKYNKPDTIYYKAAKKLLHSGM   95 (98)
T ss_pred             -----------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHhhh
Confidence                       9999999999999999999999999999999999986544

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.

>cd05513 Bromo_brd7_like Bromodomain, brd7_like subgroup

Probab=99.85  E-value=2.3e-21  Score=171.28  Aligned_cols=92  Identities=28%  Similarity=0.485  Sum_probs=86.2

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      .+.|..|++.|+.+..      +++|+.||+...+|+||++|++||||+||++||+++.|.++++|.+||+|||.||..|
T Consensus         3 ~~~l~~il~~l~~~~~------~~~F~~PV~~~~~pdY~~vIk~PmDL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~y   76 (98)
T cd05513           3 QKALEQLIRQLQRKDP------HGFFAFPVTDFIAPGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKY   76 (98)
T ss_pred             HHHHHHHHHHHHcCCc------cccccCcCCccccccHHHHHcCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            4678899999998755      8999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHH
Q psy15468        355 NEPGSQIYKDAKALKKLV  372 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~  372 (653)
                      |+++|.+|++|..|.+.-
T Consensus        77 N~~~s~~~~~A~~L~~~~   94 (98)
T cd05513          77 NKPDTIYYKAAKKLLHSG   94 (98)
T ss_pred             CCCCCHHHHHHHHHHHhh
Confidence            999999999999997643

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.

>cd05506 Bromo_plant1 Bromodomain, uncharacterized subfamily specific to plants

Probab=99.85  E-value=2.9e-21  Score=171.42  Aligned_cols=96  Identities=30%  Similarity=0.530  Sum_probs=90.1

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccC--CCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKK--RYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC  352 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~--~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~  352 (653)
                      .+.|..|++.|++++.      +++|..|++..  .+|+||++|++||||+||++||+++.|.++++|..|+++||.||.
T Consensus         2 ~~~c~~il~~l~~~~~------~~~F~~pv~~~~~~~p~Y~~~I~~P~dl~tI~~kL~~~~Y~s~~ef~~D~~li~~Na~   75 (99)
T cd05506           2 MKQCGTLLRKLMKHKW------GWVFNAPVDVVALGLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAM   75 (99)
T ss_pred             HHHHHHHHHHHHhCCC------CccccCCCCccccCCCCHHHHHcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            4689999999998765      89999998754  799999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHH
Q psy15468        353 TFNEPGSQIYKDAKALKKLVQTKK  376 (653)
Q Consensus       353 ~yN~~~S~i~~~A~~L~~~~~~~~  376 (653)
                      .||+++|.++.+|..|++.|+++|
T Consensus        76 ~yn~~~s~i~~~a~~l~~~fe~~w   99 (99)
T cd05506          76 RYNPPGNDVHTMAKELLKIFETRW   99 (99)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHhC
Confidence            999999999999999999998865

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.

>cd05500 Bromo_BDF1_2_I Bromodomain

Probab=99.85  E-value=4.1e-21  Score=171.68  Aligned_cols=98  Identities=23%  Similarity=0.386  Sum_probs=92.0

Q ss_pred             hHHHHHHHHHHHHHHhccCCCCccccccccccccc--CCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q psy15468        272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSK--KRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTK  349 (653)
Q Consensus       272 ~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~--~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~  349 (653)
                      +.+.+.|..+++.|+++..      +++|..||+.  ..+|+||++|++||||++|++||++|.|.++++|..|+++||.
T Consensus         3 ~~~~~~~~~ii~~l~~~~~------a~~F~~pv~~~~~~~p~Y~~~I~~P~dL~tI~~kl~~~~Y~s~~~f~~D~~li~~   76 (103)
T cd05500           3 KHQHKFLLSSIRSLKRLKD------ARPFLVPVDPVKLNIPHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVD   76 (103)
T ss_pred             HHHHHHHHHHHHHHHcCCC------ChhhcCCCCcccccCCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Confidence            4567899999999998866      9999999885  4899999999999999999999999999999999999999999


Q ss_pred             hhhhhCCCCCHHHHHHHHHHHHHHHH
Q psy15468        350 NACTFNEPGSQIYKDAKALKKLVQTK  375 (653)
Q Consensus       350 Na~~yN~~~S~i~~~A~~L~~~~~~~  375 (653)
                      ||+.||+++|.++.+|..|++.|++.
T Consensus        77 Na~~yN~~~s~~~~~A~~l~~~fe~~  102 (103)
T cd05500          77 NCLTFNGPEHPVSQMGKRLQAAFEKH  102 (103)
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999864

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.

>cd05511 Bromo_TFIID Bromodomain, TFIID-like subfamily

Probab=99.85  E-value=2.7e-21  Score=175.22  Aligned_cols=97  Identities=25%  Similarity=0.461  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchHH
Q psy15468        103 AMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFI  182 (653)
Q Consensus       103 ~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~~  182 (653)
                      +++.|++.|+.++      .|++|+.||++..+|+||++|++||||+||++||+++.                       
T Consensus         4 ~l~~ii~~l~~~~------~s~~F~~pv~~~~~p~Y~~~I~~PmdL~tI~~kl~~~~-----------------------   54 (112)
T cd05511           4 ILDEIVNELKNLP------DSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHK-----------------------   54 (112)
T ss_pred             HHHHHHHHHHhCC------CchhhcCCCChhhcccHHHHhcCCCCHHHHHHHHhcCC-----------------------
Confidence            4677888887765      39999999999999999999999999999999999999                       


Q ss_pred             HHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhc
Q psy15468        183 KIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL  238 (653)
Q Consensus       183 ~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~  238 (653)
                                |.++++|.+|+.|||.||..||+++|.++++|..|++.|...+.++
T Consensus        55 ----------Y~s~~ef~~Dv~li~~Na~~yN~~~s~i~~~A~~l~~~~~~~~~~~  100 (112)
T cd05511          55 ----------YQSREEFLEDIELIVDNSVLYNGPDSVYTKKAKEMLELAEELLAER  100 (112)
T ss_pred             ----------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence                      9999999999999999999999999999999999999999988876

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.

>cd05512 Bromo_brd1_like Bromodomain; brd1_like subfamily

Probab=99.85  E-value=3.7e-21  Score=170.21  Aligned_cols=90  Identities=22%  Similarity=0.447  Sum_probs=85.6

Q ss_pred             HHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhC
Q psy15468        276 NQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFN  355 (653)
Q Consensus       276 ~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN  355 (653)
                      ..|+.+++.|+.+..      +++|..||+...+|+||++|++||||+||++||+++.|.++++|..||+|||.||..||
T Consensus         4 ~~l~~il~~l~~~~~------~~~F~~pVd~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN   77 (98)
T cd05512           4 VLLRKTLDQLQEKDT------AEIFSEPVDLSEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYN   77 (98)
T ss_pred             HHHHHHHHHHHhCCC------chhhcCCCCccccCCHHHHhcCCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            568899999998755      99999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHH
Q psy15468        356 EPGSQIYKDAKALKKL  371 (653)
Q Consensus       356 ~~~S~i~~~A~~L~~~  371 (653)
                      +++|.+|++|..|++.
T Consensus        78 ~~~s~~~~~A~~l~~~   93 (98)
T cd05512          78 AKDTIFYRAAVRLRDQ   93 (98)
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            9999999999999875

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.

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

Probab=99.84  E-value=6.3e-21  Score=172.61  Aligned_cols=100  Identities=23%  Similarity=0.376  Sum_probs=93.0

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      ...|..+++.|+.+..      +++|.+||+...+||||++|++||||+||++||+++.|.++++|.+|++|||.||+.|
T Consensus         5 r~~L~~il~~l~~~~~------~~~F~~pv~~~~~pdY~~vI~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~y   78 (112)
T cd05528           5 RLFLRDVLKRLASDKR------FNAFTKPVDEEEVPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEY   78 (112)
T ss_pred             HHHHHHHHHHHHhCCC------chhhcCCCCccccCcHHHHHcCCCCHHHHHHHHcCCCcCCHHHHHHHHHHHHHHHHHH
Confidence            4567889999998765      8999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCC----CCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        355 NEP----GSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       355 N~~----~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      |++    ||.|+.+|..|++.|.+++.+..
T Consensus        79 N~~~s~~~s~i~~~A~~L~~~~~~~~~~~~  108 (112)
T cd05528          79 NPDRDPADKLIRSRACELRDEVHAMIEAEL  108 (112)
T ss_pred             CCCCCccccHHHHHHHHHHHHHHHHHHhcC
Confidence            999    47999999999999999887654

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

>cd05501 Bromo_SP100C_like Bromodomain, SP100C_like subfamily

Probab=99.84  E-value=5.6e-21  Score=169.17  Aligned_cols=97  Identities=20%  Similarity=0.299  Sum_probs=89.1

Q ss_pred             HHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCch
Q psy15468        101 SDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPID  180 (653)
Q Consensus       101 ~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d  180 (653)
                      +.-|+.|+..|..+.+      +++|..+|  ..+||||+||++||||+||++||++|.                     
T Consensus         4 l~~ce~il~~l~~~~~------s~~f~~~p--~~~pdY~~iIk~PMDL~tI~~kL~~~~---------------------   54 (102)
T cd05501           4 LLKCEFLLLKVYCMSK------SGFFISKP--YYIRDYCQGIKEPMWLNKVKERLNERV---------------------   54 (102)
T ss_pred             HHHHHHHHHHHHhCcc------cccccCCC--CCCCchHHHcCCCCCHHHHHHHHcCCC---------------------
Confidence            4569999999988765      88997755  499999999999999999999999999                     


Q ss_pred             HHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhcc
Q psy15468        181 FIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLL  239 (653)
Q Consensus       181 ~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~  239 (653)
                                  |.++++|.+||+|||+||..||+++ +++++|..|.+.|.+.+.+..
T Consensus        55 ------------Y~s~~ef~~D~~Lif~N~~~yN~~~-~~~~~a~~L~~~Fek~~~~~f  100 (102)
T cd05501          55 ------------YHTVEGFVRDMRLIFHNHKLFYKDD-DFGQVGITLEKKFEKNFKEVF  100 (102)
T ss_pred             ------------CCCHHHHHHHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHHHHHHHHh
Confidence                        9999999999999999999999999 999999999999999887654

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.

>cd05512 Bromo_brd1_like Bromodomain; brd1_like subfamily

Probab=99.84  E-value=4.2e-21  Score=169.82  Aligned_cols=93  Identities=26%  Similarity=0.500  Sum_probs=87.0

Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q psy15468        458 ASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA  537 (653)
Q Consensus       458 ~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na  537 (653)
                      |+...|+.+++.|++       +..+++|..+++...+|+||++|++||||++|++||+++.|.|+++|..||+|||.||
T Consensus         1 p~~~~l~~il~~l~~-------~~~~~~F~~pVd~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na   73 (98)
T cd05512           1 PLEVLLRKTLDQLQE-------KDTAEIFSEPVDLSEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNC   73 (98)
T ss_pred             CHHHHHHHHHHHHHh-------CCCchhhcCCCCccccCCHHHHhcCCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHH
Confidence            456778888998886       5678999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcCCCCHHHHHHHHHHHH
Q psy15468        538 CKYNEPDSHIYKDALSLQRI  557 (653)
Q Consensus       538 ~~YN~~~S~iy~dA~~L~~~  557 (653)
                      +.||+++|.+|++|..|++.
T Consensus        74 ~~yN~~~s~~~~~A~~l~~~   93 (98)
T cd05512          74 LAYNAKDTIFYRAAVRLRDQ   93 (98)
T ss_pred             HHHCCCCCHHHHHHHHHHHh
Confidence            99999999999999999874

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.

>cd05502 Bromo_tif1_like Bromodomain; tif1_like subfamily

Probab=99.84  E-value=1.4e-20  Score=169.98  Aligned_cols=102  Identities=28%  Similarity=0.440  Sum_probs=93.9

Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhc---CCCCCHHHHHHHHHHHH
Q psy15468        458 ASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRY---NQYEHLDEMVADFIQMF  534 (653)
Q Consensus       458 ~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~---~~Y~s~~ef~~D~~Lmf  534 (653)
                      ..+++|..|+..|.+       +..+++|..||+. .+|+||++|++||||++|++||++   |.|+++++|.+||+|||
T Consensus         4 ~~~~~c~~il~~l~~-------~~~s~~F~~pv~~-~~p~Y~~iI~~PmdL~tI~~kL~~~~~~~Y~s~~~f~~D~~li~   75 (109)
T cd05502           4 IDQRKCERLLLELYC-------HELSLPFHEPVSP-SVPNYYKIIKTPMDLSLIRKKLQPKSPQHYSSPEEFVADVRLMF   75 (109)
T ss_pred             HHHHHHHHHHHHHHh-------CCCChhhcCCCCC-CCCCHHHHCCCCccHHHHHHHHhcCCCCCCCCHHHHHHHHHHHH
Confidence            346778888888876       4679999999998 899999999999999999999998   69999999999999999


Q ss_pred             HHHhhhcCCCCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        535 DNACKYNEPDSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       535 ~Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      .||+.||+++|.++.+|..|++.|++.+.++.+
T Consensus        76 ~Na~~yN~~~s~i~~~a~~l~~~f~~~~~~~~p  108 (109)
T cd05502          76 KNCYKFNEEDSEVAQAGKELELFFEEQLKEILP  108 (109)
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCc
Confidence            999999999999999999999999999887754

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.

>cd05498 Bromo_Brdt_II_like Bromodomain, Brdt_like subfamily, repeat II

Probab=99.84  E-value=1e-20  Score=168.82  Aligned_cols=99  Identities=26%  Similarity=0.391  Sum_probs=89.6

Q ss_pred             HHHHHHHHHHHHhhcCCCCCcccccccccCcCCC--CCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q psy15468        460 LQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRH--DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA  537 (653)
Q Consensus       460 ~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~--~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na  537 (653)
                      .+.|..|++.|.+.   .+ ++++++|.++++..  .+|+||++|++||||++|++||++|.|.|+++|..||+|||.||
T Consensus         2 ~~~c~~il~~l~~~---~~-~~~a~~F~~pv~~~~~~~p~Y~~~I~~Pmdl~~I~~kl~~~~Y~s~~ef~~D~~li~~Na   77 (102)
T cd05498           2 LKFCSGILKELFSK---KH-KAYAWPFYKPVDPEALGLHDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNC   77 (102)
T ss_pred             hhHHHHHHHHHHhC---CC-ccccCcccCcCCccccCCCcHHHHccCCCcHHHHHHHHccCCCCCHHHHHHHHHHHHHHH
Confidence            45678888888764   33 68899999987654  69999999999999999999999999999999999999999999


Q ss_pred             hhhcCCCCHHHHHHHHHHHHHHHHH
Q psy15468        538 CKYNEPDSHIYKDALSLQRIVLQTK  562 (653)
Q Consensus       538 ~~YN~~~S~iy~dA~~L~~~~~~~~  562 (653)
                      +.||+++|.++.+|..|++.|+++|
T Consensus        78 ~~yn~~~s~i~~~a~~l~~~fe~~~  102 (102)
T cd05498          78 YKYNPPDHPVHAMARKLQDVFEDRW  102 (102)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHhC
Confidence            9999999999999999999998764

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.

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

Probab=99.84  E-value=8.3e-21  Score=171.84  Aligned_cols=100  Identities=26%  Similarity=0.404  Sum_probs=91.2

Q ss_pred             HHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchH
Q psy15468        102 DAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDF  181 (653)
Q Consensus       102 ~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~  181 (653)
                      -+|..|++.|.+++.      +++|.+||+...+||||++|++||||+||++||+++.                      
T Consensus         6 ~~L~~il~~l~~~~~------~~~F~~pv~~~~~pdY~~vI~~PmdL~tI~~kl~~~~----------------------   57 (112)
T cd05528           6 LFLRDVLKRLASDKR------FNAFTKPVDEEEVPDYYEIIKQPMDLQTILQKLDTHQ----------------------   57 (112)
T ss_pred             HHHHHHHHHHHhCCC------chhhcCCCCccccCcHHHHHcCCCCHHHHHHHHcCCC----------------------
Confidence            456778888887754      9999999999999999999999999999999999999                      


Q ss_pred             HHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCC----CHHHHHHHHHHHHHHHHhhhccC
Q psy15468        182 IKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRN----SQEHRDAQELMELFHSTRNKLLN  240 (653)
Q Consensus       182 ~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~----s~~~~~a~~l~~~~~~~~~~~~~  240 (653)
                                 |.++.+|..|+.|||+||..||+++    |.++.+|..|++.|.+.+.+.+.
T Consensus        58 -----------Y~s~~ef~~Dv~li~~Na~~yN~~~s~~~s~i~~~A~~L~~~~~~~~~~~~~  109 (112)
T cd05528          58 -----------YLTAKDFLKDIDLIVTNALEYNPDRDPADKLIRSRACELRDEVHAMIEAELD  109 (112)
T ss_pred             -----------cCCHHHHHHHHHHHHHHHHHHCCCCCccccHHHHHHHHHHHHHHHHHHhcCC
Confidence                       9999999999999999999999995    68999999999999998876643

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

>cd05529 Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like subfamily

Probab=99.84  E-value=1.3e-20  Score=174.60  Aligned_cols=103  Identities=20%  Similarity=0.316  Sum_probs=95.7

Q ss_pred             HHHHHHHHHHHHhhhhhcCCccccccccCCCCC-CCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCc
Q psy15468        101 SDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKR-QEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPI  179 (653)
Q Consensus       101 ~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~-~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~  179 (653)
                      .+.+..++..+..+.+..+...+++|..||+.. .+|+||++|++||||+||++||+++.                    
T Consensus        23 ~~~~~~i~~~l~~l~~~~~~~~~~~F~~pv~~~~~~p~Y~~iI~~PmdL~tI~~kl~~~~--------------------   82 (128)
T cd05529          23 DEERERLISGLDKLLLSLQLEIAEYFEYPVDLRAWYPDYWNRVPVPMDLETIRSRLENRY--------------------   82 (128)
T ss_pred             HHHHHHHHHHHHHHHhcccCcccccccCCCCccccCCcHHHHcCCCCCHHHHHHHHhcCC--------------------
Confidence            466778888888887667788999999999999 99999999999999999999999999                    


Q ss_pred             hHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhh
Q psy15468        180 DFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRN  236 (653)
Q Consensus       180 d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~  236 (653)
                                   |.++++|..|++|||.||..||+++|.++..|.+|.+.|.+.+.
T Consensus        83 -------------Y~s~~~f~~Dv~Li~~Na~~yN~~~s~i~~~A~~l~~~~~~~l~  126 (128)
T cd05529          83 -------------YRSLEALRHDVRLILSNAETFNEPNSEIAKKAKRLSDWLLRILS  126 (128)
T ss_pred             -------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHhc
Confidence                         99999999999999999999999999999999999999988654

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.

>cd05506 Bromo_plant1 Bromodomain, uncharacterized subfamily specific to plants

Probab=99.83  E-value=1e-20  Score=167.87  Aligned_cols=95  Identities=22%  Similarity=0.369  Sum_probs=88.5

Q ss_pred             HHHHHHHHHHHhhhhhcCCccccccccCCCCC--CCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCc
Q psy15468        102 DAMQQIYDVIRNFKKEDGALLCDPFIRIPKKR--QEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPI  179 (653)
Q Consensus       102 ~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~--~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~  179 (653)
                      ..|..|++.|..++.      +++|..||+..  .+|+||++|++||||+||++||+++.                    
T Consensus         3 ~~c~~il~~l~~~~~------~~~F~~pv~~~~~~~p~Y~~~I~~P~dl~tI~~kL~~~~--------------------   56 (99)
T cd05506           3 KQCGTLLRKLMKHKW------GWVFNAPVDVVALGLPDYFDIIKKPMDLGTVKKKLEKGE--------------------   56 (99)
T ss_pred             HHHHHHHHHHHhCCC------CccccCCCCccccCCCCHHHHHcCCCCHHHHHHHHhcCC--------------------
Confidence            568899999987754      89999999754  79999999999999999999999999                    


Q ss_pred             hHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHh
Q psy15468        180 DFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTR  235 (653)
Q Consensus       180 d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~  235 (653)
                                   |.++++|..|+.+||.||..||+++|.++++|..|...|++.|
T Consensus        57 -------------Y~s~~ef~~D~~li~~Na~~yn~~~s~i~~~a~~l~~~fe~~w   99 (99)
T cd05506          57 -------------YSSPEEFAADVRLTFANAMRYNPPGNDVHTMAKELLKIFETRW   99 (99)
T ss_pred             -------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence                         9999999999999999999999999999999999999998865

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.

>cd05529 Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like subfamily

Probab=99.83  E-value=2.7e-20  Score=172.54  Aligned_cols=100  Identities=30%  Similarity=0.464  Sum_probs=89.3

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccC-CCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKK-RYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT  353 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~-~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~  353 (653)
                      ...|..++..|+   +..++..+++|..||+.. .+|+||++|++||||+||++||+++.|.++++|..||+|||.||+.
T Consensus        26 ~~~i~~~l~~l~---~~~~~~~~~~F~~pv~~~~~~p~Y~~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~Li~~Na~~  102 (128)
T cd05529          26 RERLISGLDKLL---LSLQLEIAEYFEYPVDLRAWYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLILSNAET  102 (128)
T ss_pred             HHHHHHHHHHHH---hcccCcccccccCCCCccccCCcHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            444455555554   335788899999999999 9999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHH
Q psy15468        354 FNEPGSQIYKDAKALKKLVQTKKM  377 (653)
Q Consensus       354 yN~~~S~i~~~A~~L~~~~~~~~~  377 (653)
                      ||+++|.++.+|..|+++|...+.
T Consensus       103 yN~~~s~i~~~A~~l~~~~~~~l~  126 (128)
T cd05529         103 FNEPNSEIAKKAKRLSDWLLRILS  126 (128)
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHhc
Confidence            999999999999999999987764

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.

>cd05500 Bromo_BDF1_2_I Bromodomain

Probab=99.82  E-value=2.9e-20  Score=166.15  Aligned_cols=95  Identities=23%  Similarity=0.433  Sum_probs=86.3

Q ss_pred             HHHHHHHHHHHHhhhhhcCCccccccccCCCC--CCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCC
Q psy15468        101 SDAMQQIYDVIRNFKKEDGALLCDPFIRIPKK--RQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNP  178 (653)
Q Consensus       101 ~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~--~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P  178 (653)
                      ...|..+++.|.+++.      |++|..||+.  ..+||||++|++||||+||++||+++.                   
T Consensus         6 ~~~~~~ii~~l~~~~~------a~~F~~pv~~~~~~~p~Y~~~I~~P~dL~tI~~kl~~~~-------------------   60 (103)
T cd05500           6 HKFLLSSIRSLKRLKD------ARPFLVPVDPVKLNIPHYPTIIKKPMDLGTIERKLKSNV-------------------   60 (103)
T ss_pred             HHHHHHHHHHHHcCCC------ChhhcCCCCcccccCCCHHHHhcCCCCHHHHHHHHhcCC-------------------
Confidence            4567777777776543      9999999984  589999999999999999999999999                   


Q ss_pred             chHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHH
Q psy15468        179 IDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHST  234 (653)
Q Consensus       179 ~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~  234 (653)
                                    |.++.+|..|++|||+||..||+++|.++.+|..|++.|++.
T Consensus        61 --------------Y~s~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~l~~~fe~~  102 (103)
T cd05500          61 --------------YTSVEEFTADFNLMVDNCLTFNGPEHPVSQMGKRLQAAFEKH  102 (103)
T ss_pred             --------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHh
Confidence                          999999999999999999999999999999999999999874

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.

>smart00297 BROMO bromo domain

Probab=99.81  E-value=6.6e-20  Score=164.39  Aligned_cols=103  Identities=36%  Similarity=0.638  Sum_probs=90.2

Q ss_pred             HHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhh
Q psy15468        460 LQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACK  539 (653)
Q Consensus       460 ~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~~  539 (653)
                      +++|+.++..|.+....   ++++++|..+|++..+|+||++|++||||.+|++||++|.|.|+++|.+||.+||.||..
T Consensus         5 ~~~~~~~~~~i~~~~~~---~~~~~~F~~~~~~~~~p~Y~~~i~~P~dl~~I~~kl~~~~Y~s~~ef~~D~~li~~Na~~   81 (107)
T smart00297        5 QKKLQSLLKAVLDKLDS---HRLSWPFLKPVDRKEAPDYYDIIKKPMDLSTIKKKLENGKYSSVEEFVADVQLMFSNAKT   81 (107)
T ss_pred             HHHHHHHHHHHHHHHHh---CccchhhccCCChhhccCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            34444555444444332   578999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCCHHHHHHHHHHHHHHHHHHhh
Q psy15468        540 YNEPDSHIYKDALSLQRIVLQTKMHL  565 (653)
Q Consensus       540 YN~~~S~iy~dA~~L~~~~~~~~~eL  565 (653)
                      ||+++|.++..|..|++.|.+.+.++
T Consensus        82 ~n~~~s~~~~~a~~l~~~f~~~~~~~  107 (107)
T smart00297       82 YNGPDSEVYKDAKKLEKFFEKKLREL  107 (107)
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHhhC
Confidence            99999999999999999999887753

>smart00297 BROMO bromo domain

Probab=99.81  E-value=7.3e-20  Score=164.09  Aligned_cols=101  Identities=40%  Similarity=0.654  Sum_probs=89.7

Q ss_pred             HHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhC
Q psy15468        276 NQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFN  355 (653)
Q Consensus       276 ~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN  355 (653)
                      +.|..++..|++...  .++++++|..||++..+|+||++|++||||++|++||++|.|.++++|..||.+||.||..||
T Consensus         6 ~~~~~~~~~i~~~~~--~~~~~~~F~~~~~~~~~p~Y~~~i~~P~dl~~I~~kl~~~~Y~s~~ef~~D~~li~~Na~~~n   83 (107)
T smart00297        6 KKLQSLLKAVLDKLD--SHRLSWPFLKPVDRKEAPDYYDIIKKPMDLSTIKKKLENGKYSSVEEFVADVQLMFSNAKTYN   83 (107)
T ss_pred             HHHHHHHHHHHHHHH--hCccchhhccCCChhhccCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            445555555554433  246799999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHh
Q psy15468        356 EPGSQIYKDAKALKKLVQTKKME  378 (653)
Q Consensus       356 ~~~S~i~~~A~~L~~~~~~~~~~  378 (653)
                      +++|.++.+|..|.+.|.+.+++
T Consensus        84 ~~~s~~~~~a~~l~~~f~~~~~~  106 (107)
T smart00297       84 GPDSEVYKDAKKLEKFFEKKLRE  106 (107)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999999998865

>KOG1827|consensus

Probab=99.80  E-value=6.5e-20  Score=204.18  Aligned_cols=227  Identities=28%  Similarity=0.441  Sum_probs=174.9

Q ss_pred             HHHHHHHHHhhhhhCCCCCHHHHHHHHHHHHHHHHHHhhhcCCCCCCCcccccccccccCCCCchhhhhcCCCCCCCCCC
Q psy15468        341 EKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALESEDDESED  420 (653)
Q Consensus       341 ~~Dv~Lmf~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~~~~~~~~k~~r~~~~~~~~~~~~~~~~~~~~~e~~~~sd  420 (653)
                      ..|+.||.+||..||.+.+.++++|..|++.-......+.                                      .+
T Consensus         3 ~~df~l~~e~~~~~~~p~s~p~k~~~~~~~~~~~~k~~~~--------------------------------------~~   44 (629)
T KOG1827|consen    3 VADFPLMTENACSDNEPDSLPGKDAKNLQKTPLHDKTLMG--------------------------------------RD   44 (629)
T ss_pred             hhhhhHHhhccccccCCccccccCcchhhhchhhhhcccC--------------------------------------CC
Confidence            5799999999999999999999999988765433220000                                      00


Q ss_pred             cccccCCCCCCCchhhhhhhhccccCCcccccccCCHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccc
Q psy15468        421 DEEIDQEDPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYE  500 (653)
Q Consensus       421 ~e~~~~~~~~~P~~~~~~~ir~~~~~g~~~~~s~~~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~  500 (653)
                               +.|                     -+..++..+++.++..+..++|..| ++++..|.++|++...|+||.
T Consensus        45 ---------d~p---------------------~i~~~~~~~f~~il~~~~~~~d~~g-k~~~d~feklp~~~~~p~yy~   93 (629)
T KOG1827|consen   45 ---------DSP---------------------VIDPPLIPKFKTILASLLDLKDDEG-KQLFDKFEKLPSRKEFPEYYY   93 (629)
T ss_pred             ---------Ccc---------------------ccChHHHHHHHHHHHHHHhhccccC-cccchhHhhccccccCCCcce
Confidence                     000                     0123678889999999999999999 999999999999999999999


Q ss_pred             cccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCCCChhHHH
Q psy15468        501 VIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAAVQ  580 (653)
Q Consensus       501 iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~~~~~~P~~~~~~~  580 (653)
                      +|..||+|+.|++|+..++|.+++.|..|+.+|+.||+.||.++|.+|+++..|+..|.....+....+.+++....+..
T Consensus        94 ~i~~pisl~~ik~kv~k~~y~~~~~f~~D~~lm~ena~~~n~~ds~~~~~s~~l~~~~~~~~~~~~d~e~s~~~~~~l~~  173 (629)
T KOG1827|consen   94 VIQQPISLDQIKRKVKKGRYKRLSFFQLDFLLMTENARLYNRPDSLIYKDSGELEKYFISLEDEKKDGELSMESNEELKA  173 (629)
T ss_pred             eecCcccHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhcCcchhhhhhhhhhhcchhhhhccccchhhcccccccccc
Confidence            99999999999999999999999999999999999999999999999999999999997655433222233333322211


Q ss_pred             hhhh-cccc-ccccCCccCCCceeeccCCCchHHHHHHHHHHHHcccccCCCcccccccccCCCCCCCcccccc
Q psy15468        581 ELLT-SLFT-SVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV  652 (653)
Q Consensus       581 ~~~~-~l~~-~~~~~~~~~~g~~~~~~~~~~p~k~ri~~i~k~l~~~~d~~gr~l~~~F~~lPsk~~~p~YY~v  652 (653)
                      ..+. .... ...+++.+.+|+|++.+++.+..+.++..                ..-|+++|++..||+||.+
T Consensus       174 ~~l~~~~~~~~~i~~~~~~~gd~vlv~~~~d~~~p~v~~----------------Ier~w~~~dg~k~~~~~w~  231 (629)
T KOG1827|consen  174 GGLHYHELGPVEIDGTKYIVGDYVLVQNPADNLKPIVAQ----------------IERLWKLPDGEKWPQGCWI  231 (629)
T ss_pred             CCCCcccCCCccccCcccccCceeeecCcccccCCceee----------------ecccccCcccccccceeEe
Confidence            1111 1111 35567788899999999887654444432                3478889999999999875

>KOG1472|consensus

Probab=99.77  E-value=8.5e-19  Score=198.14  Aligned_cols=98  Identities=31%  Similarity=0.496  Sum_probs=90.3

Q ss_pred             HHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhC
Q psy15468        276 NQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFN  355 (653)
Q Consensus       276 ~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN  355 (653)
                      ..++.++..|.++.+      +|||.+|+.+.+.||||.+|++||||.||+.+|+.+.|..+..|+.|+..||.||+.||
T Consensus       609 s~~~~il~~l~~h~~------awPf~~Pv~~~e~pdyy~~I~~pmDl~tM~~~l~~~~y~~~~~f~ad~~~vf~ncr~yn  682 (720)
T KOG1472|consen  609 SAIQNILDQLQNHGD------AWPFLKPVNKKEVPDYYDVIKHPMDLRTMQNRLKDNQYTEVELFMADVVRVFANCRMYN  682 (720)
T ss_pred             HHHHhHHhhhhcCCc------cCCccCccccccCCcHHHHhcccccHHHHhhhccccchhhHHHHHHHHHHHHhhhhccC
Confidence            345667777777666      99999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhh
Q psy15468        356 EPGSQIYKDAKALKKLVQTKKMEI  379 (653)
Q Consensus       356 ~~~S~i~~~A~~L~~~~~~~~~~i  379 (653)
                      +.++..|+.|..|...|..++.+.
T Consensus       683 ~~~~~y~k~~~~le~~~~~k~~~~  706 (720)
T KOG1472|consen  683 GSDTQYYKCAQALEKFFLFKLNEL  706 (720)
T ss_pred             Cccchheecccchhhhhcchhhhh
Confidence            999999999999999998877654

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

Probab=99.76  E-value=1.5e-18  Score=148.67  Aligned_cols=84  Identities=36%  Similarity=0.750  Sum_probs=78.4

Q ss_pred             HHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhCCC
Q psy15468        278 CEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEP  357 (653)
Q Consensus       278 ~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN~~  357 (653)
                      |..+++.|+.+.      .+++|..+|+...+|+|+++|++||||++|++||++|.|.++++|..||++||.||..||++
T Consensus         1 C~~il~~l~~~~------~~~~F~~~~~~~~~p~y~~~i~~P~dL~~I~~kl~~~~Y~s~~~f~~Dv~~i~~Na~~yn~~   74 (84)
T PF00439_consen    1 CREILEELMKHP------ISSPFSKPVDPKEYPDYYEIIKNPMDLSTIRKKLENGKYKSIEEFEADVRLIFQNARRYNPP   74 (84)
T ss_dssp             HHHHHHHHHTST------TGGGGSSSTHTTTSTTHHHHSSSS--HHHHHHHHHTTSSSSHHHHHHHHHHHHHHHHHHSCT
T ss_pred             CHHHHHHHHcCC------CchhhcCCCChhhCCCHHHHHhhccchhhhhHHhhccchhhHHHHHHHHHHHHHHHHHHCCC
Confidence            789999999875      49999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHH
Q psy15468        358 GSQIYKDAKA  367 (653)
Q Consensus       358 ~S~i~~~A~~  367 (653)
                      +|.+|.+|..
T Consensus        75 ~s~~~~~A~~   84 (84)
T PF00439_consen   75 DSPIYKAAEK   84 (84)
T ss_dssp             TSHHHHHHHH
T ss_pred             cCHHHHHhcC
Confidence            9999999974

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 ....

>cd05492 Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family

Probab=99.76  E-value=3.7e-18  Score=153.22  Aligned_cols=98  Identities=19%  Similarity=0.312  Sum_probs=82.9

Q ss_pred             HHHHHHHHHhccCCCCccccccccccc-----ccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhh
Q psy15468        278 CEDLFNAVMTSTDADSRPLHEVFQLLP-----SKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC  352 (653)
Q Consensus       278 ~~~ll~~l~~~~d~~g~~~a~~F~~~p-----~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~  352 (653)
                      +..++..+.+--     +-+.||+.++     .+..+|+||++|++||||+||++||++|.|+++++|..||.|||+||.
T Consensus         5 L~f~~~~~k~~l-----p~~~~~~~~v~~~~~~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~LI~~N~~   79 (109)
T cd05492           5 LKFIVSRMKSWL-----PPDTTNRAIVLNKRGKATKLPKRRRLIHTHLDVADIQEKINSEKYTSLEEFKADALLLLHNTA   79 (109)
T ss_pred             HHHHHHHHHhcC-----cccccccccccccCchhccCCCHHHHhCCCCcHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence            445555555422     2245666654     556799999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        353 TFNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       353 ~yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      .||+++|.++.+|..|.+.+...+.+|.
T Consensus        80 ~yNg~~s~~~~~A~~l~~d~~~el~Ei~  107 (109)
T cd05492          80 IFHGADSEQYDAARWLYRDTCHDLRELR  107 (109)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999988888764

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.

>cd05492 Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family

Probab=99.76  E-value=3e-18  Score=153.87  Aligned_cols=83  Identities=24%  Similarity=0.329  Sum_probs=77.9

Q ss_pred             ccccccCC-----CCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchHHHHhhhcccCcCCCHH
Q psy15468        123 CDPFIRIP-----KKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLS  197 (653)
Q Consensus       123 ~~~F~~~v-----~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~~~~~~~~~~~~Y~~~~  197 (653)
                      +.||..+|     .+..+|+||++|++||||+||++||++|.                                 |.+++
T Consensus        19 ~~~~~~~v~~~~~~~~~~pdY~~iIk~PmDL~tI~~kl~~~~---------------------------------Y~s~~   65 (109)
T cd05492          19 DTTNRAIVLNKRGKATKLPKRRRLIHTHLDVADIQEKINSEK---------------------------------YTSLE   65 (109)
T ss_pred             cccccccccccCchhccCCCHHHHhCCCCcHHHHHHHHHcCC---------------------------------CCCHH
Confidence            68888887     45679999999999999999999999999                                 99999


Q ss_pred             HHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhc
Q psy15468        198 DFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL  238 (653)
Q Consensus       198 ~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~  238 (653)
                      +|.+|+.|||+||..||+++|.++.+|..|.+.+...++++
T Consensus        66 ef~~Dv~LI~~N~~~yNg~~s~~~~~A~~l~~d~~~el~Ei  106 (109)
T cd05492          66 EFKADALLLLHNTAIFHGADSEQYDAARWLYRDTCHDLREL  106 (109)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999998887765

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.

>cd04369 Bromodomain Bromodomain

Probab=99.75  E-value=2.5e-18  Score=150.30  Aligned_cols=96  Identities=42%  Similarity=0.677  Sum_probs=90.0

Q ss_pred             HHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhC
Q psy15468        276 NQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFN  355 (653)
Q Consensus       276 ~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN  355 (653)
                      ..|..+++.|..+.    +..+.+|..+|+...+|+||++|++||||++|++|+.+|.|.++.+|..|+++||.||..||
T Consensus         3 ~~~~~i~~~l~~~~----~~~~~~F~~~~~~~~~~~Y~~~i~~P~~l~~I~~kl~~~~Y~s~~~f~~D~~li~~Na~~~n   78 (99)
T cd04369           3 KKLRSLLDALKKLK----RDLSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEADVRLIFSNAKTYN   78 (99)
T ss_pred             HHHHHHHHHHHhhc----ccccHHHhcCCChhcCCCHHHHHhCcccHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            56889999998863    45699999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHH
Q psy15468        356 EPGSQIYKDAKALKKLVQTK  375 (653)
Q Consensus       356 ~~~S~i~~~A~~L~~~~~~~  375 (653)
                      +++|.++.+|..|...|++.
T Consensus        79 ~~~~~~~~~a~~l~~~~~~~   98 (99)
T cd04369          79 GPGSPIYKDAKKLEKLFEKL   98 (99)
T ss_pred             CCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999998764

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

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

Probab=99.75  E-value=2.1e-18  Score=147.81  Aligned_cols=84  Identities=25%  Similarity=0.573  Sum_probs=77.5

Q ss_pred             HHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchHHH
Q psy15468        104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIK  183 (653)
Q Consensus       104 ~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~~~  183 (653)
                      |+.|++.+..++      .+++|..||+...+|+|+++|++||||++|++||++|.                        
T Consensus         1 C~~il~~l~~~~------~~~~F~~~~~~~~~p~y~~~i~~P~dL~~I~~kl~~~~------------------------   50 (84)
T PF00439_consen    1 CREILEELMKHP------ISSPFSKPVDPKEYPDYYEIIKNPMDLSTIRKKLENGK------------------------   50 (84)
T ss_dssp             HHHHHHHHHTST------TGGGGSSSTHTTTSTTHHHHSSSS--HHHHHHHHHTTS------------------------
T ss_pred             CHHHHHHHHcCC------CchhhcCCCChhhCCCHHHHHhhccchhhhhHHhhccc------------------------
Confidence            678888888765      49999999999999999999999999999999999999                        


Q ss_pred             HhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHH
Q psy15468        184 IQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQE  226 (653)
Q Consensus       184 ~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~  226 (653)
                               |.++++|..||++||.||..||+++|.++++|++
T Consensus        51 ---------Y~s~~~f~~Dv~~i~~Na~~yn~~~s~~~~~A~~   84 (84)
T PF00439_consen   51 ---------YKSIEEFEADVRLIFQNARRYNPPDSPIYKAAEK   84 (84)
T ss_dssp             ---------SSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHH
T ss_pred             ---------hhhHHHHHHHHHHHHHHHHHHCCCcCHHHHHhcC
Confidence                     9999999999999999999999999999999974

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 ....

>KOG1827|consensus

Probab=99.74  E-value=1.9e-18  Score=192.51  Aligned_cols=282  Identities=23%  Similarity=0.354  Sum_probs=208.7

Q ss_pred             HHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccCCCCCCCccccccccccCCCcccCCCCCCCCChHHHHHHH
Q psy15468        200 QADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCE  279 (653)
Q Consensus       200 ~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~ss~~~~~~~~~~~  279 (653)
                      ..|+-||..|+-.||.+.|.+++.|..+.+.-.... .....++.                       ..-......++.
T Consensus         3 ~~df~l~~e~~~~~~~p~s~p~k~~~~~~~~~~~~k-~~~~~~d~-----------------------p~i~~~~~~~f~   58 (629)
T KOG1827|consen    3 VADFPLMTENACSDNEPDSLPGKDAKNLQKTPLHDK-TLMGRDDS-----------------------PVIDPPLIPKFK   58 (629)
T ss_pred             hhhhhHHhhccccccCCccccccCcchhhhchhhhh-cccCCCCc-----------------------cccChHHHHHHH
Confidence            578999999999999999999999999886644332 11111110                       011123467899


Q ss_pred             HHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhCCCCC
Q psy15468        280 DLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGS  359 (653)
Q Consensus       280 ~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN~~~S  359 (653)
                      .+|..++.++|..|+.+...|.++|+++..|+||.+|.+||+|..|++|+..+.|.+.+.|..|+.+|+.||+.||.++|
T Consensus        59 ~il~~~~~~~d~~gk~~~d~feklp~~~~~p~yy~~i~~pisl~~ik~kv~k~~y~~~~~f~~D~~lm~ena~~~n~~ds  138 (629)
T KOG1827|consen   59 TILASLLDLKDDEGKQLFDKFEKLPSRKEFPEYYYVIQQPISLDQIKRKVKKGRYKRLSFFQLDFLLMTENARLYNRPDS  138 (629)
T ss_pred             HHHHHHHhhccccCcccchhHhhccccccCCCcceeecCcccHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhcCcch
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhcCCCCCCCcccccccccccCCCCchhhhhcCCCCCCCCCCcccccCCCCCCCchhhhhh
Q psy15468        360 QIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQEDPNSPLWQVYDA  439 (653)
Q Consensus       360 ~i~~~A~~L~~~~~~~~~~i~~~~~~~~~k~~r~~~~~~~~~~~~~~~~~~~~~e~~~~sd~e~~~~~~~~~P~~~~~~~  439 (653)
                      .+|++|..|+..|.....+....+..-             ++ ......+-++....   +.     -.........   
T Consensus       139 ~~~~~s~~l~~~~~~~~~~~~d~e~s~-------------~~-~~~l~~~~l~~~~~---~~-----~~i~~~~~~~---  193 (629)
T KOG1827|consen  139 LIYKDSGELEKYFISLEDEKKDGELSM-------------ES-NEELKAGGLHYHEL---GP-----VEIDGTKYIV---  193 (629)
T ss_pred             hhhhhhhhhhcchhhhhccccchhhcc-------------cc-ccccccCCCCcccC---CC-----ccccCccccc---
Confidence            999999999999876443211111000             00 00000000000000   00     0000000000   


Q ss_pred             hhccccCCcccccccCCHHHHHHHHHHHHHHHhhcC-CCCCcc-cccccccCcCCCCCCcccccccCccchHHHHHHHhc
Q psy15468        440 IRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCE-PKTGRQ-LSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRY  517 (653)
Q Consensus       440 ir~~~~~g~~~~~s~~~~~~~~~lk~l~~~l~~~~d-~~g~~~-ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~  517 (653)
                             |                  .+..+..-.+ ..+ +. ....|+.+|+...+|+||.+++-+|.++...+++..
T Consensus       194 -------g------------------d~vlv~~~~d~~~p-~v~~Ier~w~~~dg~k~~~~~w~~rP~~T~H~a~r~F~k  247 (629)
T KOG1827|consen  194 -------G------------------DYVLVQNPADNLKP-IVAQIERLWKLPDGEKWPQGCWIYRPEETVHRADRKFYK  247 (629)
T ss_pred             -------C------------------ceeeecCcccccCC-ceeeecccccCcccccccceeEeeCCccCccccccchhc
Confidence                   0                  1111222222 122 22 367899999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHH
Q psy15468        518 NQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR  556 (653)
Q Consensus       518 ~~Y~s~~ef~~D~~Lmf~Na~~YN~~~S~iy~dA~~L~~  556 (653)
                      ++|.....|..|+.++|.|+|.|+-+..-++.++..|.+
T Consensus       248 ~Evfkt~~~~~~~~q~l~g~c~v~~~~~yi~~~p~~ls~  286 (629)
T KOG1827|consen  248 QEVFKTSLYRDDLVQRLLGKCYVMKPTEYISGDPENLSE  286 (629)
T ss_pred             ccceecccccccHHHHhhcceEEeehhHhhhcCcccccc
Confidence            999999999999999999999999999999999988865

>cd04369 Bromodomain Bromodomain

Probab=99.74  E-value=5e-18  Score=148.42  Aligned_cols=96  Identities=40%  Similarity=0.657  Sum_probs=88.1

Q ss_pred             HHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhh
Q psy15468        461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKY  540 (653)
Q Consensus       461 ~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~~Y  540 (653)
                      ..|..+++.|....     ++.+.+|..+|+...+|+||++|++||||.+|++||.++.|.++++|.+|+.+||.||+.|
T Consensus         3 ~~~~~i~~~l~~~~-----~~~~~~F~~~~~~~~~~~Y~~~i~~P~~l~~I~~kl~~~~Y~s~~~f~~D~~li~~Na~~~   77 (99)
T cd04369           3 KKLRSLLDALKKLK-----RDLSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEADVRLIFSNAKTY   77 (99)
T ss_pred             HHHHHHHHHHHhhc-----ccccHHHhcCCChhcCCCHHHHHhCcccHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            45777888887632     2678999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCHHHHHHHHHHHHHHHH
Q psy15468        541 NEPDSHIYKDALSLQRIVLQT  561 (653)
Q Consensus       541 N~~~S~iy~dA~~L~~~~~~~  561 (653)
                      |+++|.++..|..|+..|++.
T Consensus        78 n~~~~~~~~~a~~l~~~~~~~   98 (99)
T cd04369          78 NGPGSPIYKDAKKLEKLFEKL   98 (99)
T ss_pred             CCCCCHHHHHHHHHHHHHHHh
Confidence            999999999999999998754

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

>KOG1472|consensus

Probab=99.74  E-value=4.8e-18  Score=192.13  Aligned_cols=96  Identities=27%  Similarity=0.560  Sum_probs=86.2

Q ss_pred             HHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcC
Q psy15468        463 MRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNE  542 (653)
Q Consensus       463 lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~~YN~  542 (653)
                      +..++..|.+       +.-+|||++|+...+.||||.+|++||||.+|+.+|+.+.|..+..|++|+.++|.||+.||.
T Consensus       611 ~~~il~~l~~-------h~~awPf~~Pv~~~e~pdyy~~I~~pmDl~tM~~~l~~~~y~~~~~f~ad~~~vf~ncr~yn~  683 (720)
T KOG1472|consen  611 IQNILDQLQN-------HGDAWPFLKPVNKKEVPDYYDVIKHPMDLRTMQNRLKDNQYTEVELFMADVVRVFANCRMYNG  683 (720)
T ss_pred             HHhHHhhhhc-------CCccCCccCccccccCCcHHHHhcccccHHHHhhhccccchhhHHHHHHHHHHHHhhhhccCC
Confidence            4445555544       556899999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhh
Q psy15468        543 PDSHIYKDALSLQRIVLQTKMHL  565 (653)
Q Consensus       543 ~~S~iy~dA~~L~~~~~~~~~eL  565 (653)
                      .+++.|+.|..|..+|..+..++
T Consensus       684 ~~~~y~k~~~~le~~~~~k~~~~  706 (720)
T KOG1472|consen  684 SDTQYYKCAQALEKFFLFKLNEL  706 (720)
T ss_pred             ccchheecccchhhhhcchhhhh
Confidence            99999999999999997766554

>KOG0008|consensus

Probab=99.70  E-value=4.1e-17  Score=190.04  Aligned_cols=208  Identities=24%  Similarity=0.396  Sum_probs=158.3

Q ss_pred             HHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhC
Q psy15468        276 NQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFN  355 (653)
Q Consensus       276 ~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN  355 (653)
                      -.+..+.+.+....+      ..+|..|++.+.+++||.||+.||||.++++.+....|.+-++|..|+.||+.|..+||
T Consensus      1264 s~l~~i~n~~~~~~~------t~~f~~Pv~~k~v~dyy~vi~~P~~lq~~kk~v~kr~y~~r~~fle~~~~~~~ns~~yn 1337 (1563)
T KOG0008|consen 1264 SILETIINQARSSPN------TYPFPTPVNAKEVKDYYRVITPPMDLQTQKKLVRKRLYESREHFLEELPLIVSNSTKYN 1337 (1563)
T ss_pred             cchHHHHHHHhcCCC------CcCCCCccchhhccchhhccCCCcchHHHHHHHHHHHHHHHHHHHHHhHHHhhchhhhc
Confidence            345555555555544      78999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhhhcCCCCCCCcccccccccccCCCCchhhhhcCCCCCCCCCCcccccCCCCCCCchh
Q psy15468        356 EPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQEDPNSPLWQ  435 (653)
Q Consensus       356 ~~~S~i~~~A~~L~~~~~~~~~~i~~~~~~~~~k~~r~~~~~~~~~~~~~~~~~~~~~e~~~~sd~e~~~~~~~~~P~~~  435 (653)
                      ++-+.+...|+.+...+-..|.+-+....       +..                                 ...+|...
T Consensus      1338 g~~~~~t~~~q~mls~~~~~~~ekedk~~-------~lE---------------------------------k~Inplld 1377 (1563)
T KOG0008|consen 1338 GPLASLTRQQQSMLSLCFEKLKEKEDKLW-------RLE---------------------------------KAINPLLD 1377 (1563)
T ss_pred             CchHHHHHHHHHHHHHHHHhhchhHHHHH-------HHH---------------------------------hhcCcccC
Confidence            99999999998887777666554332210       000                                 00000000


Q ss_pred             hhhhhhccccCCcccccccCCHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHH
Q psy15468        436 VYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKL  515 (653)
Q Consensus       436 ~~~~ir~~~~~g~~~~~s~~~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl  515 (653)
                      --+.+                     .+ .+++.+.....  . -+-+|+|.+++..+..|+||.+|++||+|.+|.+++
T Consensus      1378 ~~d~v---------------------~~-~~~d~~vs~~~--~-ipes~~f~~~v~~k~~~~yy~kik~pmdl~~i~~n~ 1432 (1563)
T KOG0008|consen 1378 DDDQV---------------------AF-FILDNIVSQMK--E-IPESWPFHEPVNKKRVPDYYKKIKNPMDLETILKNI 1432 (1563)
T ss_pred             ccchh---------------------hH-hhhhhHHHHHH--h-cchhcccccccchhhchHHHHHhcChhhHHHHhhcC
Confidence            00000                     01 23333322211  1 455899999999999999999999999999999999


Q ss_pred             hcCCCCCHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHH
Q psy15468        516 RYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSL  554 (653)
Q Consensus       516 ~~~~Y~s~~ef~~D~~Lmf~Na~~YN~~~S~iy~dA~~L  554 (653)
                      ..++|.+.++|.+|+++|+.|+..||+.++....-|..+
T Consensus      1433 ~~~~y~s~~e~l~dv~~i~~n~~~~ng~e~~y~~k~~k~ 1471 (1563)
T KOG0008|consen 1433 PPHKYDSRSEFLDDVNLIYVNSVEYNGAESAYTKKARKI 1471 (1563)
T ss_pred             CccccccHHHHhhhhHhhcccceeecCccccccHHHHHH
Confidence            999999999999999999999999999988755544443

>KOG1245|consensus

Probab=99.59  E-value=9.8e-16  Score=186.68  Aligned_cols=96  Identities=26%  Similarity=0.471  Sum_probs=91.5

Q ss_pred             HHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchHHH
Q psy15468        104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIK  183 (653)
Q Consensus       104 ~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~~~  183 (653)
                      |+.|+..+..|+.      ||||+.||+.+.+||||+||++||||+||+.|+..|.                        
T Consensus      1306 ~e~il~e~~~~~~------awPFlepVn~~~vp~Y~~IIk~Pmdl~tir~k~~~~~------------------------ 1355 (1404)
T KOG1245|consen 1306 CEDILHELVVHKA------AWPFLEPVNPKEVPDYYDIIKKPMDLSTIREKLSKGI------------------------ 1355 (1404)
T ss_pred             HHHHHHHHHHhhh------cchhhccCChhhcccHHHHhcChhHHHHHHHHHhccc------------------------
Confidence            7889999998887      9999999999999999999999999999999999999                        


Q ss_pred             HhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhcc
Q psy15468        184 IQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLL  239 (653)
Q Consensus       184 ~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~  239 (653)
                               |.+.++|..||+|||.||.+||.+ |.+++++..|..+|.+.|..+.
T Consensus      1356 ---------Y~~~eef~~Di~lvf~Nc~~yN~~-s~i~~ag~~l~~ff~~~~~~~~ 1401 (1404)
T KOG1245|consen 1356 ---------YPSPEEFATDIELVFDNCETYNED-SEIGRAGTCLRRFFHKRWRKKF 1401 (1404)
T ss_pred             ---------CCCHHHHHHHHHHHHHHHHHhccc-hhhhhhcchHHHHHHHHHHhhc
Confidence                     999999999999999999999999 9999999999999999776653

>KOG1245|consensus

Probab=99.50  E-value=1.7e-14  Score=175.94  Aligned_cols=95  Identities=28%  Similarity=0.520  Sum_probs=91.8

Q ss_pred             HHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhCCC
Q psy15468        278 CEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEP  357 (653)
Q Consensus       278 ~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN~~  357 (653)
                      |..|+..++.|++      ||||++||+.+.+|+||+||++||||+||+.|+..|.|.+.++|..||+|||.||.+||+.
T Consensus      1306 ~e~il~e~~~~~~------awPFlepVn~~~vp~Y~~IIk~Pmdl~tir~k~~~~~Y~~~eef~~Di~lvf~Nc~~yN~~ 1379 (1404)
T KOG1245|consen 1306 CEDILHELVVHKA------AWPFLEPVNPKEVPDYYDIIKKPMDLSTIREKLSKGIYPSPEEFATDIELVFDNCETYNED 1379 (1404)
T ss_pred             HHHHHHHHHHhhh------cchhhccCChhhcccHHHHhcChhHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHhccc
Confidence            8999999999998      9999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHhh
Q psy15468        358 GSQIYKDAKALKKLVQTKKMEI  379 (653)
Q Consensus       358 ~S~i~~~A~~L~~~~~~~~~~i  379 (653)
                       |.|+.+...|.++|..+|...
T Consensus      1380 -s~i~~ag~~l~~ff~~~~~~~ 1400 (1404)
T KOG1245|consen 1380 -SEIGRAGTCLRRFFHKRWRKK 1400 (1404)
T ss_pred             -hhhhhhcchHHHHHHHHHHhh
Confidence             999999999999999877654

>KOG0386|consensus

Probab=99.27  E-value=5.1e-12  Score=145.38  Aligned_cols=107  Identities=35%  Similarity=0.690  Sum_probs=102.5

Q ss_pred             HHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhh
Q psy15468        461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKY  540 (653)
Q Consensus       461 ~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~~Y  540 (653)
                      ..+..|+....++.++.| +.++..|..+|++..+||||.+|++|+++..|+++|.++.|.++.+...||.++|.||++|
T Consensus      1027 ~~~~~i~~~~~~~~~~~~-r~~~~~~~~~~s~k~~~d~~~~i~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~na~~~ 1105 (1157)
T KOG0386|consen 1027 KQALKIASTSIKYKDSAG-RELSEVFLKLPSRKEYPDYYEIIKKPVAIDKIKKRIENHKYNSLKELEKDFMLLFNNARTY 1105 (1157)
T ss_pred             HHHHHHHHHHHhcccccc-cccchhcccCcccccccchHHHhcchhhHHHHhhhccccccchHHHHHHHHHhhcchhhhh
Confidence            457889999999999888 9999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCHHHHHHHHHHHHHHHHHHhhcCC
Q psy15468        541 NEPDSHIYKDALSLQRIVLQTKMHLRED  568 (653)
Q Consensus       541 N~~~S~iy~dA~~L~~~~~~~~~eL~~~  568 (653)
                      |+.||.||.+|..|+.++..+..++..+
T Consensus      1106 ~~egs~~y~d~~~l~~~~~~~~~~~~~~ 1133 (1157)
T KOG0386|consen 1106 NEEGSRVYEDAIVLQSVFKSARQEISKE 1133 (1157)
T ss_pred             ccCCceechhHHHHHHHHhhhHHHHhcc
Confidence            9999999999999999999999999864

>KOG1828|consensus

Probab=99.26  E-value=1.8e-12  Score=135.92  Aligned_cols=209  Identities=19%  Similarity=0.174  Sum_probs=148.8

Q ss_pred             ccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchHHHHhhhcccCcCCCHHHHHHH
Q psy15468        123 CDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQAD  202 (653)
Q Consensus       123 ~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~~~~~~~~~~~~Y~~~~~f~~D  202 (653)
                      -.-|-.||.....|+|-+||+.|||++||+.|++-++                                 |-++.+|..|
T Consensus        37 ~q~fafplt~~map~y~~iis~Pmd~~t~r~kidd~~---------------------------------yl~L~~m~~d   83 (418)
T KOG1828|consen   37 KQKFAFPLTDKMAPNYLEIISEPMDRITKRSKIDDTR---------------------------------YLVLSQMEFD   83 (418)
T ss_pred             hhhhccccchhhccchHhhhhcccccccccccCCCcc---------------------------------ceechhhhhh
Confidence            4567788999999999999999999999999999999                                 9999999999


Q ss_pred             HHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhh----ccC-CCCC---C-----------Cc--ccccccc-----cc
Q psy15468        203 IELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNK----LLN-PQSH---E-----------GT--SQKRSMD-----FM  256 (653)
Q Consensus       203 ~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~----~~~-~~~~---~-----------~~--~~~r~~~-----~~  256 (653)
                      .+++++||..||..+.....+|.+|..+-.....+    +++ +...   .           ..  ++.+.-.     ..
T Consensus        84 ~kl~~~na~~yn~~~Tv~~~aaKrL~~v~~~~~qe~~l~f~~~slg~y~~~rn~~~~v~~la~~~~sr~~~~d~~a~~s~  163 (418)
T KOG1828|consen   84 RKLPDGNATLYNLHPTVPIVAAKRLCPVRLGMTQERLLSFVNTSLGFYEDKRNKVTPVLYLAYGPYSRYHYDDTFANISK  163 (418)
T ss_pred             hcccccchhhhhcCCccccccccccchhhcchhhHHHHHhhhcccchhhhcccccCceeeeccCCccchhhhhhcCCCcc
Confidence            99999999999999999999999987664443322    111 1110   0           00  0000000     00


Q ss_pred             CCCc-------ccCCCC---CCC----------CC----hHH---HHHHHHHHHHHHhccCCCCcccccccccccccCCC
Q psy15468        257 MASE-------TEDSRD---SSI----------CT----EDE---QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRY  309 (653)
Q Consensus       257 ~~~~-------~~~~~~---ss~----------~~----~~~---~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~  309 (653)
                      .++.       .+++.+   +..          ..    .++   ..+++.+...=++..++     ...|.-+|-....
T Consensus       164 ee~~l~v~~~e~~~~~~~~fs~k~~e~~~e~~~~lgds~g~lqtg~~~l~~~q~~kl~~~~p-----~~~lnyg~tas~a  238 (418)
T KOG1828|consen  164 EESDLIVSTYEEDSDLPSDFSHKFLETCQERVVTLGDSVGDLQTGGQQLQTLQEDKLNRVDP-----VAYLNYGPTASFA  238 (418)
T ss_pred             cccccccccccccccccccccccccccCccceEehhhhhhhhccccHHHHHHHHHHhcccCc-----hhhhcccchhhhc
Confidence            0000       000000   000          00    011   23444444444444443     3345567777788


Q ss_pred             CCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhCCCCCHHHHHHHHHHH
Q psy15468        310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK  370 (653)
Q Consensus       310 PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN~~~S~i~~~A~~L~~  370 (653)
                      |.|-.+|++|++.+|+..|..++.|.| -+|..|+.+|+-||.+||++....|+.|..+.-
T Consensus       239 P~YSm~Ik~~~~~~Tygdk~~andy~S-~~f~~D~kl~~l~amT~gehsk~yyelank~lh  298 (418)
T KOG1828|consen  239 PGYSMTITEVEPPGTYGDKSSANDYES-LSFTQDRKLIALKAVTNGEHSKSYYELANKQLH  298 (418)
T ss_pred             ccccccccccCCCcchhhhhhhhhhhh-hhhhcccchhhHHHHhcCCcchHHHHHHHhhhh
Confidence            999999999999999999999999999 899999999999999999999999999887654

>KOG1828|consensus

Probab=99.22  E-value=5.7e-12  Score=132.24  Aligned_cols=245  Identities=20%  Similarity=0.154  Sum_probs=145.3

Q ss_pred             cccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhCCCCCHHHHHHHHHHHHHHHHHH
Q psy15468        298 EVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKM  377 (653)
Q Consensus       298 ~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN~~~S~i~~~A~~L~~~~~~~~~  377 (653)
                      .-|.-|+...-.|+|-++|+.|||+.|++.|++-++|.++.+|..|.++|..||..||-....++..|..|..+-.....
T Consensus        38 q~fafplt~~map~y~~iis~Pmd~~t~r~kidd~~yl~L~~m~~d~kl~~~na~~yn~~~Tv~~~aaKrL~~v~~~~~q  117 (418)
T KOG1828|consen   38 QKFAFPLTDKMAPNYLEIISEPMDRITKRSKIDDTRYLVLSQMEFDRKLPDGNATLYNLHPTVPIVAAKRLCPVRLGMTQ  117 (418)
T ss_pred             hhhccccchhhccchHhhhhcccccccccccCCCccceechhhhhhhcccccchhhhhcCCccccccccccchhhcchhh
Confidence            33444555567799999999999999999999999999999999999999999999999999999999999876544332


Q ss_pred             h-hhcCCCCCCCccccc-ccccc-c----CCCC---chhhhhcC-CCCCCC-CCCcccccCCCCCCCchhhhhh-hhccc
Q psy15468        378 E-IEQGKFTPAGKSERI-RSKRI-R----GGQS---LSAITAAL-ESEDDE-SEDDEEIDQEDPNSPLWQVYDA-IRNAK  444 (653)
Q Consensus       378 ~-i~~~~~~~~~k~~r~-~~~~~-~----~~~~---~~~~~~~~-~~e~~~-~sd~e~~~~~~~~~P~~~~~~~-ir~~~  444 (653)
                      + +...-.++.+-..++ .+... .    +.-+   ..+..++. .+++.- -+..+    .. ++-.|.+... .-+..
T Consensus       118 e~~l~f~~~slg~y~~~rn~~~~v~~la~~~~sr~~~~d~~a~~s~ee~~l~v~~~e----~~-~~~~~~fs~k~~e~~~  192 (418)
T KOG1828|consen  118 ERLLSFVNTSLGFYEDKRNKVTPVLYLAYGPYSRYHYDDTFANISKEESDLIVSTYE----ED-SDLPSDFSHKFLETCQ  192 (418)
T ss_pred             HHHHHhhhcccchhhhcccccCceeeeccCCccchhhhhhcCCCccccccccccccc----cc-ccccccccccccccCc
Confidence            2 111111110000000 00000 0    0000   00000000 000000 00000    00 0000100000 00000


Q ss_pred             cCCc--c-cccccCCHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCC
Q psy15468        445 TQGV--I-FFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYE  521 (653)
Q Consensus       445 ~~g~--~-~~~s~~~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~  521 (653)
                      . ++  + +....+.++.++.+....+.+ +..++.      ..|.-+|.....|.|.-+|++|++..|.+.|..++.|.
T Consensus       193 e-~~~~lgds~g~lqtg~~~l~~~q~~kl-~~~~p~------~~lnyg~tas~aP~YSm~Ik~~~~~~Tygdk~~andy~  264 (418)
T KOG1828|consen  193 E-RVVTLGDSVGDLQTGGQQLQTLQEDKL-NRVDPV------AYLNYGPTASFAPGYSMTITEVEPPGTYGDKSSANDYE  264 (418)
T ss_pred             c-ceEehhhhhhhhccccHHHHHHHHHHh-cccCch------hhhcccchhhhcccccccccccCCCcchhhhhhhhhhh
Confidence            0 00  0 000001122222222222222 233333      35666777788999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHH
Q psy15468        522 HLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR  556 (653)
Q Consensus       522 s~~ef~~D~~Lmf~Na~~YN~~~S~iy~dA~~L~~  556 (653)
                      | -+|..|+.+|+.||.+||++....|+.|..+.-
T Consensus       265 S-~~f~~D~kl~~l~amT~gehsk~yyelank~lh  298 (418)
T KOG1828|consen  265 S-LSFTQDRKLIALKAVTNGEHSKSYYELANKQLH  298 (418)
T ss_pred             h-hhhhcccchhhHHHHhcCCcchHHHHHHHhhhh
Confidence            9 999999999999999999998888888876554

>KOG0386|consensus

Probab=99.16  E-value=3.2e-11  Score=138.94  Aligned_cols=106  Identities=39%  Similarity=0.725  Sum_probs=101.9

Q ss_pred             HHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhC
Q psy15468        276 NQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFN  355 (653)
Q Consensus       276 ~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN  355 (653)
                      +.|..|+....++.+++|+.++..|..+|+++.+||||++|+.|+++..|.++|.++.|.+..+...|+.++|.||++||
T Consensus      1027 ~~~~~i~~~~~~~~~~~~r~~~~~~~~~~s~k~~~d~~~~i~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~na~~~~ 1106 (1157)
T KOG0386|consen 1027 KQALKIASTSIKYKDSAGRELSEVFLKLPSRKEYPDYYEIIKKPVAIDKIKKRIENHKYNSLKELEKDFMLLFNNARTYN 1106 (1157)
T ss_pred             HHHHHHHHHHHhcccccccccchhcccCcccccccchHHHhcchhhHHHHhhhccccccchHHHHHHHHHhhcchhhhhc
Confidence            66999999999999989999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhhhc
Q psy15468        356 EPGSQIYKDAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       356 ~~~S~i~~~A~~L~~~~~~~~~~i~~  381 (653)
                      +.||.||.+|..|+.++.....++..
T Consensus      1107 ~egs~~y~d~~~l~~~~~~~~~~~~~ 1132 (1157)
T KOG0386|consen 1107 EEGSRVYEDAIVLQSVFKSARQEISK 1132 (1157)
T ss_pred             cCCceechhHHHHHHHHhhhHHHHhc
Confidence            99999999999999999988777764

>cd05494 Bromodomain_1 Bromodomain; uncharacterized subfamily

Probab=98.95  E-value=5.9e-10  Score=101.47  Aligned_cols=55  Identities=16%  Similarity=0.401  Sum_probs=48.4

Q ss_pred             HHHHHHHHHHHhhhhhcCCccccccccCCCC--CCCCccccccCCccchHHHHHHHhcCC
Q psy15468        102 DAMQQIYDVIRNFKKEDGALLCDPFIRIPKK--RQEPSYHEVVTNPIDFIKIQQKLKTDE  159 (653)
Q Consensus       102 ~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~--~~~PdYy~iI~~PmDL~tI~~kl~~~~  159 (653)
                      +.|+.++..++.+..   ...++||..||+.  ..+||||+|||+||||+||+.||.++.
T Consensus         3 e~~~~~l~~l~~~~~---~~~~~pF~~PVd~~~~~~pdY~~iIK~PMDL~ti~~kl~~~~   59 (114)
T cd05494           3 EALERVLRELKRHRR---NEDAWPFLEPVNPPRRGAPDYRDVIKRPMSFGTKVNNIVETG   59 (114)
T ss_pred             HHHHHHHHHHHHhhh---CCCCCCcCCCCCchhcCCCChhhhcCCCCChHHHHHHHHccc
Confidence            567778888887765   3459999999998  999999999999999999999999987

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=98.78  E-value=1e-08  Score=92.65  Aligned_cols=41  Identities=32%  Similarity=0.468  Sum_probs=39.3

Q ss_pred             CcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhCCCC
Q psy15468        318 VPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPG  358 (653)
Q Consensus       318 ~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN~~~  358 (653)
                      .||||+||++||.+|.|.++.+|++|++|||.||++||.++
T Consensus        63 y~MDL~tIe~RL~ng~Y~tp~~F~~DiklI~~Nc~~ynd~d  103 (119)
T cd05491          63 YNMDLDTIEERLWNGYYATPKDFLKDIKRIVRDAKTIGDRE  103 (119)
T ss_pred             eccCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCHH
Confidence            58999999999999999999999999999999999999873

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.

>cd05494 Bromodomain_1 Bromodomain; uncharacterized subfamily

Probab=98.73  E-value=5.3e-09  Score=95.24  Aligned_cols=78  Identities=17%  Similarity=0.110  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHHhccCCCCccccccccccccc--CCCCCcccccCCcCCHHHHHHHhhCCCC-------CCHHHHHHHHHH
Q psy15468        276 NQCEDLFNAVMTSTDADSRPLHEVFQLLPSK--KRYPEYYDVIDVPIDLRTIARRIQDGKY-------ASLGDMEKDLIL  346 (653)
Q Consensus       276 ~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~--~~~PdYy~iIk~PmDL~tI~~kl~~~~Y-------~s~~ef~~Dv~L  346 (653)
                      +.|+.++..|..+..   +..++||..||+.  ...||||++|++||||+||+++|.++.+       ..-....+++..
T Consensus         3 e~~~~~l~~l~~~~~---~~~~~pF~~PVd~~~~~~pdY~~iIK~PMDL~ti~~kl~~~~~~~~~~~~~~~~~~~~~~~~   79 (114)
T cd05494           3 EALERVLRELKRHRR---NEDAWPFLEPVNPPRRGAPDYRDVIKRPMSFGTKVNNIVETGARDLEDLQIVQEDPADKQID   79 (114)
T ss_pred             HHHHHHHHHHHHhhh---CCCCCCcCCCCCchhcCCCChhhhcCCCCChHHHHHHHHccccccccccccccccccccccc
Confidence            345666666666542   4569999999998  8999999999999999999999999744       333344455555


Q ss_pred             HHHhhhhhCC
Q psy15468        347 MTKNACTFNE  356 (653)
Q Consensus       347 mf~Na~~yN~  356 (653)
                      ++.||-.+|.
T Consensus        80 ~~~~~~~~~~   89 (114)
T cd05494          80 DEGRRSPSNI   89 (114)
T ss_pred             cccccCcccc
Confidence            5555555554

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=98.72  E-value=1.1e-08  Score=92.45  Aligned_cols=41  Identities=15%  Similarity=0.324  Sum_probs=38.9

Q ss_pred             CccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCC
Q psy15468        504 KPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPD  544 (653)
Q Consensus       504 ~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~~YN~~~  544 (653)
                      -||||+||++||.+|.|.++++|++|++|||.||++||.++
T Consensus        63 y~MDL~tIe~RL~ng~Y~tp~~F~~DiklI~~Nc~~ynd~d  103 (119)
T cd05491          63 YNMDLDTIEERLWNGYYATPKDFLKDIKRIVRDAKTIGDRE  103 (119)
T ss_pred             eccCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCHH
Confidence            38999999999999999999999999999999999999763

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.

>KOG0955|consensus

Probab=98.56  E-value=6.9e-08  Score=114.84  Aligned_cols=82  Identities=23%  Similarity=0.454  Sum_probs=77.7

Q ss_pred             ccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchHHHHhhhcccCcCCCHHHHHHH
Q psy15468        123 CDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQAD  202 (653)
Q Consensus       123 ~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~~~~~~~~~~~~Y~~~~~f~~D  202 (653)
                      ...|..||+...+|||+++|++||||.|++.++.++.                                 |.++++|.+|
T Consensus       583 ~gif~~pvd~~e~pdy~~iik~pmd~~t~~~kl~s~~---------------------------------y~tle~ieed  629 (1051)
T KOG0955|consen  583 YGIFAEPVDPSELPDYIDIIKKPMDFFTMRLKLESGA---------------------------------YSTLEPIEED  629 (1051)
T ss_pred             cCceeeccChhhcccHHHHhcCccchhhhhhhccccc---------------------------------hhhhhHHHHh
Confidence            5789999999999999999999999999999999999                                 9999999999


Q ss_pred             HHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhh
Q psy15468        203 IELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNK  237 (653)
Q Consensus       203 ~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~  237 (653)
                      +.+|+.||..||..+...+++|.++.+...+.+..
T Consensus       630 ~~l~~~nc~~yn~~dtv~~r~av~~~e~~~~~~~~  664 (1051)
T KOG0955|consen  630 VNLIVSNCMEYNAKDTVYYRAAVRLRELIKKDFRN  664 (1051)
T ss_pred             HhHhHhHHHHhhccCeehHhhhHHHHhhhhhHHHh
Confidence            99999999999999999999999999987776643

>KOG0955|consensus

Probab=98.49  E-value=1.9e-07  Score=111.20  Aligned_cols=105  Identities=21%  Similarity=0.390  Sum_probs=91.6

Q ss_pred             CHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHH
Q psy15468        456 TAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFD  535 (653)
Q Consensus       456 ~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~  535 (653)
                      ..+.+..++..++.+.+ +|..|      .|..+++..++|||.++|++||+|.+++.++.++.|.++++|.+|+.+|..
T Consensus       563 l~p~~kLl~~~l~~lq~-kD~~g------if~~pvd~~e~pdy~~iik~pmd~~t~~~kl~s~~y~tle~ieed~~l~~~  635 (1051)
T KOG0955|consen  563 LNPFKKLLQKSLDKLQK-KDSYG------IFAEPVDPSELPDYIDIIKKPMDFFTMRLKLESGAYSTLEPIEEDVNLIVS  635 (1051)
T ss_pred             CchHHHHHHHHHHHhhc-ccccC------ceeeccChhhcccHHHHhcCccchhhhhhhccccchhhhhHHHHhHhHhHh
Confidence            34667777777777764 45444      899999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        536 NACKYNEPDSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       536 Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      ||..||..+.-.|.+|..++......+.....
T Consensus       636 nc~~yn~~dtv~~r~av~~~e~~~~~~~~ark  667 (1051)
T KOG0955|consen  636 NCMEYNAKDTVYYRAAVRLRELIKKDFRNARK  667 (1051)
T ss_pred             HHHHhhccCeehHhhhHHHHhhhhhHHHhccc
Confidence            99999999999999999999987666655543

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

Probab=94.51  E-value=0.068  Score=49.78  Aligned_cols=61  Identities=16%  Similarity=0.290  Sum_probs=45.7

Q ss_pred             ccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHhh
Q psy15468        505 PVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHL  565 (653)
Q Consensus       505 PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL  565 (653)
                      |.||..|++|+++|.|+|+.+|.+|+..|+.-+..=.+....+-+.-..+.-+|.+...+.
T Consensus        59 p~dL~~V~kkl~~G~Y~sv~~F~~DvvkIiqa~l~~e~~~pe~~ka~s~~Ksf~ik~me~v  119 (131)
T cd05493          59 PLDLEAVGKKLEAGFYTSVLDFSDDIVKIIQAALNSEGGQPEIKKANSMAKSFFIKLMESV  119 (131)
T ss_pred             cccHHHHHHHHhccceehHHHHHHHHHHHHHHHHhhccCCccccCcchHHHHHHHHHHHHh
Confidence            8899999999999999999999999999999887655544444443334444554444444

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.

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

Probab=93.01  E-value=0.17  Score=47.17  Aligned_cols=60  Identities=20%  Similarity=0.348  Sum_probs=42.9

Q ss_pred             cCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhCCCCCHHHHHHHHHHHHHHHHHHh
Q psy15468        319 PIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKME  378 (653)
Q Consensus       319 PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~  378 (653)
                      |.||..|++|+..|.|+++.+|.+||-.|+.-+..=.+-...+-+.-..++-+|...+.+
T Consensus        59 p~dL~~V~kkl~~G~Y~sv~~F~~DvvkIiqa~l~~e~~~pe~~ka~s~~Ksf~ik~me~  118 (131)
T cd05493          59 PLDLEAVGKKLEAGFYTSVLDFSDDIVKIIQAALNSEGGQPEIKKANSMAKSFFIKLMES  118 (131)
T ss_pred             cccHHHHHHHHhccceehHHHHHHHHHHHHHHHHhhccCCccccCcchHHHHHHHHHHHH
Confidence            889999999999999999999999999999877744333233333333344445444443

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

Probab=87.45  E-value=0.32  Score=56.97  Aligned_cols=59  Identities=20%  Similarity=0.267  Sum_probs=49.1

Q ss_pred             ccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHH
Q psy15468        502 IRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQ  560 (653)
Q Consensus       502 Ik~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~~YN~~~S~iy~dA~~L~~~~~~  560 (653)
                      -.-|.++..|+.+|+++.|++.+.|..|+..|..||.+|.+-+-.+-..+..|..+|..
T Consensus      1050 fpvpls~evi~~rlEn~yYrs~e~~~hdvs~mlsnae~~fg~~~~~~~ki~~l~~~~~~ 1108 (1113)
T KOG0644|consen 1050 FPVPLSLEVIRSRLENNYYRSQEALRHDVSVMLSNAETFFGRNKNVAIKISFLSPWFDR 1108 (1113)
T ss_pred             CCCcccHHHHHHHHHhhhhhhhHhhhcchhhhhcccceeecccccHHHHhhhcchhhhh
Confidence            34589999999999999999999999999999999999999776555555555555543

>KOG0644|consensus

Probab=80.10  E-value=1.3  Score=52.08  Aligned_cols=54  Identities=24%  Similarity=0.388  Sum_probs=43.0

Q ss_pred             HHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHh
Q psy15468        182 IKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTR  235 (653)
Q Consensus       182 ~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~  235 (653)
                      ..|..|+++--|++++.|..|+..|.+||.+|++.+--+...+..|...|.+++
T Consensus      1057 evi~~rlEn~yYrs~e~~~hdvs~mlsnae~~fg~~~~~~~ki~~l~~~~~~Tl 1110 (1113)
T KOG0644|consen 1057 EVIRSRLENNYYRSQEALRHDVSVMLSNAETFFGRNKNVAIKISFLSPWFDRTL 1110 (1113)
T ss_pred             HHHHHHHHhhhhhhhHhhhcchhhhhcccceeecccccHHHHhhhcchhhhhhc
Confidence            344444444449999999999999999999999999888777777877776654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	653
2ktb_B	121	Solution Structure Of The Second Bromodomain Of Hum		2e-26
2ktb_B	121	Solution Structure Of The Second Bromodomain Of Hum		1e-15
3hmf_A	116	Crystal Structure Of The Second Bromodomain Of Huma		2e-26
3hmf_A	116	Crystal Structure Of The Second Bromodomain Of Huma		1e-15
3ljw_A	120	Crystal Structure Of The Second Bromodomain Of Huma		2e-26
3ljw_A	120	Crystal Structure Of The Second Bromodomain Of Huma		1e-15
3g0j_A	124	Crystal Structure Of The Fifth Bromodomain Of Human		6e-26
2yqd_A	120	Solution Structure Of The Fifth Bromodomain From Mo		3e-25
3iu5_A	116	Crystal Structure Of The First Bromodomain Of Human		3e-21
3iu5_A	116	Crystal Structure Of The First Bromodomain Of Human		2e-14
2dat_A	123	Solution Structure Of The Bromodomain Of Human SwiS		5e-19
2dat_A	123	Solution Structure Of The Bromodomain Of Human SwiS		1e-13
3tlp_A	150	Crystal Structure Of The Fourth Bromodomain Of Huma		3e-18
3uvd_A	124	Crystal Structure Of The Bromodomain Of Human Trans		2e-17
3uvd_A	124	Crystal Structure Of The Bromodomain Of Human Trans		3e-15
2grc_A	129	1.5 A Structure Of Bromodomain From Human Brg1 Prot		2e-17
2grc_A	129	1.5 A Structure Of Bromodomain From Human Brg1 Prot		1e-15
2h60_A	128	Solution Structure Of Human Brg1 Bromodomain Length		2e-17
2h60_A	128	Solution Structure Of Human Brg1 Bromodomain Length		1e-15
3k2j_A	130	Crystal Structure Of The 3rd Bromodomain Of Human P		2e-16
2r10_A	361	Structure Of An Acetylated Rsc4 Tandem Bromodomain		4e-11
2r10_A	361	Structure Of An Acetylated Rsc4 Tandem Bromodomain		1e-07
2r0v_A	346	Structure Of The Rsc4 Tandem Bromodomain Acetylated		5e-11
2r0v_A	346	Structure Of The Rsc4 Tandem Bromodomain Acetylated		1e-09
2r0s_A	285	Crystal Structure Of The Rsc4 Tandem Bromodomain Le		3e-10
2r0s_A	285	Crystal Structure Of The Rsc4 Tandem Bromodomain Le		4e-09
2r0y_A	311	Structure Of The Rsc4 Tandem Bromodomain In Complex		3e-10
2r0y_A	311	Structure Of The Rsc4 Tandem Bromodomain In Complex		4e-09
3qzt_A	115	Crystal Structure Of Bptf Bromo In Complex With His		5e-08
3uv2_A	126	Crystal Structure Of The Bromodomain Of Human Nucle		8e-08
3qzs_A	115	Crystal Structure Of Bptf Bromo In Complex With His		8e-08
2ri7_A	174	Crystal Structure Of Phd Finger-Linker-Bromodomain		8e-08
3qzv_A	174	Crystal Structure Of Bptf Phd-Linker-Bromo In Compl		9e-08
3jvj_A	131	Crystal Structure Of The Bromodomain 1 In Mouse Brd		1e-07
3aad_A	292	Structure Of The Histone Chaperone Cia/asf1-double		1e-07
3aad_A	292	Structure Of The Histone Chaperone Cia/asf1-double		1e-04
2oss_A	127	Crystal Structure Of The Bromo Domain 1 In Human Br		2e-07
1eqf_A	280	Crystal Structure Of The Double Bromodomain Module		2e-07
1eqf_A	280	Crystal Structure Of The Double Bromodomain Module		1e-04
4hbw_A	127	Crystal Structure Of The First Bromodomain Of Human		2e-07
3gg3_A	119	Crystal Structure Of The Bromodomain Of Human Pcaf		2e-07
1n72_A	118	Structure And Ligand Of A Histone Acetyltransferase		3e-07
3uv5_A	265	Crystal Structure Of The Tandem Bromodomains Of Hum		3e-07
3uv5_A	265	Crystal Structure Of The Tandem Bromodomains Of Hum		1e-04
4don_A	145	Brd4 Bromodomain 1 Complex With A Fragment 3,4-dihy		3e-07
2f6j_A	174	Crystal Structure Of Phd Finger-Linker-Bromodomain		3e-07
2ydw_A	153	Crystal Structure Of The First Bromodomain Of Human		3e-07
2yw5_A	138	Solution Structure Of The Bromodomain From Human Br		3e-07
4a9e_A	154	N-Terminal Bromodomain Of Human Brd2 With 3-Methyl-		4e-07
2l5e_A	128	Complex Between Bd1 Of Brd3 And Gata-1 C-Tail Lengt		4e-07
2yyn_A	135	Crystal Sturcture Of Human Bromodomain Protein Leng		5e-07
2nxb_A	123	Crystal Structure Of Human Bromodomain Containing P		6e-07
3o33_A	184	Crystal Structure Of Trim24 Phd-Bromo In The Free S		6e-07
2rfj_A	119	Crystal Structure Of The Bromo Domain 1 In Human Br		2e-06
2rfj_A	119	Crystal Structure Of The Bromo Domain 1 In Human Br		3e-06
3fkm_X	166	Plasmodium Falciparum Bromodomain-Containing Protei		2e-06
3d7c_A	112	Crystal Structure Of The Bromodomain Of Human Gcn5,		4e-06
1f68_A	103	Nmr Solution Structure Of The Bromodomain From Huma		5e-06
2wp2_A	120	Structure Of Brdt Bromodomain Bd1 Bound To A Diacet		7e-06
3i3j_A	124	Crystal Structure Of The Bromodomain Of Human Ep300		1e-05
3mb3_A	135	Crystal Structure Of The Second Bromodomain Of Plec		1e-05
1jsp_B	121	Nmr Structure Of Cbp Bromodomain In Complex With P5		2e-05
3dwy_A	119	Crystal Structure Of The Bromodomain Of Human Crebb		2e-05
3aqa_A	128	Crystal Structure Of The Human Brd2 Bd1 Bromodomain		2e-05
3uv4_A	158	Crystal Structure Of The Second Bromodomain Of Huma		2e-05
3uv4_A	158	Crystal Structure Of The Second Bromodomain Of Huma		2e-04
2ouo_A	130	Crystal Structure Of The Bromo Domain 2 In Human Br		2e-05
2lsp_B	128	Solution Structures Of Brd4 Second Bromodomain With		2e-05
3jvl_A	120	Crystal Structure Of Bromodomain 2 Of Mouse Brd4 Le		2e-05
1x0j_A	122	Crystal Structure Analysis Of The N-Terminal Bromod		3e-05
3hmh_A	155	Crystal Structure Of The Second Bromodomain Of Huma		3e-05
3hmh_A	155	Crystal Structure Of The Second Bromodomain Of Huma		1e-04
3hme_A	123	Crystal Structure Of Human Bromodomain Containing 9		3e-05
2i8n_A	114	Solution Structure Of The Second Bromodomain Of Brd		3e-05
1e6i_A	121	Bromodomain From Gcn5 Complexed With Acetylated H4		5e-05
1e6i_A	121	Bromodomain From Gcn5 Complexed With Acetylated H4		2e-04
3q2e_A	123	Crystal Structure Of The Second Bromodomain Of Huma		9e-05
3rcw_A	135	Crystal Structure Of The Bromodomain Of Human Brd1		1e-04
3mqm_A	126	Crystal Structure Of The Bromodomain Of Human Ash1l		1e-04
3g0l_A	117	Crystal Structure Of Human Bromodomain Adjacent To		2e-04
2d9e_A	121	Solution Structure Of The Bromodomain Of Peregrin L		2e-04
2wp1_A	126	Structure Of Brdt Bromodomain 2 Bound To An Acetyla		2e-04
2e7o_A	112	Solution Structure Of The Bromodomain From Human Br		2e-04
2i7k_A	117	Solution Structure Of The Bromodomain Of Human Brd7		4e-04
3oni_A	114	Crystal Structure Of The Second Bromodomain Of Huma		5e-04
2dww_A	114	Crystal Structure Of Bromodomain-Containing Protein		5e-04
2dvv_A	112	Crystal Structure Of The Second Bromodomain Of The		6e-04
2g4a_A	116	Solution Structure Of A Bromodomain From Ring3 Prot		7e-04

>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 =  117 bits (293), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 54/104 (51%), Positives = 75/104 (72%)
Query: 278 CEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASL 337
            E L  A++ +T+   R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ+G Y S+
Sbjct: 14  LEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSI 73
Query: 338 GDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
             M KD+ L+ KNA T+NEPGSQ++KDA ++KK+   KK EIE 
Sbjct: 74  HAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEH 117

>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 = 82.0 bits (201), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 35/92 (38%), Positives = 58/92 (63%)
Query: 478 TGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA 537
           +GR +S +FQ+LPS+  YPDYY +I++P+D++ IA +++   Y+ +  M  D   +  NA
Sbjct: 28  SGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNA 87
Query: 538 CKYNEPDSHIYKDALSLQRIVLQTKMHLREDE 569
             YNEP S ++KDA S+++I    K  +   E
Sbjct: 88  KTYNEPGSQVFKDANSIKKIFYMKKAEIEHHE 119

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

Iteration: 1
 Score =  117 bits (293), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 54/104 (51%), Positives = 75/104 (72%)
Query: 278 CEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASL 337
            E L  A++ +T+   R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ+G Y S+
Sbjct: 11  LEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSI 70
Query: 338 GDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
             M KD+ L+ KNA T+NEPGSQ++KDA ++KK+   KK EIE 
Sbjct: 71  HAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEH 114

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

Iteration: 1
 Score = 81.3 bits (199), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 35/92 (38%), Positives = 58/92 (63%)
Query: 478 TGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA 537
           +GR +S +FQ+LPS+  YPDYY +I++P+D++ IA +++   Y+ +  M  D   +  NA
Sbjct: 25  SGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNA 84
Query: 538 CKYNEPDSHIYKDALSLQRIVLQTKMHLREDE 569
             YNEP S ++KDA S+++I    K  +   E
Sbjct: 85  KTYNEPGSQVFKDANSIKKIFYMKKAEIEHHE 116

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

Iteration: 1
 Score =  117 bits (293), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 54/104 (51%), Positives = 75/104 (72%)
Query: 278 CEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASL 337
            E L  A++ +T+   R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ+G Y S+
Sbjct: 13  LEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSI 72
Query: 338 GDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
             M KD+ L+ KNA T+NEPGSQ++KDA ++KK+   KK EIE 
Sbjct: 73  HAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEH 116

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

Iteration: 1
 Score = 81.6 bits (200), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 35/92 (38%), Positives = 58/92 (63%)
Query: 478 TGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA 537
           +GR +S +FQ+LPS+  YPDYY +I++P+D++ IA +++   Y+ +  M  D   +  NA
Sbjct: 27  SGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNA 86
Query: 538 CKYNEPDSHIYKDALSLQRIVLQTKMHLREDE 569
             YNEP S ++KDA S+++I    K  +   E
Sbjct: 87  KTYNEPGSQVFKDANSIKKIFYMKKAEIEHHE 118

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

Iteration: 1
 Score =  115 bits (289), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 56/108 (51%), Positives = 76/108 (70%), Gaps = 1/108 (0%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
           QK+  +Y  +K   + K GR+LS IF RLPSR + PDYY  I+KP+DME I S +  N+Y
Sbjct: 18  QKLNEVYEAVKNYTD-KRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKY 76
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLRED 568
           + +D MV DF+ MF+NAC YNEP+S IYKDAL L +++L+T+  L  D
Sbjct: 77  QDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETRRDLEGD 124

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

Iteration: 1
 Score =  113 bits (283), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 54/102 (52%), Positives = 74/102 (72%), Gaps = 1/102 (0%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
           QK+  +Y  +K   + K GR+LS IF RLPSR + PDYY  I+KP+DME I S +  N+Y
Sbjct: 18  QKLNEVYEAVKNYTD-KRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKY 76
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTK 562
           + +D MV DF+ MF+NAC YNEP+S IYKDAL L +++L+T+
Sbjct: 77  QDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETR 118

>pdb|3IU5|A Chain A, Crystal Structure Of The First Bromodomain Of Human Poly-Bromodomain Containing Protein 1 (Pb1) Length = 116

Iteration: 1
 Score =  100 bits (248), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 55/142 (38%), Positives = 80/142 (56%), Gaps = 33/142 (23%)
Query: 98  IDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKT 157
           +DP     ++Y+ IR++K E G LLC+ FIR PK+R +P Y+EVV+ PID +KIQQKLK 
Sbjct: 4   VDPIAVCHELYNTIRDYKDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLKM 63
Query: 158 DEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRN 217
           +EYD       D+ LL                           AD +LL  NAK++YK +
Sbjct: 64  EEYD-------DVNLLT--------------------------ADFQLLFNNAKSYYKPD 90
Query: 218 SQEHRDAQELMELFHSTRNKLL 239
           S E++ A +L +L+  TRN+ +
Sbjct: 91  SPEYKAACKLWDLYLRTRNEFV 112

>pdb|3IU5|A Chain A, Crystal Structure Of The First Bromodomain Of Human Poly-Bromodomain Containing Protein 1 (Pb1) Length = 116

Iteration: 1
 Score = 77.4 bits (189), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 40/97 (41%), Positives = 62/97 (63%), Gaps = 1/97 (1%)
Query: 466 LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDE 525
           LYNTI++  + + GR L  +F R P R + PDYYEV+ +P+D+  I  KL+  +Y+ ++ 
Sbjct: 13  LYNTIRDY-KDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLKMEEYDDVNL 71
Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTK 562
           + ADF  +F+NA  Y +PDS  YK A  L  + L+T+
Sbjct: 72  LTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTR 108

>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 = 92.8 bits (229), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 44/100 (44%), Positives = 66/100 (66%)
Query: 277 QCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYAS 336
           Q   + + V+   D+  R L EVF  LPS+K  PEYY++I  P+D + I  RI++ KY S
Sbjct: 17  QMNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRS 76
Query: 337 LGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKK 376
           LGD+EKD++L+  NA TFN  GSQIY+D+  L+ + ++ +
Sbjct: 77  LGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVFKSAR 116

>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 = 75.1 bits (183), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 34/80 (42%), Positives = 54/80 (67%)
Query: 478 TGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA 537
           +GRQLS +F +LPSR + P+YYE+IRKPVD + I  ++R ++Y  L ++  D + +  NA
Sbjct: 32  SGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCHNA 91
Query: 538 CKYNEPDSHIYKDALSLQRI 557
             +N   S IY+D++ LQ +
Sbjct: 92  QTFNLEGSQIYEDSIVLQSV 111

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

Iteration: 1
 Score = 90.5 bits (223), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 41/105 (39%), Positives = 68/105 (64%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
           Q+M+IL+N + E  EP +GR+L  +F   PS+ DYPDYY++I +P+D+++I   +R ++Y
Sbjct: 27  QRMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDYPDYYKIILEPMDLKIIEHNIRNDKY 86
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHL 565
              + M+ D   MF NA  YNE  S +Y DA  L++++ + +  L
Sbjct: 87  AGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEKLLKEKRKEL 131

>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 = 87.4 bits (215), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 45/102 (44%), Positives = 69/102 (67%), Gaps = 1/102 (0%)
Query: 281 LFNAVMTSTDADS-RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGD 339
           + +AV+   D+ S R L EVF  LPS+K  PEYY++I  P+D + I  RI++ KY SL D
Sbjct: 20  IVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLND 79
Query: 340 MEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
           +EKD++L+ +NA TFN  GS IY+D+  L+ +  + + +IE+
Sbjct: 80  LEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEK 121

>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 = 80.5 bits (197), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 37/110 (33%), Positives = 70/110 (63%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
           +KM+ + + + +  +  +GRQLS +F +LPSR + P+YYE+IRKPVD + I  ++R ++Y
Sbjct: 15  KKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKY 74
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDED 570
             L+++  D + +  NA  +N   S IY+D++ LQ +    +  + +++D
Sbjct: 75  RSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDD 124

>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 = 87.4 bits (215), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 45/102 (44%), Positives = 69/102 (67%), Gaps = 1/102 (0%)
Query: 281 LFNAVMTSTDADS-RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGD 339
           + +AV+   D+ S R L EVF  LPS+K  PEYY++I  P+D + I  RI++ KY SL D
Sbjct: 19  IVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLND 78
Query: 340 MEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
           +EKD++L+ +NA TFN  GS IY+D+  L+ +  + + +IE+
Sbjct: 79  LEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEK 120

>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 = 82.0 bits (201), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 38/111 (34%), Positives = 71/111 (63%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
           +KM+ + + + +  +  +GRQLS +F +LPSR + P+YYE+IRKPVD + I  ++R ++Y
Sbjct: 14  KKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKY 73
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDS 571
             L+++  D + +  NA  +N   S IY+D++ LQ +    +  + +++DS
Sbjct: 74  RSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDDS 124

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

Iteration: 1
 Score = 87.4 bits (215), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 45/102 (44%), Positives = 69/102 (67%), Gaps = 1/102 (0%)
Query: 281 LFNAVMTSTDADS-RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGD 339
           + +AV+   D+ S R L EVF  LPS+K  PEYY++I  P+D + I  RI++ KY SL D
Sbjct: 15  IVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLND 74
Query: 340 MEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
           +EKD++L+ +NA TFN  GS IY+D+  L+ +  + + +IE+
Sbjct: 75  LEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEK 116

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

Iteration: 1
 Score = 82.0 bits (201), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 38/112 (33%), Positives = 72/112 (64%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
           +KM+ + + + +  +  +GRQLS +F +LPSR + P+YYE+IRKPVD + I  ++R ++Y
Sbjct: 10  KKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKY 69
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSV 572
             L+++  D + +  NA  +N   S IY+D++ LQ +    +  + +++DS+
Sbjct: 70  RSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDDSL 121

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

Iteration: 1
 Score = 84.0 bits (206), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 44/118 (37%), Positives = 69/118 (58%), Gaps = 2/118 (1%)
Query: 453 FGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIA 512
            G      Q M+ LY+T++ +C    G+ ++  F  LPS+  YPDYY+ I+ P+ ++ I 
Sbjct: 13  LGTENLYFQSMQ-LYDTVR-SCRNNQGQLIAEPFYHLPSKKKYPDYYQQIKMPISLQQIR 70
Query: 513 SKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDED 570
           +KL+  +YE LD +  D   MF+NA +YN P+S IYK  L LQ+++   K  L   +D
Sbjct: 71  TKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARRDD 128

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

Iteration: 1
 Score = 66.6 bits (161), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 57/208 (27%), Positives = 99/208 (47%), Gaps = 31/208 (14%)
Query: 177 NPIDFIKIQQKLKTDEY--------DDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELM 228
           +P  + KIQQ +  +E         D  S+F  D+ELL KN + + + +S   +++ +++
Sbjct: 110 HPQYYYKIQQPMSINEIKSRDYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVV 169
Query: 229 ELF--------HSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCED 280
            L         +  RN L+N       S+ ++      ++  D+      TE + NQ   
Sbjct: 170 MLIEFEVLKAKNLKRNYLIN-------SEVKAKLLHYLNKLVDA------TEKKINQA-- 214
Query: 281 LFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDM 340
           L  A       D   L E F  L  K   PEYY+++  P+ L  + + ++ G+Y+ + D 
Sbjct: 215 LLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDF 274
Query: 341 EKDLILMTKNACTFNEPGSQIYKDAKAL 368
             D++L+ +NA  FN+P + IYKDA  L
Sbjct: 275 IIDMLLVFQNAHIFNDPSALIYKDATTL 302

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

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 43/74 (58%)
Query: 481 QLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKY 540
           +LS  F  L  + + P+YYE++  P+ + ++   L   QY  + + + D + +F NA  +
Sbjct: 229 KLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIF 288
Query: 541 NEPDSHIYKDALSL 554
           N+P + IYKDA +L
Sbjct: 289 NDPSALIYKDATTL 302

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

Iteration: 1
 Score = 66.2 bits (160), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 57/208 (27%), Positives = 99/208 (47%), Gaps = 31/208 (14%)
Query: 177 NPIDFIKIQQKLKTDEY--------DDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELM 228
           +P  + KIQQ +  +E         D  S+F  D+ELL KN + + + +S   +++ +++
Sbjct: 95  HPQYYYKIQQPMSINEIKSRDYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVV 154
Query: 229 ELF--------HSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCED 280
            L         +  RN L+N       S+ ++      ++  D+      TE + NQ   
Sbjct: 155 MLIEFEVLKAKNLKRNYLIN-------SEVKAKLLHYLNKLVDA------TEKKINQA-- 199
Query: 281 LFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDM 340
           L  A       D   L E F  L  K   PEYY+++  P+ L  + + ++ G+Y+ + D 
Sbjct: 200 LLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDF 259
Query: 341 EKDLILMTKNACTFNEPGSQIYKDAKAL 368
             D++L+ +NA  FN+P + IYKDA  L
Sbjct: 260 IIDMLLVFQNAHIFNDPSALIYKDATTL 287

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

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 63/259 (24%), Positives = 111/259 (42%), Gaps = 61/259 (23%)
Query: 300 FQLLPSKKRYPEYYDVIDVPIDLRTIARR---IQDGKYASLGDMEKDLILMTKNACTFNE 356
           F  LPS+K +P+YY  I  P+ +  I  R    +DG    L D+E    L+TKN   +NE
Sbjct: 86  FIKLPSRKFHPQYYYKIQQPMSINEIKSRDYEYEDGPSNFLLDVE----LLTKNCQAYNE 141
Query: 357 PGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSL-SAITAALXXXX 415
             S I K++  +  L++                 E +++K ++    + S + A L    
Sbjct: 142 YDSLIVKNSMQVVMLIEF----------------EVLKAKNLKRNYLINSEVKAKLLHY- 184
Query: 416 XXXXXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCE 475
                            L ++ DA      Q ++    G ++      + L + +K   E
Sbjct: 185 -----------------LNKLVDATEKKINQALL----GASSP-----KNLDDKVK-LSE 217
Query: 476 PKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFD 535
           P         F  L  + + P+YYE++  P+ + ++   L   QY  + + + D + +F 
Sbjct: 218 P---------FMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQ 268
Query: 536 NACKYNEPDSHIYKDALSL 554
           NA  +N+P + IYKDA +L
Sbjct: 269 NAHIFNDPSALIYKDATTL 287

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

Iteration: 1
 Score = 63.9 bits (154), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 58/208 (27%), Positives = 100/208 (48%), Gaps = 31/208 (14%)
Query: 177 NPIDFIKIQQ-----KLKTDEY---DDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELM 228
           +P  + KIQQ     ++K+ +Y   D  S+F  D+ELL KN + + + +S   +++ +++
Sbjct: 54  HPQYYYKIQQPXSINEIKSRDYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSXQVV 113
Query: 229 ELF--------HSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCED 280
            L         +  RN L+N       S+ ++      ++  D+      TE + NQ   
Sbjct: 114 XLIEFEVLKAKNLKRNYLIN-------SEVKAKLLHYLNKLVDA------TEKKINQA-- 158
Query: 281 LFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDM 340
           L  A       D   L E F  L  K   PEYY+++  P  L  + + ++ G+Y+ + D 
Sbjct: 159 LLGASSPKNLDDKVKLSEPFXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDF 218
Query: 341 EKDLILMTKNACTFNEPGSQIYKDAKAL 368
             D +L+ +NA  FN+P + IYKDA  L
Sbjct: 219 IIDXLLVFQNAHIFNDPSALIYKDATTL 246

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

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 60/256 (23%), Positives = 106/256 (41%), Gaps = 61/256 (23%)
Query: 303 LPSKKRYPEYYDVIDVPIDLRTIARR---IQDGKYASLGDMEKDLILMTKNACTFNEPGS 359
           LPS+K +P+YY  I  P  +  I  R    +DG    L D+E    L+TKN   +NE  S
Sbjct: 48  LPSRKFHPQYYYKIQQPXSINEIKSRDYEYEDGPSNFLLDVE----LLTKNCQAYNEYDS 103
Query: 360 QIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSL-SAITAALXXXXXXX 418
            I K++  +  L++                 E +++K ++    + S + A L       
Sbjct: 104 LIVKNSXQVVXLIEF----------------EVLKAKNLKRNYLINSEVKAKLLHY---- 143
Query: 419 XXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKT 478
                         L ++ DA      Q ++    G ++      ++      +  EP  
Sbjct: 144 --------------LNKLVDATEKKINQALL----GASSPKNLDDKV------KLSEP-- 177
Query: 479 GRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNAC 538
                  F  L  + + P+YYE++  P  + ++   L   QY  + + + D + +F NA 
Sbjct: 178 -------FXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAH 230
Query: 539 KYNEPDSHIYKDALSL 554
            +N+P + IYKDA +L
Sbjct: 231 IFNDPSALIYKDATTL 246

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

Iteration: 1
 Score = 63.5 bits (153), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 58/208 (27%), Positives = 100/208 (48%), Gaps = 31/208 (14%)
Query: 177 NPIDFIKIQQ-----KLKTDEY---DDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELM 228
           +P  + KIQQ     ++K+ +Y   D  S+F  D+ELL KN + + + +S   +++ +++
Sbjct: 60  HPQYYYKIQQPXSINEIKSRDYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSXQVV 119
Query: 229 ELF--------HSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCED 280
            L         +  RN L+N       S+ ++      ++  D+      TE + NQ   
Sbjct: 120 XLIEFEVLKAKNLKRNYLIN-------SEVKAKLLHYLNKLVDA------TEKKINQA-- 164
Query: 281 LFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDM 340
           L  A       D   L E F  L  K   PEYY+++  P  L  + + ++ G+Y+ + D 
Sbjct: 165 LLGASSPKNLDDKVKLSEPFXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDF 224
Query: 341 EKDLILMTKNACTFNEPGSQIYKDAKAL 368
             D +L+ +NA  FN+P + IYKDA  L
Sbjct: 225 IIDXLLVFQNAHIFNDPSALIYKDATTL 252

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 61/259 (23%), Positives = 107/259 (41%), Gaps = 61/259 (23%)
Query: 300 FQLLPSKKRYPEYYDVIDVPIDLRTIARR---IQDGKYASLGDMEKDLILMTKNACTFNE 356
           F  LPS+K +P+YY  I  P  +  I  R    +DG    L D+E    L+TKN   +NE
Sbjct: 51  FIKLPSRKFHPQYYYKIQQPXSINEIKSRDYEYEDGPSNFLLDVE----LLTKNCQAYNE 106
Query: 357 PGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSL-SAITAALXXXX 415
             S I K++  +  L++                 E +++K ++    + S + A L    
Sbjct: 107 YDSLIVKNSXQVVXLIEF----------------EVLKAKNLKRNYLINSEVKAKLLHY- 149
Query: 416 XXXXXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCE 475
                            L ++ DA      Q ++    G ++      ++      +  E
Sbjct: 150 -----------------LNKLVDATEKKINQALL----GASSPKNLDDKV------KLSE 182
Query: 476 PKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFD 535
           P         F  L  + + P+YYE++  P  + ++   L   QY  + + + D + +F 
Sbjct: 183 P---------FXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQ 233
Query: 536 NACKYNEPDSHIYKDALSL 554
           NA  +N+P + IYKDA +L
Sbjct: 234 NAHIFNDPSALIYKDATTL 252

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

Iteration: 1
 Score = 56.2 bits (134), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 30/94 (31%), Positives = 48/94 (51%)
Query: 467 YNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEM 526
           Y  +K         +++  F      +D PDYY VI++P+D+  +  +++   YE L E 
Sbjct: 15  YEGLKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEF 74
Query: 527 VADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQ 560
           VAD  ++FDN   YN  DS  Y+ A  L+   +Q
Sbjct: 75  VADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQ 108

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 30/94 (31%), Positives = 48/94 (51%)
Query: 467 YNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEM 526
           Y  +K         +++  F      +D PDYY VI++P+D+  +  +++   YE L E 
Sbjct: 22  YEGLKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEF 81
Query: 527 VADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQ 560
           VAD  ++FDN   YN  DS  Y+ A  L+   +Q
Sbjct: 82  VADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQ 115

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 30/94 (31%), Positives = 47/94 (50%)
Query: 467 YNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEM 526
           Y  +K         +++  F      +D PDYY VI++P+D+  +  +++   YE L E 
Sbjct: 15  YEGLKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEF 74
Query: 527 VADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQ 560
           VAD   +FDN   YN  DS  Y+ A  L+   +Q
Sbjct: 75  VADMTAIFDNCRYYNPSDSPFYQCAEVLESFFVQ 108

>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 = 55.8 bits (133), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 27/68 (39%), Positives = 41/68 (60%)
Query: 493 HDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDAL 552
           +D PDYY VI++P+D+  +  +++   YE L E VAD  ++FDN   YN  DS  Y+ A 
Sbjct: 100 NDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAE 159
Query: 553 SLQRIVLQ 560
            L+   +Q
Sbjct: 160 VLESFFVQ 167

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

Iteration: 1
 Score = 55.5 bits (132), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 27/68 (39%), Positives = 41/68 (60%)
Query: 493 HDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDAL 552
           +D PDYY VI++P+D+  +  +++   YE L E VAD  ++FDN   YN  DS  Y+ A 
Sbjct: 100 NDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAE 159
Query: 553 SLQRIVLQ 560
            L+   +Q
Sbjct: 160 VLESFFVQ 167

>pdb|3JVJ|A Chain A, Crystal Structure Of The Bromodomain 1 In Mouse Brd4 Length = 131

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/76 (36%), Positives = 42/76 (55%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALS 553
           + PDYY++I+ P+DM  I  +L  N Y +  E + DF  MF N   YN+P   I   A +
Sbjct: 56  NLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEA 115
Query: 554 LQRIVLQTKMHLREDE 569
           L+++ LQ    L  +E
Sbjct: 116 LEKLFLQKINELPTEE 131

>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 = 54.7 bits (130), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 49/198 (24%), Positives = 85/198 (42%), Gaps = 24/198 (12%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           ++T P+D   +++ ++   Y    +F+  +EL+VKN+ T+   N  +H   Q    +   
Sbjct: 83  IITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY---NGPKHSLTQISQSMLDL 139
Query: 234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTS---TD 290
              KL   +      +K                + +  +D+Q     + + ++T      
Sbjct: 140 CDEKLKEKEDKLARLEKAI--------------NPLLDDDDQVAFSFILDNIVTQKMMAV 185
Query: 291 ADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN 350
            DS P H       +KK  P+YY VI  P+DL TI + I   KY S      D+ L+  N
Sbjct: 186 PDSWPFHHPV----NKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILAN 241
Query: 351 ACTFNEPGSQIYKDAKAL 368
           +  +N P SQ  K A+ +
Sbjct: 242 SVKYNGPESQYTKTAQEI 259

>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 = 45.4 bits (106), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 36/66 (54%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDYY+VI  P+D+E I   +  ++Y+  +  + D   +  N+ KYN P+S   K A  + 
Sbjct: 201 PDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIV 260
Query: 556 RIVLQT 561
            +  QT
Sbjct: 261 NVCYQT 266

>pdb|2OSS|A Chain A, Crystal Structure Of The Bromo Domain 1 In Human Bromodomain Containing Protein 4 (Brd4) Length = 127

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 28/76 (36%), Positives = 42/76 (55%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALS 553
           + PDYY++I+ P+DM  I  +L  N Y +  E + DF  MF N   YN+P   I   A +
Sbjct: 52  NLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEA 111
Query: 554 LQRIVLQTKMHLREDE 569
           L+++ LQ    L  +E
Sbjct: 112 LEKLFLQKINELPTEE 127

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 49/198 (24%), Positives = 85/198 (42%), Gaps = 24/198 (12%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           ++T P+D   +++ ++   Y    +F+  +EL+VKN+ T+   N  +H   Q    +   
Sbjct: 62  IITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY---NGPKHSLTQISQSMLDL 118
Query: 234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTS---TD 290
              KL   +      +K                + +  +D+Q     + + ++T      
Sbjct: 119 CDEKLKEKEDKLARLEKAI--------------NPLLDDDDQVAFSFILDNIVTQKMMAV 164
Query: 291 ADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN 350
            DS P H       +KK  P+YY VI  P+DL TI + I   KY S      D+ L+  N
Sbjct: 165 PDSWPFHHPV----NKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILAN 220
Query: 351 ACTFNEPGSQIYKDAKAL 368
           +  +N P SQ  K A+ +
Sbjct: 221 SVKYNGPESQYTKTAQEI 238

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 36/66 (54%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDYY+VI  P+D+E I   +  ++Y+  +  + D   +  N+ KYN P+S   K A  + 
Sbjct: 180 PDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIV 239
Query: 556 RIVLQT 561
            +  QT
Sbjct: 240 NVCYQT 245

>pdb|4HBW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4 In Complex With A Quinazoline Ligand Length = 127

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 28/76 (36%), Positives = 42/76 (55%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALS 553
           + PDYY++I+ P+DM  I  +L  N Y +  E + DF  MF N   YN+P   I   A +
Sbjct: 52  NLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEA 111
Query: 554 LQRIVLQTKMHLREDE 569
           L+++ LQ    L  +E
Sbjct: 112 LEKLFLQKINELPTEE 127

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 30/94 (31%), Positives = 49/94 (52%)
Query: 466 LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDE 525
           LY+T+K   +     Q +  F     R + P YYEVIR P+D++ ++ +L+   Y     
Sbjct: 16  LYSTLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKL 75
Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQRIVL 559
            +AD  ++F N  +YN P+S  YK A  L++   
Sbjct: 76  FMADLQRVFTNCKEYNPPESEYYKCANILEKFFF 109

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 30/94 (31%), Positives = 49/94 (52%)
Query: 466 LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDE 525
           LY+T+K   +     Q +  F     R + P YYEVIR P+D++ ++ +L+   Y     
Sbjct: 14  LYSTLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKL 73
Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQRIVL 559
            +AD  ++F N  +YN P+S  YK A  L++   
Sbjct: 74  FMADLQRVFTNCKEYNPPESEYYKCANILEKFFF 107

>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 = 53.9 bits (128), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 49/198 (24%), Positives = 85/198 (42%), Gaps = 24/198 (12%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           ++T P+D   +++ ++   Y    +F+  +EL+VKN+ T+   N  +H   Q    +   
Sbjct: 50  IITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY---NGPKHSLTQISQSMLDL 106
Query: 234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTS---TD 290
              KL   +      +K                + +  +D+Q     + + ++T      
Sbjct: 107 CDEKLKEKEDKLARLEKAI--------------NPLLDDDDQVAFSFILDNIVTQKMMAV 152
Query: 291 ADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN 350
            DS P H       +KK  P+YY VI  P+DL TI + I   KY S      D+ L+  N
Sbjct: 153 PDSWPFHHPV----NKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILAN 208
Query: 351 ACTFNEPGSQIYKDAKAL 368
           +  +N P SQ  K A+ +
Sbjct: 209 SVKYNGPESQYTKTAQEI 226

>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 = 45.1 bits (105), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 36/66 (54%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDYY+VI  P+D+E I   +  ++Y+  +  + D   +  N+ KYN P+S   K A  + 
Sbjct: 168 PDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIV 227
Query: 556 RIVLQT 561
            +  QT
Sbjct: 228 NVCYQT 233

>pdb|4DON|A Chain A, Brd4 Bromodomain 1 Complex With A Fragment 3,4-dihydro-3-methyl-2(1h)- Quinazolinon Length = 145

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 26/69 (37%), Positives = 40/69 (57%)
Query: 492 RHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDA 551
           + + PDYY++I+ P+DM  I  +L  N Y +  E + DF  MF N   YN+P   I   A
Sbjct: 70  KLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMA 129
Query: 552 LSLQRIVLQ 560
            +L+++ LQ
Sbjct: 130 EALEKLFLQ 138

>pdb|2F6J|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State Length = 174

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 27/68 (39%), Positives = 39/68 (57%)
Query: 493 HDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDAL 552
           +D PDYY VI++P D+     +++   YE L E VAD  ++FDN   YN  DS  Y+ A 
Sbjct: 100 NDAPDYYGVIKEPXDLATXEERVQRRYYEKLTEFVADXTKIFDNCRYYNPSDSPFYQCAE 159
Query: 553 SLQRIVLQ 560
            L+   +Q
Sbjct: 160 VLESFFVQ 167

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 32/94 (34%), Positives = 48/94 (51%), Gaps = 10/94 (10%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDY+++I++P+DM  I  +L  N Y    E + DF  MF N   YN+P   I   A +L+
Sbjct: 65  PDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLE 124
Query: 556 RIVLQTKMHLREDEDSVPDVPAAVQELLTSLFTS 589
           +I LQ           V  +P   QEL+ ++  S
Sbjct: 125 KIFLQ----------KVASMPQEEQELVVTIPNS 148

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 29/86 (33%), Positives = 46/86 (53%), Gaps = 1/86 (1%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALS 553
           + PDY+++I+ P+DM  I  +L  N Y    E + DF  MF N   YN+P   I   A +
Sbjct: 52  NLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQA 111
Query: 554 LQRIVLQTKMHLREDE-DSVPDVPAA 578
           L++I LQ    + ++E + +P  P  
Sbjct: 112 LEKIFLQKVAQMPQEEVELLPPAPKG 137

>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 = 53.5 bits (127), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 31/91 (34%), Positives = 47/91 (51%), Gaps = 10/91 (10%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDY+++I++P+DM  I  +L  N Y    E + DF  MF N   YN+P   I   A +L+
Sbjct: 65  PDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLE 124
Query: 556 RIVLQTKMHLREDEDSVPDVPAAVQELLTSL 586
           +I LQ           V  +P   QEL+ ++
Sbjct: 125 KIFLQ----------KVASMPQEEQELVVTI 145

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

Iteration: 1
 Score = 53.1 bits (126), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 27/76 (35%), Positives = 42/76 (55%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALS 553
           + PDY+++I+ P+DM  I  +L  N Y    E + DF  MF N   YN+P   I   A +
Sbjct: 50  NLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQA 109
Query: 554 LQRIVLQTKMHLREDE 569
           L++I LQ    + ++E
Sbjct: 110 LEKIFLQKVAQMPQEE 125

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

Iteration: 1
 Score = 53.1 bits (126), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 27/77 (35%), Positives = 45/77 (58%), Gaps = 3/77 (3%)
Query: 481 QLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLR--YNQYEHLDEMVADFIQMFDNAC 538
           ++S  FQ  P     PDYY++I+ P+D+  I  +L+  Y+ Y   ++ VADF  +F N  
Sbjct: 36  EMSLAFQD-PVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCA 94
Query: 539 KYNEPDSHIYKDALSLQ 555
           ++NEPDS +    + L+
Sbjct: 95  EFNEPDSEVANAGIKLE 111

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 27/76 (35%), Positives = 42/76 (55%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALS 553
           + PDY+++I+ P+DM  I  +L  N Y    E + DF  MF N   YN+P   I   A +
Sbjct: 48  NLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQA 107
Query: 554 LQRIVLQTKMHLREDE 569
           L++I LQ    + ++E
Sbjct: 108 LEKIFLQKVAQMPQEE 123

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 27/79 (34%), Positives = 45/79 (56%), Gaps = 3/79 (3%)
Query: 480 RQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLR--YNQYEHLDEMVADFIQMFDNA 537
            ++S  FQ  P     PDYY++I+ P+D+  I  +L+  Y+ Y   ++ VADF  +F N 
Sbjct: 96  HEMSLAFQD-PVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNC 154
Query: 538 CKYNEPDSHIYKDALSLQR 556
            ++NEPDS +    + L+ 
Sbjct: 155 AEFNEPDSEVANAGIKLEN 173

>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 = 51.2 bits (121), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/76 (35%), Positives = 43/76 (56%)
Query: 306 KKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDA 365
           K + P+YY +I  P+DL TI +R+++  YA   +  +D   M  N   +N+PG  I   A
Sbjct: 42  KLQLPDYYTIIKNPMDLNTIKKRLENKYYAKASECIEDFNTMFSNCYLYNKPGDDIVLMA 101
Query: 366 KALKKLVQTKKMEIEQ 381
           +AL+KL   K  ++ Q
Sbjct: 102 QALEKLFMQKLSQMPQ 117

>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 = 50.4 bits (119), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 39/74 (52%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDYY +I+ P+D+  I  +L    Y    E + DF  MF N   YN+P   I   A +L+
Sbjct: 46  PDYYTIIKNPMDLNTIKKRLENKYYAKASECIEDFNTMFSNCYLYNKPGDDIVLMAQALE 105
Query: 556 RIVLQTKMHLREDE 569
           ++ +Q    + ++E
Sbjct: 106 KLFMQKLSQMPQEE 119

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/64 (39%), Positives = 36/64 (56%), Gaps = 2/64 (3%)
Query: 484 HIFQRL--PSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYN 541
           HIF++L    + + PDYY+VI+ P     I +KL+  QY +  E V D   +FDN   YN
Sbjct: 40  HIFEKLVDAKKQNCPDYYDVIKNPXSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYN 99
Query: 542 EPDS 545
             +S
Sbjct: 100 TSNS 103

>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 = 50.1 bits (118), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/92 (31%), Positives = 45/92 (48%)
Query: 466 LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDE 525
           LY T+K           +  F     + + PDYYEVIR P+D++ +  +LR   Y     
Sbjct: 8   LYTTLKNLLAQIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKL 67
Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQRI 557
            VAD  ++  N  +YN PDS   + A +L++ 
Sbjct: 68  FVADLQRVIANCREYNPPDSEYCRCASALEKF 99

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 29/92 (31%), Positives = 45/92 (48%)
Query: 466 LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDE 525
           LY T+K           +  F     + + PDYYEVIR P+D++ +  +LR   Y     
Sbjct: 4   LYTTLKNLLAQIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKL 63
Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQRI 557
            VAD  ++  N  +YN PDS   + A +L++ 
Sbjct: 64  FVADLQRVIANCREYNPPDSEYCRCASALEKF 95

>pdb|2WP2|A Chain A, Structure Of Brdt Bromodomain Bd1 Bound To A Diacetylated Histone H4 Peptide. Length = 120

Iteration: 1
 Score = 49.3 bits (116), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 39/74 (52%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDYY +I+ P+D+  I  +L    YE   E + DF  MF N   YN+    I   A +L+
Sbjct: 47  PDYYTIIKTPMDLNTIKKRLENKYYEKASECIEDFNTMFSNCYLYNKTGDDIVVMAQALE 106
Query: 556 RIVLQTKMHLREDE 569
           ++ +Q    + ++E
Sbjct: 107 KLFMQKLSQMPQEE 120

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/65 (35%), Positives = 35/65 (53%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDY+++++ P+D+  I  KL   QY+   + V D   MF+NA  YN   S +YK    L 
Sbjct: 50  PDYFDIVKSPMDLSTIKRKLDTGQYQEPWQYVDDIWLMFNNAWLYNRKTSRVYKYCSKLS 109
Query: 556 RIVLQ 560
            +  Q
Sbjct: 110 EVFEQ 114

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 46/89 (51%), Gaps = 7/89 (7%)
Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKY 334
           + QCE+L N +    D  S P  +   LL     YP+Y D+ID P+D  T+   ++ G Y
Sbjct: 23  KKQCEELLNLIFQCED--SEPFRQPVDLL----EYPDYRDIIDTPMDFATVRETLEAGNY 76
Query: 335 ASLGDMEKDLILMTKNACTFN-EPGSQIY 362
            S  ++ KD+ L+  N+  +     S+IY
Sbjct: 77  ESPMELCKDVRLIFSNSKAYTPSKRSRIY 105

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 23/65 (35%), Positives = 35/65 (53%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDY+++++ P+D+  I  KL   QY+   + V D   MF+NA  YN   S +YK    L 
Sbjct: 47  PDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLA 106
Query: 556 RIVLQ 560
            +  Q
Sbjct: 107 EVFEQ 111

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 32/54 (59%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYK 549
           PDY+++++ P+D+  I  KL   QY+   + V D   MF+NA  YN   S +YK
Sbjct: 45  PDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYK 98

>pdb|3AQA|A Chain A, Crystal Structure Of The Human Brd2 Bd1 Bromodomain In Complex With A Brd2-Interactive Compound, Bic1 Length = 128

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 29/91 (31%), Positives = 42/91 (46%), Gaps = 10/91 (10%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDY+++I++P D   I  +L  N Y    E   DF   F N   YN+P   I   A +L+
Sbjct: 45  PDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTLE 104
Query: 556 RIVLQTKMHLREDEDSVPDVPAAVQELLTSL 586
           +I LQ           V   P   QEL+ ++
Sbjct: 105 KIFLQ----------KVASXPQEEQELVVTI 125

>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 = 47.8 bits (112), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 29/78 (37%), Positives = 40/78 (51%), Gaps = 6/78 (7%)
Query: 292 DSRPLHEVFQLLPSKKRY-PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN 350
           DS P H      P  K++ P+YY VI  P+DL TI + I   KY S      D+ L+  N
Sbjct: 47  DSWPFHH-----PVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILAN 101
Query: 351 ACTFNEPGSQIYKDAKAL 368
           +  +N P SQ  K A+ +
Sbjct: 102 SVKYNGPESQYTKTAQEI 119

>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 = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 36/66 (54%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDYY+VI  P+D+E I   +  ++Y+  +  + D   +  N+ KYN P+S   K A  + 
Sbjct: 61  PDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIV 120
Query: 556 RIVLQT 561
            +  QT
Sbjct: 121 NVCYQT 126

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/61 (40%), Positives = 32/61 (52%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
           DY ++I+ P+DM  I SKL   +Y    E  AD   MF N  KYN PD  +   A  LQ 
Sbjct: 59  DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 118
Query: 557 I 557
           +
Sbjct: 119 V 119

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/61 (40%), Positives = 32/61 (52%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
           DY ++I+ P+DM  I SKL   +Y    E  AD   MF N  KYN PD  +   A  LQ 
Sbjct: 57  DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 116
Query: 557 I 557
           +
Sbjct: 117 V 117

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/61 (40%), Positives = 32/61 (52%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
           DY ++I+ P+DM  I SKL   +Y    E  AD   MF N  KYN PD  +   A  LQ 
Sbjct: 46  DYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 105
Query: 557 I 557
           +
Sbjct: 106 V 106

>pdb|1X0J|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain Of Human Brd2 Length = 122

Iteration: 1
 Score = 47.4 bits (111), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 29/91 (31%), Positives = 42/91 (46%), Gaps = 10/91 (10%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDY+++I++P D   I  +L  N Y    E   DF   F N   YN+P   I   A +L+
Sbjct: 39  PDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTLE 98
Query: 556 RIVLQTKMHLREDEDSVPDVPAAVQELLTSL 586
           +I LQ           V   P   QEL+ ++
Sbjct: 99  KIFLQ----------KVASXPQEEQELVVTI 119

>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 = 47.4 bits (111), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 28/78 (35%), Positives = 40/78 (51%), Gaps = 6/78 (7%)
Query: 292 DSRPLHEVFQLLPSKKRY-PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN 350
           DS P H      P  K++ P+YY +I  P+DL TI + I   KY S      D+ L+  N
Sbjct: 44  DSWPFHH-----PVNKKFVPDYYKMIVNPVDLETIRKNISKHKYQSRESFLDDVNLILAN 98
Query: 351 ACTFNEPGSQIYKDAKAL 368
           +  +N P SQ  K A+ +
Sbjct: 99  SVKYNGPESQYTKTAQEI 116

>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 = 45.4 bits (106), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 36/66 (54%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           PDYY++I  PVD+E I   +  ++Y+  +  + D   +  N+ KYN P+S   K A  + 
Sbjct: 58  PDYYKMIVNPVDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIV 117
Query: 556 RIVLQT 561
            I  QT
Sbjct: 118 NICYQT 123

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 23/56 (41%), Positives = 32/56 (57%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDA 551
           P Y  +I+ P+D   +  K+  N+Y+ + E  ADF  M DNA  YN PD+  YK A
Sbjct: 44  PGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLA 99

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 25/61 (40%), Positives = 32/61 (52%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
           DY ++I+ P+DM  I SKL   +Y    E  AD   MF N  KYN PD  +   A  LQ 
Sbjct: 38  DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 97
Query: 557 I 557
           +
Sbjct: 98  V 98

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 25/75 (33%), Positives = 38/75 (50%)
Query: 305 SKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKD 364
           +K+  P+YYD I  P+DL T+  +++  KY  + D   D  L+  N   +N   +  YK 
Sbjct: 39  NKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYKY 98
Query: 365 AKALKKLVQTKKMEI 379
           A  L+K    K  EI
Sbjct: 99  ANRLEKFFNNKVKEI 113

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/67 (29%), Positives = 41/67 (61%)
Query: 491 SRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKD 550
           ++ + PDYY+ I++P+D+  +  KL  N+Y+ +++ + D   +F+N   YN  ++  YK 
Sbjct: 39  NKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYKY 98
Query: 551 ALSLQRI 557
           A  L++ 
Sbjct: 99  ANRLEKF 105

>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 = 45.4 bits (106), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 32/106 (30%), Positives = 50/106 (47%), Gaps = 7/106 (6%)
Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKY 334
           + QC++L N +      DS P  +   L+     YP+Y D+ID P+D  T+   +  G Y
Sbjct: 12  KKQCKELVNLIFQC--EDSEPFRQPVDLV----EYPDYRDIIDTPMDFGTVRETLDAGNY 65
Query: 335 ASLGDMEKDLILMTKNACTFN-EPGSQIYKDAKALKKLVQTKKMEI 379
            S  +  KD+ L+  NA  +     S+IY     L  L + K  +I
Sbjct: 66  DSPLEFCKDIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEEKMKKI 111

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 39/73 (53%)
Query: 483 SHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNE 542
           + IF +  S  + PDY + I+ P+D   +  +L    Y++L E   DF  + DN  KYN 
Sbjct: 31  ARIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNA 90
Query: 543 PDSHIYKDALSLQ 555
            D+  Y+ A+ L+
Sbjct: 91  RDTVFYRAAVRLR 103

>pdb|3MQM|A Chain A, Crystal Structure Of The Bromodomain Of Human Ash1l Length = 126

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 33/146 (22%), Positives = 62/146 (42%), Gaps = 41/146 (28%)
Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
            ++I D I ++K      L  P + +P K++   Y+E +++P+D I I++++ T  Y  +
Sbjct: 14  FKEICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTGYYKTV 73
Query: 164 SDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRD 223
             F AD+                 LK                + +NA+ +Y R S   RD
Sbjct: 74  EAFDADM-----------------LK----------------VFRNAEKYYGRKSPVGRD 100
Query: 224 AQELMELFHSTRNKLLNPQSHEGTSQ 249
              L + +++ R        HE ++Q
Sbjct: 101 VCRLRKAYYNAR--------HEASAQ 118

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 34/61 (55%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           P Y +VI+KP+D   I  KL   QY +L+    D   +FDN   +NE DS I +   +++
Sbjct: 44  PGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMR 103
Query: 556 R 556
           +
Sbjct: 104 K 104

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/100 (28%), Positives = 49/100 (49%), Gaps = 4/100 (4%)
Query: 456 TAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKL 515
           ++ S   + +L  T+++  E  TG    +IF       + PDY + I+KP+D   +   L
Sbjct: 2   SSGSSGFLILLRKTLEQLQEKDTG----NIFSEPVPLSEVPDYLDHIKKPMDFFTMKQNL 57
Query: 516 RYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
              +Y + D+   DF  +  N  KYN  D+  Y+ A+ L+
Sbjct: 58  EAYRYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLR 97

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 26/80 (32%), Positives = 42/80 (52%), Gaps = 7/80 (8%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
           +YY+V++ P+D+  I  K+   +Y+   E  AD   MF N  KYN PD  +   A +LQ 
Sbjct: 51  NYYDVVKNPMDLGTIKGKMDNQEYKDAYEFAADVRLMFMNCYKYNPPDHEVVAMARTLQD 110
Query: 557 IVLQTKMHLREDEDSVPDVP 576
           +    ++H  +    +PD P
Sbjct: 111 VF---ELHFAK----IPDEP 123

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 34/61 (55%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
           P Y +VI+KP+D   I  KL   QY +L+    D   +FDN   +NE DS I +   +++
Sbjct: 41  PGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMR 100
Query: 556 R 556
           +
Sbjct: 101 K 101

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 34/59 (57%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKAL 368
           P Y  +I  P+D  T+  +I++  Y S+ +++ +  LM  NA  +N+P +  YK AK L
Sbjct: 39  PGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKL 97

>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 = 43.1 bits (100), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 31/61 (50%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
           DY+++I+ P+D+  +  K+    Y    E  AD   MF N  KYN PD  +   A  LQ 
Sbjct: 44  DYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQD 103
Query: 557 I 557
           +
Sbjct: 104 V 104

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 29/61 (47%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
           DY ++I+ P D   I SKL   +Y    E  AD    F N  KYN PD  +   A  LQ 
Sbjct: 44  DYCDIIKHPXDXSTIKSKLESREYRDAQEFGADVRLXFSNCYKYNPPDHEVVAXARKLQD 103
Query: 557 I 557
           +
Sbjct: 104 V 104

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 31/61 (50%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
           DY+++I+ P+D+  +  K+    Y    E  AD   MF N  KYN PD  +   A  LQ 
Sbjct: 42  DYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQD 101
Query: 557 I 557
           +
Sbjct: 102 V 102

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 31/61 (50%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
           DY+++I+ P+D+  +  K+    Y    E  AD   MF N  KYN PD  +   A  LQ 
Sbjct: 38  DYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQD 97
Query: 557 I 557
           +
Sbjct: 98  V 98

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	653
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	4e-46
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	1e-45
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	9e-26
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	2e-13
2r10_A	361	Chromatin structure-remodeling complex protein RSC	2e-45
2r10_A	361	Chromatin structure-remodeling complex protein RSC	3e-43
2r10_A	361	Chromatin structure-remodeling complex protein RSC	6e-24
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	4e-40
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	5e-27
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	1e-19
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	2e-39
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	3e-24
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	1e-19
2grc_A	129	Probable global transcription activator SNF2L4; br	9e-37
2grc_A	129	Probable global transcription activator SNF2L4; br	3e-32
2grc_A	129	Probable global transcription activator SNF2L4; br	2e-19
2grc_A	129	Probable global transcription activator SNF2L4; br	7e-05
3ljw_A	120	Protein polybromo-1; alpha helix, alternative spli	1e-36
3ljw_A	120	Protein polybromo-1; alpha helix, alternative spli	3e-35
3ljw_A	120	Protein polybromo-1; alpha helix, alternative spli	3e-21
3ljw_A	120	Protein polybromo-1; alpha helix, alternative spli	4e-07
3mb4_A	124	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	2e-35
3mb4_A	124	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	8e-34
3mb4_A	124	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	4e-22
3mb4_A	124	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	5e-07
2dat_A	123	Possible global transcription activator SNF2L2; br	4e-35
2dat_A	123	Possible global transcription activator SNF2L2; br	3e-34
2dat_A	123	Possible global transcription activator SNF2L2; br	9e-23
2dat_A	123	Possible global transcription activator SNF2L2; br	2e-07
3k2j_A	130	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	8e-35
3k2j_A	130	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	1e-34
3k2j_A	130	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	1e-22
3k2j_A	130	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	8e-06
3tlp_A	150	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	2e-34
3tlp_A	150	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	1e-30
3tlp_A	150	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	2e-20
3tlp_A	150	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	1e-04
3mqm_A	126	Probable histone-lysine N-methyltransferase ASH1L;	3e-34
3mqm_A	126	Probable histone-lysine N-methyltransferase ASH1L;	1e-32
3mqm_A	126	Probable histone-lysine N-methyltransferase ASH1L;	6e-23
3mqm_A	126	Probable histone-lysine N-methyltransferase ASH1L;	9e-07
3iu5_A	116	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	5e-34
3iu5_A	116	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	2e-33
3iu5_A	116	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	3e-26
3iu5_A	116	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	7e-05
3iu6_A	147	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	7e-24
3iu6_A	147	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	3e-21
3iu6_A	147	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	2e-18
1e6i_A	121	Transcriptional activator GCN5; gene regulation, b	1e-20
1e6i_A	121	Transcriptional activator GCN5; gene regulation, b	5e-18
1e6i_A	121	Transcriptional activator GCN5; gene regulation, b	3e-09
2d9e_A	121	Peregrin; four-helix bundle, transcription activat	2e-20
2d9e_A	121	Peregrin; four-helix bundle, transcription activat	2e-17
2d9e_A	121	Peregrin; four-helix bundle, transcription activat	3e-10
3d7c_A	112	General control of amino acid synthesis protein 5;	2e-20
3d7c_A	112	General control of amino acid synthesis protein 5;	3e-19
3d7c_A	112	General control of amino acid synthesis protein 5;	1e-09
3rcw_A	135	Bromodomain-containing protein 1; transcription, s	1e-19
3rcw_A	135	Bromodomain-containing protein 1; transcription, s	5e-16
3rcw_A	135	Bromodomain-containing protein 1; transcription, s	1e-08
3rcw_A	135	Bromodomain-containing protein 1; transcription, s	3e-07
2oss_A	127	HUNK1 protein, bromodomain-containing protein 4; B	3e-19
2oss_A	127	HUNK1 protein, bromodomain-containing protein 4; B	2e-17
2oss_A	127	HUNK1 protein, bromodomain-containing protein 4; B	6e-10
3g0l_A	117	Hwalp4, bromodomain adjacent to zinc finger domain	6e-19
3g0l_A	117	Hwalp4, bromodomain adjacent to zinc finger domain	2e-17
3g0l_A	117	Hwalp4, bromodomain adjacent to zinc finger domain	1e-10
2i7k_A	117	Bromodomain-containing protein 7; helix, LEFT-hand	6e-19
2i7k_A	117	Bromodomain-containing protein 7; helix, LEFT-hand	4e-16
2i7k_A	117	Bromodomain-containing protein 7; helix, LEFT-hand	2e-09
3fkm_X	166	Signaling protein; bromodomain, malaria, structura	8e-19
3fkm_X	166	Signaling protein; bromodomain, malaria, structura	4e-18
3fkm_X	166	Signaling protein; bromodomain, malaria, structura	1e-09
3nxb_A	116	CAT eye syndrome critical region protein 2; struct	8e-19
3nxb_A	116	CAT eye syndrome critical region protein 2; struct	8e-18
3nxb_A	116	CAT eye syndrome critical region protein 2; struct	2e-09
4alg_A	154	Bromodomain-containing protein 2; signaling protei	1e-18
4alg_A	154	Bromodomain-containing protein 2; signaling protei	2e-16
4alg_A	154	Bromodomain-containing protein 2; signaling protei	6e-09
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	1e-18
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	1e-17
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	3e-09
3uv4_A	158	Second bromodomain of human transcription initiat	2e-18
3uv4_A	158	Second bromodomain of human transcription initiat	2e-15
3uv4_A	158	Second bromodomain of human transcription initiat	4e-08
3uv4_A	158	Second bromodomain of human transcription initiat	7e-07
3p1f_A	119	CREB-binding protein; structural genomics consorti	2e-18
3p1f_A	119	CREB-binding protein; structural genomics consorti	1e-15
3p1f_A	119	CREB-binding protein; structural genomics consorti	1e-08
2ouo_A	130	HUNK1 protein, bromodomain-containing protein 4; B	3e-18
2ouo_A	130	HUNK1 protein, bromodomain-containing protein 4; B	5e-15
2ouo_A	130	HUNK1 protein, bromodomain-containing protein 4; B	2e-09
3jvl_A	120	Bromodomain-containing protein 4; alpha helical, N	4e-18
3jvl_A	120	Bromodomain-containing protein 4; alpha helical, N	3e-15
3jvl_A	120	Bromodomain-containing protein 4; alpha helical, N	9e-09
3jvl_A	120	Bromodomain-containing protein 4; alpha helical, N	4e-08
3hme_A	123	Bromodomain-containing protein 9; BRD9, bromodomai	5e-18
3hme_A	123	Bromodomain-containing protein 9; BRD9, bromodomai	4e-16
3hme_A	123	Bromodomain-containing protein 9; BRD9, bromodomai	2e-09
3q2e_A	123	Bromodomain and WD repeat-containing protein 1; st	2e-17
3q2e_A	123	Bromodomain and WD repeat-containing protein 1; st	3e-16
3q2e_A	123	Bromodomain and WD repeat-containing protein 1; st	2e-07
3q2e_A	123	Bromodomain and WD repeat-containing protein 1; st	3e-06
2yyn_A	135	Transcription intermediary factor 1-alpha; bromo d	3e-17
2yyn_A	135	Transcription intermediary factor 1-alpha; bromo d	6e-17
2yyn_A	135	Transcription intermediary factor 1-alpha; bromo d	9e-09
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	1e-16
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	1e-14
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	1e-10
3mb3_A	135	PH-interacting protein; PHIP, pleckstrin homology	6e-16
3mb3_A	135	PH-interacting protein; PHIP, pleckstrin homology	1e-15
3mb3_A	135	PH-interacting protein; PHIP, pleckstrin homology	1e-08
2dkw_A	131	Hypothetical protein KIAA1240; bromodomain-like, f	4e-15
2dkw_A	131	Hypothetical protein KIAA1240; bromodomain-like, f	1e-13
2dkw_A	131	Hypothetical protein KIAA1240; bromodomain-like, f	3e-09
2dkw_A	131	Hypothetical protein KIAA1240; bromodomain-like, f	2e-06
3dai_A	130	ATPase family AAA domain-containing protein 2; anc	3e-14
3dai_A	130	ATPase family AAA domain-containing protein 2; anc	2e-12
3dai_A	130	ATPase family AAA domain-containing protein 2; anc	4e-08
3dai_A	130	ATPase family AAA domain-containing protein 2; anc	8e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-10
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	9e-12
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	2e-09
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	5e-05
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	4e-10
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	3e-06
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	1e-04
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	9e-10
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	3e-08
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	2e-06

>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 =  165 bits (418), Expect = 4e-46
 Identities = 52/343 (15%), Positives = 111/343 (32%), Gaps = 41/343 (11%)

Query: 85  ETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTN 144
             P                  +      +   +    +   FI++P ++  P Y+  +  
Sbjct: 10  NAPLNPKSELFLDDWHIPKFNRFISFTLDVLIDKYKDIFKDFIKLPSRKFHPQYYYKIQQ 69

Query: 145 PIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIE 204
           P+   +I+ +                                    +  D  S+F  D+E
Sbjct: 70  PMSINEIKSRDY----------------------------------EYEDGPSNFLLDVE 95

Query: 205 LLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDS 264
           LL KN + + + +S   +++ +++ L                  ++  +           
Sbjct: 96  LLTKNCQAYNEYDSLIVKNSMQVVMLIE-------FEVLKAKNLKRNYLINSEVKAKLLH 148

Query: 265 RDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRT 324
             + +    E+   + L  A       D   L E F  L  K   PEYY+++  P+ L  
Sbjct: 149 YLNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSI 208

Query: 325 IARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKF 384
           + + ++ G+Y+ + D   D++L+ +NA  FN+P + IYKDA  L         +    + 
Sbjct: 209 VKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEFFPEL 268

Query: 385 TPAGKSERIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQE 427
               +   I  +  +                  +     +D +
Sbjct: 269 QDLNERGEINLEFDKFEFENYLAIGGGGPAAAGALAISALDND 311

>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 =  163 bits (414), Expect = 1e-45
 Identities = 53/305 (17%), Positives = 107/305 (35%), Gaps = 55/305 (18%)

Query: 272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQD 331
           +    +     +  +       + + + F  LPS+K +P+YY  I  P+ +  I  R  +
Sbjct: 23  DWHIPKFNRFISFTLDVLIDKYKDIFKDFIKLPSRKFHPQYYYKIQQPMSINEIKSRDYE 82

Query: 332 GKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSE 391
                  +   D+ L+TKN   +NE  S I K++  +  L++ + +              
Sbjct: 83  -YEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVMLIEFEVL-------------- 127

Query: 392 RIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQEDPNSPLWQVYDAIRNAKTQGVIFF 451
                                                  +   +    I +     ++ +
Sbjct: 128 --------------------------------------KAKNLKRNYLINSEVKAKLLHY 149

Query: 452 FFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMI 511
              +  A+ +K+                 +LS  F  L  + + P+YYE++  P+ + ++
Sbjct: 150 LNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIV 209

Query: 512 ASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQT--KMHLREDE 569
              L   QY  + + + D + +F NA  +N+P + IYKDA +L         K    E +
Sbjct: 210 KQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEFFPELQ 269

Query: 570 DSVPD 574
           D    
Sbjct: 270 DLNER 274

>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 =  107 bits (268), Expect = 9e-26
 Identities = 35/194 (18%), Positives = 68/194 (35%), Gaps = 19/194 (9%)

Query: 459 SLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYN 518
            + K     +   +       + +   F +LPSR  +P YY  I++P+ +  I S+  Y 
Sbjct: 25  HIPKFNRFISFTLDVLI-DKYKDIFKDFIKLPSRKFHPQYYYKIQQPMSINEIKSRD-YE 82

Query: 519 QYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAA 578
             +     + D   +  N   YNE DS I K+++ +  ++    +  +  + +       
Sbjct: 83  YEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVMLIEFEVLKAKNLKRNYLINS-- 140

Query: 579 VQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFM 638
                           K       +++   K + + L             D  +    FM
Sbjct: 141 ------------EVKAKLLHYLNKLVDATEKKINQALLGASSPKN---LDDKVKLSEPFM 185

Query: 639 ELPSAKIYPEYYKV 652
           EL      PEYY++
Sbjct: 186 ELVDKDELPEYYEI 199

>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 = 70.5 bits (172), Expect = 2e-13
 Identities = 30/186 (16%), Positives = 60/186 (32%), Gaps = 33/186 (17%)

Query: 60  MGKRRRASSLTRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDG 119
           +        L       +   +   +   +    K          Q +         +D 
Sbjct: 118 VVMLIEFEVLKAKNLKRNYLINSEVKAKLLHYLNKLVDATEKKINQALLGASSPKNLDDK 177

Query: 120 ALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPI 179
             L +PF+ +  K + P Y+E+V +P+        L                        
Sbjct: 178 VKLSEPFMELVDKDELPEYYEIVHSPMA-------LSI---------------------- 208

Query: 180 DFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLL 239
               ++Q L+  +Y  + DF  D+ L+ +NA  F   ++  ++DA  L   F+    K  
Sbjct: 209 ----VKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEF 264

Query: 240 NPQSHE 245
            P+  +
Sbjct: 265 FPELQD 270

>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 =  164 bits (416), Expect = 2e-45
 Identities = 53/322 (16%), Positives = 112/322 (34%), Gaps = 41/322 (12%)

Query: 78  DSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPS 137
            +       P                  +      +   +    +   FI++P ++  P 
Sbjct: 53  KTPHVDYNAPLNPKSELFLDDWHIPKFNRFISFTLDVLIDKYKDIFKDFIKLPSRKFHPQ 112

Query: 138 YHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLS 197
           Y+  +  P+   +I+ +                                    +  D  S
Sbjct: 113 YYYKIQQPMSINEIKSRDY----------------------------------EYEDGPS 138

Query: 198 DFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMM 257
           +F  D+ELL KN + + + +S   +++ +++ L      K  N + +   + +     + 
Sbjct: 139 NFLLDVELLTKNCQAYNEYDSLIVKNSMQVVMLIEFEVLKAKNLKRNYLINSEVKAKLLH 198

Query: 258 ASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVID 317
                    + +    E+   + L  A       D   L E F  L  K   PEYY+++ 
Sbjct: 199 -------YLNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVH 251

Query: 318 VPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKM 377
            P+ L  + + ++ G+Y+ + D   D++L+ +NA  FN+P + IYKDA  L         
Sbjct: 252 SPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQ 311

Query: 378 EIEQGKFTPAGKSERIRSKRIR 399
           +    +     +   I  +  +
Sbjct: 312 KEFFPELQDLNERGEINLEFDK 333

>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 =  158 bits (400), Expect = 3e-43
 Identities = 53/318 (16%), Positives = 110/318 (34%), Gaps = 55/318 (17%)

Query: 259 SETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDV 318
           +   + +      +    +     +  +       + + + F  LPS+K +P+YY  I  
Sbjct: 60  NAPLNPKSELFLDDWHIPKFNRFISFTLDVLIDKYKDIFKDFIKLPSRKFHPQYYYKIQQ 119

Query: 319 PIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKME 378
           P+ +  I  R  +       +   D+ L+TKN   +NE  S I K++  +  L++ + + 
Sbjct: 120 PMSINEIKSRDYE-YEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVMLIEFEVL- 177

Query: 379 IEQGKFTPAGKSERIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQEDPNSPLWQVYD 438
                                                               +   +   
Sbjct: 178 ---------------------------------------------------KAKNLKRNY 186

Query: 439 AIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDY 498
            I +     ++ +   +  A+ +K+                 +LS  F  L  + + P+Y
Sbjct: 187 LINSEVKAKLLHYLNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFMELVDKDELPEY 246

Query: 499 YEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIV 558
           YE++  P+ + ++   L   QY  + + + D + +F NA  +N+P + IYKDA +L    
Sbjct: 247 YEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYF 306

Query: 559 LQT--KMHLREDEDSVPD 574
                K    E +D    
Sbjct: 307 NYLIQKEFFPELQDLNER 324

>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 =  102 bits (256), Expect = 6e-24
 Identities = 35/194 (18%), Positives = 70/194 (36%), Gaps = 19/194 (9%)

Query: 459 SLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYN 518
            + K     +   +       + +   F +LPSR  +P YY  I++P+ +  I S+  Y 
Sbjct: 75  HIPKFNRFISFTLDVLI-DKYKDIFKDFIKLPSRKFHPQYYYKIQQPMSINEIKSR-DYE 132

Query: 519 QYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAA 578
             +     + D   +  N   YNE DS I K+++ +  ++    +  +  + +       
Sbjct: 133 YEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVMLIEFEVLKAKNLKRNYL----- 187

Query: 579 VQELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFM 638
                        N + +     ++  + +   K+    L          D  +    FM
Sbjct: 188 ------------INSEVKAKLLHYLNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFM 235

Query: 639 ELPSAKIYPEYYKV 652
           EL      PEYY++
Sbjct: 236 ELVDKDELPEYYEI 249

>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 =  147 bits (373), Expect = 4e-40
 Identities = 58/329 (17%), Positives = 114/329 (34%), Gaps = 65/329 (19%)

Query: 54  PPKRFIMGKRRRASSLTRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQQI-YDVIR 112
            PK+ +  K++R             ++ H            R++ DP   +  I   +I 
Sbjct: 8   FPKQQLPPKKKRRVG----------TTVHCDYLNRPHKSIHRRRTDPMVTLSSILESIIN 57

Query: 113 NFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIEL 172
           + +         PF      +    Y++++T P+D       L+T               
Sbjct: 58  DMRDLPNT---YPFHTPVNAKVVKDYYKIITRPMD-------LQT--------------- 92

Query: 173 LVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFH 232
                      +++ ++   Y    +F+  +EL+VKN+ T+        + +Q +++L  
Sbjct: 93  -----------LRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCD 141

Query: 233 STRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDAD 292
               +  +  +    +    +D                          +   +M   D+ 
Sbjct: 142 EKLKEKEDKLARLEKAINPLLDDDD------------QVAFSFILDNIVTQKMMAVPDS- 188

Query: 293 SRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC 352
                  F    +KK  P+YY VI  P+DL TI + I   KY S      D+ L+  N+ 
Sbjct: 189 -----WPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSV 243

Query: 353 TFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
            +N P SQ  K A+ +  +      E ++
Sbjct: 244 KYNGPESQYTKTAQEIVNVCYQTLTEYDE 272

>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 =  110 bits (276), Expect = 5e-27
 Identities = 46/345 (13%), Positives = 101/345 (29%), Gaps = 69/345 (20%)

Query: 237 KLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPL 296
           + L P+           D++        R  +       +  E + N +    +      
Sbjct: 11  QQLPPKKKRRVGTTVHCDYLNRPHKSIHRRRTDPMVTLSSILESIINDMRDLPNT----- 65

Query: 297 HEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNE 356
              F    + K   +YY +I  P+                L  + +++            
Sbjct: 66  -YPFHTPVNAKVVKDYYKIITRPM---------------DLQTLRENVR----------- 98

Query: 357 PGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALESEDD 416
              ++Y   +  ++ +                  E I            ++T   +S  D
Sbjct: 99  --KRLYPSREEFREHL------------------ELIVKNSATYNGPKHSLTQISQSMLD 138

Query: 417 ESEDDEEIDQEDPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEP 476
             ++  +  ++        +   + +       F    +    +  +             
Sbjct: 139 LCDEKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKMMAV------------- 185

Query: 477 KTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDN 536
                 S  F    ++   PDYY+VI  P+D+E I   +  ++Y+  +  + D   +  N
Sbjct: 186 ----PDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILAN 241

Query: 537 ACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAAVQE 581
           + KYN P+S   K A  +  +  QT     E    +       +E
Sbjct: 242 SVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTAKE 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 = 88.9 bits (220), Expect = 1e-19
 Identities = 27/192 (14%), Positives = 58/192 (30%), Gaps = 28/192 (14%)

Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
             M  L + ++           ++ F    +     DYY++I +P+D++ +   +R   Y
Sbjct: 43  DPMVTLSSILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLY 102

Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAAVQ 580
              +E       +  N+  YN P   + + + S+  +  +                    
Sbjct: 103 PSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKE---------------- 146

Query: 581 ELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMEL 640
                      +   +   + + L  D+  +                     P   F   
Sbjct: 147 ---------KEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKMMAVPDSWP---FHHP 194

Query: 641 PSAKIYPEYYKV 652
            + K  P+YYKV
Sbjct: 195 VNKKFVPDYYKV 206

>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 =  145 bits (366), Expect = 2e-39
 Identities = 61/331 (18%), Positives = 114/331 (34%), Gaps = 68/331 (20%)

Query: 91  TRPKRKKIDPSDAMQQIYD-VIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFI 149
               R++ DP   +  I + +I + +         PF      +    Y++++T P+D  
Sbjct: 2   MSIHRRRTDPMVTLSSILESIINDMRDLPNT---YPFHTPVNAKVVKDYYKIITRPMD-- 56

Query: 150 KIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKN 209
                L+T                          +++ ++   Y    +F+  +EL+VKN
Sbjct: 57  -----LQT--------------------------LRENVRKRLYPSREEFREHLELIVKN 85

Query: 210 AKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSI 269
           + T+        + +Q +++L      +  +  +    +    +D               
Sbjct: 86  SATYNGPKHSLTQISQSMLDLCDEKLKEKEDKLARLEKAINPLLDDDD------------ 133

Query: 270 CTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRI 329
                      +   +M   D+        F    +KK  P+YY VI  P+DL TI + I
Sbjct: 134 QVAFSFILDNIVTQKMMAVPDS------WPFHHPVNKKFVPDYYKVIVNPMDLETIRKNI 187

Query: 330 QDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGK 389
              KY S      D+ L+  N+  +N P SQ  K A+ +  +      E ++   T   K
Sbjct: 188 SKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDE-HLTQLEK 246

Query: 390 SERIRSKRIRGGQSLSAITAALESEDDESED 420
                 +             ALE  + ES D
Sbjct: 247 DICTAKEA------------ALEEAELESLD 265

>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 =  101 bits (253), Expect = 3e-24
 Identities = 26/101 (25%), Positives = 44/101 (43%)

Query: 481 QLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKY 540
             S  F    ++   PDYY+VI  P+D+E I   +  ++Y+  +  + D   +  N+ KY
Sbjct: 153 PDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKY 212

Query: 541 NEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAAVQE 581
           N P+S   K A  +  +  QT     E    +       +E
Sbjct: 213 NGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTAKE 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 = 88.5 bits (219), Expect = 1e-19
 Identities = 27/192 (14%), Positives = 58/192 (30%), Gaps = 28/192 (14%)

Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
             M  L + ++           ++ F    +     DYY++I +P+D++ +   +R   Y
Sbjct: 10  DPMVTLSSILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLY 69

Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAAVQ 580
              +E       +  N+  YN P   + + + S+  +  +                    
Sbjct: 70  PSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKE---------------- 113

Query: 581 ELLTSLFTSVYNHQKQCLGSFHVLNVDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMEL 640
                      +   +   + + L  D+  +                     P   F   
Sbjct: 114 ---------KEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKMMAVPDSWP---FHHP 161

Query: 641 PSAKIYPEYYKV 652
            + K  P+YYKV
Sbjct: 162 VNKKFVPDYYKV 173

>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 =  132 bits (335), Expect = 9e-37
 Identities = 38/114 (33%), Positives = 72/114 (63%)

Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
           +KM+ + + + +  +  +GRQLS +F +LPSR + P+YYE+IRKPVD + I  ++R ++Y
Sbjct: 14  KKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKY 73

Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPD 574
             L+++  D + +  NA  +N   S IY+D++ LQ +    +  + +++DS  +
Sbjct: 74  RSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDDSEGE 127

>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 =  120 bits (302), Expect = 3e-32
 Identities = 45/121 (37%), Positives = 74/121 (61%), Gaps = 1/121 (0%)

Query: 271 TEDEQNQCEDLFNAVMTSTDA-DSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRI 329
             +   + + + +AV+   D+   R L EVF  LPS+K  PEYY++I  P+D + I  RI
Sbjct: 9   PPNLTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERI 68

Query: 330 QDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGK 389
           ++ KY SL D+EKD++L+ +NA TFN  GS IY+D+  L+ +  + + +IE+   +   +
Sbjct: 69  RNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDDSEGEE 128

Query: 390 S 390
           S
Sbjct: 129 S 129

>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 = 83.6 bits (207), Expect = 2e-19
 Identities = 38/159 (23%), Positives = 70/159 (44%), Gaps = 34/159 (21%)

Query: 89  MQTRPKRKKIDPSDAMQQIYDVIRNFKKE-DGALLCDPFIRIPKKRQEPSYHEVVTNPID 147
           M  +      + +  M++I D +  +K    G  L + FI++P +++ P Y+E+      
Sbjct: 1   MAEKLSPNPPNLTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYEL------ 54

Query: 148 FIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 207
            I+                           P+DF KI+++++  +Y  L+D + D+ LL 
Sbjct: 55  -IR--------------------------KPVDFKKIKERIRNHKYRSLNDLEKDVMLLC 87

Query: 208 KNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEG 246
           +NA+TF    S  + D+  L  +F S R K+      EG
Sbjct: 88  QNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDDSEG 126

>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 = 42.0 bits (99), Expect = 7e-05
 Identities = 15/45 (33%), Positives = 27/45 (60%), Gaps = 1/45 (2%)

Query: 609 KPLKRRLYTLCKCLMDYRDQ-DGRQPMLMFMELPSAKIYPEYYKV 652
             L +++  +   ++ Y+D   GRQ   +F++LPS K  PEYY++
Sbjct: 10  PNLTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYEL 54

>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 =  132 bits (334), Expect = 1e-36
 Identities = 54/114 (47%), Positives = 77/114 (67%)

Query: 271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQ 330
               +   E L  A++ +T+   R + E+FQ LPSK +YP+YY +I  PIDL+TIA+RIQ
Sbjct: 6   PAYLKEILEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQ 65

Query: 331 DGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKF 384
           +G Y S+  M KD+ L+ KNA T+NEPGSQ++KDA ++KK+   KK EIE  + 
Sbjct: 66  NGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEHHEM 119

>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 =  128 bits (323), Expect = 3e-35
 Identities = 40/119 (33%), Positives = 68/119 (57%), Gaps = 2/119 (1%)

Query: 454 GVTAASLQK-MRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIA 512
           G + A L++ +  L   I       +GR +S +FQ+LPS+  YPDYY +I++P+D++ IA
Sbjct: 3   GSSPAYLKEILEQLLEAIVV-ATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIA 61

Query: 513 SKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDS 571
            +++   Y+ +  M  D   +  NA  YNEP S ++KDA S+++I    K  +   E +
Sbjct: 62  QRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEHHEMA 120

>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 = 88.6 bits (220), Expect = 3e-21
 Identities = 36/151 (23%), Positives = 64/151 (42%), Gaps = 37/151 (24%)

Query: 88  TMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPID 147
           T  + P   K    + ++Q+ + I       G L+ + F ++P K Q P Y+ ++  PID
Sbjct: 1   TEGSSPAYLK----EILEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPID 56

Query: 148 FIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 207
                  LKT                          I Q+++   Y  +     DI+LL 
Sbjct: 57  -------LKT--------------------------IAQRIQNGSYKSIHAMAKDIDLLA 83

Query: 208 KNAKTFYKRNSQEHRDAQELMELFHSTRNKL 238
           KNAKT+ +  SQ  +DA  + ++F+  + ++
Sbjct: 84  KNAKTYNEPGSQVFKDANSIKKIFYMKKAEI 114

>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 = 48.5 bits (116), Expect = 4e-07
 Identities = 14/44 (31%), Positives = 22/44 (50%)

Query: 609 KPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
             LK  L  L + ++   +  GR    +F +LPS   YP+YY +
Sbjct: 7   AYLKEILEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAI 50

>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 =  128 bits (325), Expect = 2e-35
 Identities = 56/108 (51%), Positives = 75/108 (69%), Gaps = 1/108 (0%)

Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
           QK+  +Y  +K     K GR+LS IF RLPSR + PDYY  I+KP+DME I S +  N+Y
Sbjct: 18  QKLNEVYEAVKN-YTDKRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKY 76

Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLRED 568
           + +D MV DF+ MF+NAC YNEP+S IYKDAL L +++L+T+  L  D
Sbjct: 77  QDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETRRDLEGD 124

>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 =  124 bits (313), Expect = 8e-34
 Identities = 42/123 (34%), Positives = 63/123 (51%)

Query: 259 SETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDV 318
           S +  S   S      Q +  +++ AV   TD   R L  +F  LPS+   P+YY  I  
Sbjct: 1   SMSGISPKKSKYMTPMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYYLTIKK 60

Query: 319 PIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKME 378
           P+D+  I   +   KY  +  M +D ++M  NACT+NEP S IYKDA  L K++   + +
Sbjct: 61  PMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETRRD 120

Query: 379 IEQ 381
           +E 
Sbjct: 121 LEG 123

>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 = 91.2 bits (227), Expect = 4e-22
 Identities = 25/153 (16%), Positives = 58/153 (37%), Gaps = 33/153 (21%)

Query: 86  TPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNP 145
              +  +  +        + ++Y+ ++N+  + G  L   F+R+P + + P Y+  +  P
Sbjct: 2   MSGISPKKSKYMTPMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYYLTIKKP 61

Query: 146 IDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIEL 205
           +D       ++                           I+  +  ++Y D+     D  +
Sbjct: 62  MD-------MEK--------------------------IRSHMMANKYQDIDSMVEDFVM 88

Query: 206 LVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL 238
           +  NA T+ +  S  ++DA  L ++   TR  L
Sbjct: 89  MFNNACTYNEPESLIYKDALVLHKVLLETRRDL 121

>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 = 48.1 bits (115), Expect = 5e-07
 Identities = 13/44 (29%), Positives = 26/44 (59%)

Query: 609 KPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
            P++++L  + + + +Y D+ GR+   +F+ LPS    P+YY  
Sbjct: 14  TPMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYYLT 57

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

 Score =  127 bits (322), Expect = 4e-35
 Identities = 44/111 (39%), Positives = 66/111 (59%)

Query: 271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQ 330
                 Q   + + V+   D+  R L EVF  LPS+K  PEYY++I  P+D + I  RI+
Sbjct: 11  PPKLTKQMNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIR 70

Query: 331 DGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
           + KY SLGD+EKD++L+  NA TFN  GSQIY+D+  L+ + ++ +     
Sbjct: 71  NHKYRSLGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVFKSARQSGPS 121

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

 Score =  125 bits (316), Expect = 3e-34
 Identities = 36/109 (33%), Positives = 62/109 (56%), Gaps = 2/109 (1%)

Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
           ++M  + +T+    +  +GRQLS +F +LPSR + P+YYE+IRKPVD + I  ++R ++Y
Sbjct: 16  KQMNAIIDTVIN-YKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKY 74

Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDE 569
             L ++  D + +  NA  +N   S IY+D++ LQ +            
Sbjct: 75  RSLGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVFKS-ARQSGPSS 122

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

 Score = 93.2 bits (232), Expect = 9e-23
 Identities = 36/148 (24%), Positives = 61/148 (41%), Gaps = 35/148 (23%)

Query: 91  TRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIK 150
             P   K+     M  I D + N+K   G  L + FI++P +++ P Y+E++  P+D   
Sbjct: 7   GSPNPPKLT--KQMNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVD--- 61

Query: 151 IQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNA 210
                K                           I+++++  +Y  L D + D+ LL  NA
Sbjct: 62  ----FKK--------------------------IKERIRNHKYRSLGDLEKDVMLLCHNA 91

Query: 211 KTFYKRNSQEHRDAQELMELFHSTRNKL 238
           +TF    SQ + D+  L  +F S R   
Sbjct: 92  QTFNLEGSQIYEDSIVLQSVFKSARQSG 119

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

 Score = 48.9 bits (117), Expect = 2e-07
 Identities = 15/44 (34%), Positives = 28/44 (63%)

Query: 609 KPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
             L +++  +   +++Y+D  GRQ   +F++LPS K  PEYY++
Sbjct: 12  PKLTKQMNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYEL 55

>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 =  127 bits (321), Expect = 8e-35
 Identities = 43/125 (34%), Positives = 70/125 (56%)

Query: 257 MASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVI 316
           M      S    + TE+   Q   L++ V +  +   + + E F  LPSKK+YP+YY  I
Sbjct: 1   MHHHHHHSSGVDLGTENLYFQSMQLYDTVRSCRNNQGQLIAEPFYHLPSKKKYPDYYQQI 60

Query: 317 DVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKK 376
            +PI L+ I  ++++ +Y +L  +E DL LM +NA  +N P S IYK    L++++Q KK
Sbjct: 61  KMPISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKK 120

Query: 377 MEIEQ 381
            E+ +
Sbjct: 121 KELAR 125

>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 =  126 bits (319), Expect = 1e-34
 Identities = 40/110 (36%), Positives = 64/110 (58%), Gaps = 1/110 (0%)

Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
            +   LY+T++       G+ ++  F  LPS+  YPDYY+ I+ P+ ++ I +KL+  +Y
Sbjct: 20  FQSMQLYDTVRSCRN-NQGQLIAEPFYHLPSKKKYPDYYQQIKMPISLQQIRTKLKNQEY 78

Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDED 570
           E LD +  D   MF+NA +YN P+S IYK  L LQ+++   K  L   +D
Sbjct: 79  ETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARRDD 128

>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 = 93.2 bits (232), Expect = 1e-22
 Identities = 32/161 (19%), Positives = 62/161 (38%), Gaps = 33/161 (20%)

Query: 85  ETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTN 144
                 +       +      Q+YD +R+ +   G L+ +PF  +P K++ P Y++ +  
Sbjct: 3   HHHHHSSGVDLGTENLYFQSMQLYDTVRSCRNNQGQLIAEPFYHLPSKKKYPDYYQQIKM 62

Query: 145 PIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIE 204
           PI        L+                           I+ KLK  EY+ L   + D+ 
Sbjct: 63  PIS-------LQQ--------------------------IRTKLKNQEYETLDHLECDLN 89

Query: 205 LLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHE 245
           L+ +NAK +   NS  ++   +L ++  + + +L      E
Sbjct: 90  LMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARRDDIE 130

>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 = 44.7 bits (106), Expect = 8e-06
 Identities = 13/46 (28%), Positives = 20/46 (43%)

Query: 607 DNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
             + L  +   L   +   R+  G+     F  LPS K YP+YY+ 
Sbjct: 14  GTENLYFQSMQLYDTVRSCRNNQGQLIAEPFYHLPSKKKYPDYYQQ 59

>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 =  127 bits (320), Expect = 2e-34
 Identities = 43/118 (36%), Positives = 70/118 (59%)

Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
           Q+M+IL+N + E  EP +GR+L  +F   PS+ DYPDYY++I +P+D+++I   +R ++Y
Sbjct: 27  QRMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDYPDYYKIILEPMDLKIIEHNIRNDKY 86

Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAA 578
              + M+ D   MF NA  YNE  S +Y DA  L++++ + +  L    D       A
Sbjct: 87  AGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEKLLKEKRKELGPLPDDDDMASPA 144

>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 =  116 bits (291), Expect = 1e-30
 Identities = 45/125 (36%), Positives = 71/125 (56%), Gaps = 1/125 (0%)

Query: 258 ASETEDSRDSSICTEDEQNQCEDLFNAVMTSTD-ADSRPLHEVFQLLPSKKRYPEYYDVI 316
           A+    S          + + + LFN V+ + +    R L ++F + PSKK YP+YY +I
Sbjct: 9   ATSDTGSAKRKSKKNIRKQRMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDYPDYYKII 68

Query: 317 DVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKK 376
             P+DL+ I   I++ KYA    M +D+ LM +NA  +NE GSQ+Y DA  L+KL++ K+
Sbjct: 69  LEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEKLLKEKR 128

Query: 377 MEIEQ 381
            E+  
Sbjct: 129 KELGP 133

>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 = 87.2 bits (216), Expect = 2e-20
 Identities = 39/181 (21%), Positives = 74/181 (40%), Gaps = 35/181 (19%)

Query: 77  DDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKE-DGALLCDPFIRIPKKRQE 135
            DS   ++ + T   + K KK      M+ +++V+   ++   G  LCD F+  P K+  
Sbjct: 2   GDSMISSATSDTGSAKRKSKKNIRKQRMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDY 61

Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDD 195
           P Y++++  P+D       LK                           I+  ++ D+Y  
Sbjct: 62  PDYYKIILEPMD-------LKI--------------------------IEHNIRNDKYAG 88

Query: 196 LSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL-LNPQSHEGTSQKRSMD 254
                 D++L+ +NA+ + +  SQ + DA  L +L    R +L   P   +  S   ++ 
Sbjct: 89  EEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEKLLKEKRKELGPLPDDDDMASPAENLY 148

Query: 255 F 255
           F
Sbjct: 149 F 149

>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 = 41.7 bits (98), Expect = 1e-04
 Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 1/45 (2%)

Query: 609 KPLKRRLYTLCKCLMDYRD-QDGRQPMLMFMELPSAKIYPEYYKV 652
              K+R+  L   +++ R+   GR+   +FM  PS K YP+YYK+
Sbjct: 23  NIRKQRMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDYPDYYKI 67

>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 =  125 bits (317), Expect = 3e-34
 Identities = 25/112 (22%), Positives = 49/112 (43%), Gaps = 1/112 (0%)

Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
           Q  + + + I    +  + + L+     LP +    DYYE I  P+D+  I  ++    Y
Sbjct: 12  QIFKEICDGIIS-YKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTGYY 70

Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSV 572
           + ++   AD +++F NA KY    S + +D   L++     +       D +
Sbjct: 71  KTVEAFDADMLKVFRNAEKYYGRKSPVGRDVCRLRKAYYNARHEASAQIDEI 122

>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 =  121 bits (305), Expect = 1e-32
 Identities = 25/107 (23%), Positives = 52/107 (48%)

Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKY 334
               +++ + +++  D+  + L      LP KK+  +YY+ I  P+DL TI ++I  G Y
Sbjct: 11  AQIFKEICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTGYY 70

Query: 335 ASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
            ++   + D++ + +NA  +    S + +D   L+K     + E   
Sbjct: 71  KTVEAFDADMLKVFRNAEKYYGRKSPVGRDVCRLRKAYYNARHEASA 117

>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 = 93.6 bits (233), Expect = 6e-23
 Identities = 29/136 (21%), Positives = 58/136 (42%), Gaps = 33/136 (24%)

Query: 103 AMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDD 162
             ++I D I ++K      L  P + +P K++   Y+E +++P+D       L T     
Sbjct: 13  IFKEICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLD-------LIT----- 60

Query: 163 LSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHR 222
                                I++++ T  Y  +  F AD+  + +NA+ +Y R S   R
Sbjct: 61  ---------------------IEKQILTGYYKTVEAFDADMLKVFRNAEKYYGRKSPVGR 99

Query: 223 DAQELMELFHSTRNKL 238
           D   L + +++ R++ 
Sbjct: 100 DVCRLRKAYYNARHEA 115

>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 = 47.4 bits (113), Expect = 9e-07
 Identities = 9/46 (19%), Positives = 18/46 (39%)

Query: 607 DNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
               L +    +C  ++ Y+D   +      + LP  K   +YY+ 
Sbjct: 6   RAARLAQIFKEICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEK 51

>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 =  124 bits (314), Expect = 5e-34
 Identities = 40/111 (36%), Positives = 65/111 (58%), Gaps = 1/111 (0%)

Query: 460 LQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQ 519
           +     LYNTI++  + + GR L  +F R P R + PDYYEV+ +P+D+  I  KL+  +
Sbjct: 7   IAVCHELYNTIRD-YKDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLKMEE 65

Query: 520 YEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDED 570
           Y+ ++ + ADF  +F+NA  Y +PDS  YK A  L  + L+T+    +  +
Sbjct: 66  YDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTRNEFVQKGE 116

>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 =  122 bits (309), Expect = 2e-33
 Identities = 34/111 (30%), Positives = 55/111 (49%)

Query: 271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQ 330
           T D    C +L+N +    D   R L E+F   P ++  P+YY+V+  PIDL  I ++++
Sbjct: 3   TVDPIAVCHELYNTIRDYKDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLK 62

Query: 331 DGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
             +Y  +  +  D  L+  NA ++ +P S  YK A  L  L    + E  Q
Sbjct: 63  MEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTRNEFVQ 113

>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 =  102 bits (257), Expect = 3e-26
 Identities = 53/145 (36%), Positives = 79/145 (54%), Gaps = 33/145 (22%)

Query: 96  KKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKL 155
             +DP     ++Y+ IR++K E G LLC+ FIR PK+R +P Y+EVV+            
Sbjct: 2   MTVDPIAVCHELYNTIRDYKDEQGRLLCELFIRAPKRRNQPDYYEVVS------------ 49

Query: 156 KTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYK 215
                                 PID +KIQQKLK +EYDD++   AD +LL  NAK++YK
Sbjct: 50  ---------------------QPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSYYK 88

Query: 216 RNSQEHRDAQELMELFHSTRNKLLN 240
            +S E++ A +L +L+  TRN+ + 
Sbjct: 89  PDSPEYKAACKLWDLYLRTRNEFVQ 113

>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 = 41.5 bits (98), Expect = 7e-05
 Identities = 12/42 (28%), Positives = 21/42 (50%)

Query: 611 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
                + L   + DY+D+ GR    +F+  P  +  P+YY+V
Sbjct: 6   PIAVCHELYNTIRDYKDEQGRLLCELFIRAPKRRNQPDYYEV 47

>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 = 96.9 bits (241), Expect = 7e-24
 Identities = 27/149 (18%), Positives = 58/149 (38%), Gaps = 10/149 (6%)

Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKY 334
           Q    +LF +VM+  D + R   +    +P+    P + +    P+    I + +++ +Y
Sbjct: 9   QELIHNLFVSVMSHQDDEGRCYSDSLAEIPAVD--PNFPNKP--PLTFDIIRKNVENNRY 64

Query: 335 ASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIR 394
             L   ++ +  + + A   N   S+IY+DA  L++     + E+ +        +    
Sbjct: 65  RRLDLFQEHMFEVLERARRMNRTDSEIYEDAVELQQFFIKIRDELCKNGEILLSPALSYT 124

Query: 395 SKRIRGGQSLSAITAALESEDDESEDDEE 423
           +K       L         E    E +E+
Sbjct: 125 TK------HLHNDVEKERKEKLPKEIEED 147

>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 = 89.6 bits (222), Expect = 3e-21
 Identities = 24/123 (19%), Positives = 57/123 (46%), Gaps = 6/123 (4%)

Query: 457 AASLQK-MRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKL 515
              +Q+ +  L+ ++  + +   GR  S     +P+    P++    + P+  ++I   +
Sbjct: 5   TLLIQELIHNLFVSVM-SHQDDEGRCYSDSLAEIPAV--DPNFP--NKPPLTFDIIRKNV 59

Query: 516 RYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDV 575
             N+Y  LD       ++ + A + N  DS IY+DA+ LQ+  ++ +  L ++ + +   
Sbjct: 60  ENNRYRRLDLFQEHMFEVLERARRMNRTDSEIYEDAVELQQFFIKIRDELCKNGEILLSP 119

Query: 576 PAA 578
             +
Sbjct: 120 ALS 122

>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 = 81.8 bits (202), Expect = 2e-18
 Identities = 26/175 (14%), Positives = 60/175 (34%), Gaps = 37/175 (21%)

Query: 102 DAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYD 161
           + +  ++  + + + ++G    D    IP              P    K           
Sbjct: 10  ELIHNLFVSVMSHQDDEGRCYSDSLAEIPAVD-----------PNFPNK----------- 47

Query: 162 DLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH 221
                           P+ F  I++ ++ + Y  L  FQ  +  +++ A+   + +S+ +
Sbjct: 48  ---------------PPLTFDIIRKNVENNRYRRLDLFQEHMFEVLERARRMNRTDSEIY 92

Query: 222 RDAQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQN 276
            DA EL + F   R++L        +         + ++ E  R   +  E E++
Sbjct: 93  EDAVELQQFFIKIRDELCKNGEILLSPALSYTTKHLHNDVEKERKEKLPKEIEED 147

>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 = 87.0 bits (216), Expect = 1e-20
 Identities = 23/92 (25%), Positives = 49/92 (53%), Gaps = 1/92 (1%)

Query: 483 SHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNE 542
           +  F +  ++ + PDYY+ I++P+D+  +  KL  N+Y+ +++ + D   +F+N   YN 
Sbjct: 31  AWPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNG 90

Query: 543 PDSHIYKDALSLQRIVLQTKMHLREDEDSVPD 574
            ++  YK A  L++     K+    +   + D
Sbjct: 91  ENTSYYKYANRLEK-FFNNKVKEIPEYSHLID 121

>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 = 79.3 bits (196), Expect = 5e-18
 Identities = 27/108 (25%), Positives = 45/108 (41%), Gaps = 6/108 (5%)

Query: 274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGK 333
                +++   +     A        F    +K+  P+YYD I  P+DL T+  +++  K
Sbjct: 14  HDAAIQNILTELQNHAAA------WPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNK 67

Query: 334 YASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
           Y  + D   D  L+  N   +N   +  YK A  L+K    K  EI +
Sbjct: 68  YQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEIPE 115

>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 = 54.2 bits (131), Expect = 3e-09
 Identities = 14/65 (21%), Positives = 34/65 (52%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
            +  P+D   ++ KL++++Y  + DF  D  L+  N + +   N+  ++ A  L + F++
Sbjct: 49  FIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNN 108

Query: 234 TRNKL 238
              ++
Sbjct: 109 KVKEI 113

>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 = 86.7 bits (215), Expect = 2e-20
 Identities = 24/96 (25%), Positives = 42/96 (43%)

Query: 483 SHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNE 542
            +IF       + PDY + I+KP+D   +   L   +Y + D+   DF  +  N  KYN 
Sbjct: 25  GNIFSEPVPLSEVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYNA 84

Query: 543 PDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAA 578
            D+  Y+ A+ L+          R   + +   P++
Sbjct: 85  KDTIFYRAAVRLREQGGAVLRQARRQAEKMGSGPSS 120

>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 = 77.8 bits (192), Expect = 2e-17
 Identities = 18/111 (16%), Positives = 39/111 (35%), Gaps = 6/111 (5%)

Query: 271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQ 330
           +             +        +    +F         P+Y D I  P+D  T+ + ++
Sbjct: 5   SSGFLILLRKTLEQLQ------EKDTGNIFSEPVPLSEVPDYLDHIKKPMDFFTMKQNLE 58

Query: 331 DGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
             +Y +  D E+D  L+  N   +N   +  Y+ A  L++       +  +
Sbjct: 59  AYRYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLREQGGAVLRQARR 109

>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 = 57.0 bits (138), Expect = 3e-10
 Identities = 16/60 (26%), Positives = 30/60 (50%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
            +  P+DF  ++Q L+   Y +  DF+ D  L+V N   +  +++  +R A  L E   +
Sbjct: 43  HIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLREQGGA 102

>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 = 86.2 bits (214), Expect = 2e-20
 Identities = 25/78 (32%), Positives = 40/78 (51%)

Query: 483 SHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNE 542
           +  F     + + PDYYEVIR P+D++ +  +LR   Y      VAD  ++  N  +YN 
Sbjct: 25  AWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNP 84

Query: 543 PDSHIYKDALSLQRIVLQ 560
           PDS   + A +L++    
Sbjct: 85  PDSEYCRCASALEKFFYF 102

>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 = 82.3 bits (204), Expect = 3e-19
 Identities = 27/105 (25%), Positives = 44/105 (41%), Gaps = 6/105 (5%)

Query: 271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQ 330
            +      ++L   + +   A        F     K   P+YY+VI  PIDL+T+  R++
Sbjct: 5   PDQLYTTLKNLLAQIKSHPSA------WPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLR 58

Query: 331 DGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTK 375
              Y +      DL  +  N   +N P S+  + A AL+K    K
Sbjct: 59  SRYYVTRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFK 103

>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 = 55.4 bits (134), Expect = 1e-09
 Identities = 15/60 (25%), Positives = 31/60 (51%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           V+  PID   + ++L++  Y     F AD++ ++ N + +   +S+  R A  L + F+ 
Sbjct: 43  VIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYF 102

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

 Score = 84.8 bits (210), Expect = 1e-19
 Identities = 29/100 (29%), Positives = 47/100 (47%)

Query: 483 SHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNE 542
           + IF +  S  + PDY + I+ P+D   +  +L    Y++L E   DF  + DN  KYN 
Sbjct: 31  ARIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNA 90

Query: 543 PDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAAVQEL 582
            D+  Y+ A+ L+          R + DS+    A+   L
Sbjct: 91  RDTVFYRAAVRLRDQGGVVLRQARREVDSIGLEEASGMHL 130

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

 Score = 74.0 bits (182), Expect = 5e-16
 Identities = 21/107 (19%), Positives = 42/107 (39%), Gaps = 6/107 (5%)

Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKY 334
                 + + +        +    +F    S K  P+Y D I  P+D  T+ +R++   Y
Sbjct: 15  TVLLRSVLDQLQ------DKDPARIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGY 68

Query: 335 ASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
            +L + E+D  L+  N   +N   +  Y+ A  L+        +  +
Sbjct: 69  KNLHEFEEDFDLIIDNCMKYNARDTVFYRAAVRLRDQGGVVLRQARR 115

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

 Score = 53.2 bits (128), Expect = 1e-08
 Identities = 14/60 (23%), Positives = 33/60 (55%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
            + +P+DF  ++++L+   Y +L +F+ D +L++ N   +  R++  +R A  L +    
Sbjct: 49  HIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNARDTVFYRAAVRLRDQGGV 108

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

 Score = 49.0 bits (117), Expect = 3e-07
 Identities = 16/91 (17%), Positives = 45/91 (49%), Gaps = 8/91 (8%)

Query: 88  TMQTRPKRKKIDP-SDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPI 146
           +M+      ++ P +  ++ + D +++            F +    ++ P Y + + +P+
Sbjct: 1   SMEQVAMELRLTPLTVLLRSVLDQLQDKDPAR------IFAQPVSLKEVPDYLDHIKHPM 54

Query: 147 DFIKIQQKLKTDEYDDLSDFQADIELLVVTN 177
           DF  ++++L+   Y +L +F+ D + L++ N
Sbjct: 55  DFATMRKRLEAQGYKNLHEFEEDFD-LIIDN 84

>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 = 83.1 bits (206), Expect = 3e-19
 Identities = 28/81 (34%), Positives = 45/81 (55%), Gaps = 1/81 (1%)

Query: 490 PSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYK 549
             + + PDYY++I+ P+DM  I  +L  N Y +  E + DF  MF N   YN+P   I  
Sbjct: 48  AVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVL 107

Query: 550 DALSLQRIVLQTKMHLREDED 570
            A +L+++ LQ K++    E+
Sbjct: 108 MAEALEKLFLQ-KINELPTEE 127

>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 = 77.7 bits (192), Expect = 2e-17
 Identities = 32/124 (25%), Positives = 51/124 (41%), Gaps = 8/124 (6%)

Query: 260 ETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQL--LPSKKRYPEYYDVID 317
           ET +       T   Q     +   +     A        FQ      K   P+YY +I 
Sbjct: 8   ETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFA------WPFQQPVDAVKLNLPDYYKIIK 61

Query: 318 VPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKM 377
            P+D+ TI +R+++  Y +  +  +D   M  N   +N+PG  I   A+AL+KL   K  
Sbjct: 62  TPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKIN 121

Query: 378 EIEQ 381
           E+  
Sbjct: 122 ELPT 125

>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 = 56.6 bits (137), Expect = 6e-10
 Identities = 24/149 (16%), Positives = 48/149 (32%), Gaps = 38/149 (25%)

Query: 87  PTMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIR--IPKKRQEPSYHEVVTN 144
           P   + P + K   +     +  V++   K   A    PF +     K   P Y++++  
Sbjct: 6   PPETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFAW---PFQQPVDAVKLNLPDYYKIIKT 62

Query: 145 PIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIE 204
           P+D       + T                          I+++L+ + Y +  +   D  
Sbjct: 63  PMD-------MGT--------------------------IKKRLENNYYWNAQECIQDFN 89

Query: 205 LLVKNAKTFYKRNSQEHRDAQELMELFHS 233
            +  N   + K        A+ L +LF  
Sbjct: 90  TMFTNCYIYNKPGDDIVLMAEALEKLFLQ 118

>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 = 82.0 bits (203), Expect = 6e-19
 Identities = 23/75 (30%), Positives = 37/75 (49%)

Query: 483 SHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNE 542
           +  F    +    P Y +VI+KP+D   I  KL   QY +L+    D   +FDN   +NE
Sbjct: 31  AWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNE 90

Query: 543 PDSHIYKDALSLQRI 557
            DS I +   ++++ 
Sbjct: 91  DDSDIGRAGHNMRKY 105

>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 = 77.3 bits (191), Expect = 2e-17
 Identities = 29/111 (26%), Positives = 46/111 (41%), Gaps = 6/111 (5%)

Query: 271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQ 330
              +   C  +   + T  DA        F L  + K  P Y  VI  P+D  TI  ++ 
Sbjct: 11  DSKDLALCSMILTEMETHEDA------WPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLS 64

Query: 331 DGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
            G+Y +L     D+ L+  N  TFNE  S I +    ++K  + K  +  +
Sbjct: 65  SGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKKWTDTFK 115

>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 = 58.1 bits (141), Expect = 1e-10
 Identities = 25/146 (17%), Positives = 51/146 (34%), Gaps = 38/146 (26%)

Query: 88  TMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPID 147
           +M  +  ++    S  +     ++   +  + A    PF+     +  P Y +V+  P+D
Sbjct: 1   SMSVKKPKRD--DSKDLALCSMILTEMETHEDAW---PFLLPVNLKLVPGYKKVIKKPMD 55

Query: 148 FIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 207
                    T                          I++KL + +Y +L  F  D+ L+ 
Sbjct: 56  -------FST--------------------------IREKLSSGQYPNLETFALDVRLVF 82

Query: 208 KNAKTFYKRNSQEHRDAQELMELFHS 233
            N +TF + +S   R    + + F  
Sbjct: 83  DNCETFNEDDSDIGRAGHNMRKYFEK 108

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

 Score = 82.0 bits (203), Expect = 6e-19
 Identities = 21/80 (26%), Positives = 39/80 (48%)

Query: 491 SRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKD 550
           +    P Y  +I+ P+D   +  K++ N Y+ ++E+  +F  M  NA  YN+P++  YK 
Sbjct: 34  TDFIAPGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKA 93

Query: 551 ALSLQRIVLQTKMHLREDED 570
           A  L    ++     R +  
Sbjct: 94  AKKLLHSGMKILSQERLEHH 113

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

 Score = 73.9 bits (182), Expect = 4e-16
 Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 2/78 (2%)

Query: 305 SKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKD 364
           +    P Y  +I  P+D  T+  +I++  Y S+ +++ +  LM  NA  +N+P +  YK 
Sbjct: 34  TDFIAPGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKA 93

Query: 365 AKALKKLVQT--KKMEIE 380
           AK L         +  +E
Sbjct: 94  AKKLLHSGMKILSQERLE 111

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

 Score = 55.0 bits (133), Expect = 2e-09
 Identities = 12/58 (20%), Positives = 35/58 (60%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
           ++ +P+DF  +++K+K ++Y  + + + + +L+  NA  + K  +  ++ A++L+   
Sbjct: 44  IIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKLLHSG 101

>3fkm_X Signaling protein; bromodomain, malaria, structural genomics, structural genomi consortium, SGC; 2.50A {Plasmodium falciparum 3D7} Length = 166

 Score = 83.4 bits (206), Expect = 8e-19
 Identities = 31/163 (19%), Positives = 55/163 (33%), Gaps = 17/163 (10%)

Query: 271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLL--PSKKRYPEYYDVIDVPIDLRTIARR 328
            +        L  ++             +F+ L    K+  P+YYDVI  P+    I  +
Sbjct: 19  NKQWYLLANQLILSLSKYEGG------HIFEKLVDAKKQNCPDYYDVIKNPMSFSCIKTK 72

Query: 329 IQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAG 388
           ++ G+YA   +  KD+ L+  N   +N   S +    K ++     + + +    F    
Sbjct: 73  LKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVAITGKNIETYFNNQLIVMGYNNFILKE 132

Query: 389 KSERIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQEDPNS 431
           K      K +                  E ED  E   E  N+
Sbjct: 133 KKINDMLKLVEEENI---------KWSKEKEDQIEEIDELENN 166

>3fkm_X Signaling protein; bromodomain, malaria, structural genomics, structural genomi consortium, SGC; 2.50A {Plasmodium falciparum 3D7} Length = 166

 Score = 81.4 bits (201), Expect = 4e-18
 Identities = 21/85 (24%), Positives = 40/85 (47%)

Query: 490 PSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYK 549
             + + PDYY+VI+ P+    I +KL+  QY +  E V D   +FDN   YN  +S +  
Sbjct: 48  AKKQNCPDYYDVIKNPMSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVAI 107

Query: 550 DALSLQRIVLQTKMHLREDEDSVPD 574
              +++       + +  +   + +
Sbjct: 108 TGKNIETYFNNQLIVMGYNNFILKE 132

>3fkm_X Signaling protein; bromodomain, malaria, structural genomics, structural genomi consortium, SGC; 2.50A {Plasmodium falciparum 3D7} Length = 166

 Score = 56.4 bits (136), Expect = 1e-09
 Identities = 21/107 (19%), Positives = 42/107 (39%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           V+ NP+ F  I+ KLK  +Y   S+F  D++L+  N   +   NS      + +   F++
Sbjct: 59  VIKNPMSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVAITGKNIETYFNN 118

Query: 234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCED 280
               +          +   M  ++  E            +E ++ E+
Sbjct: 119 QLIVMGYNNFILKEKKINDMLKLVEEENIKWSKEKEDQIEEIDELEN 165

>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 = 81.6 bits (202), Expect = 8e-19
 Identities = 24/78 (30%), Positives = 36/78 (46%)

Query: 483 SHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNE 542
           S  F         P+YY++I+ P+D+  +  KL    Y   +E V D   MF N  KYN 
Sbjct: 34  SWPFLEPVDESYAPNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNG 93

Query: 543 PDSHIYKDALSLQRIVLQ 560
             S   K + +L+R   +
Sbjct: 94  ESSEYTKMSDNLERCFHR 111

>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 = 78.5 bits (194), Expect = 8e-18
 Identities = 19/105 (18%), Positives = 42/105 (40%), Gaps = 6/105 (5%)

Query: 271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQ 330
            +D+      + + V    D+        F     +   P YY +I  P+D+ ++ +++ 
Sbjct: 14  LDDDFTAMYKVLDVVKAHKDS------WPFLEPVDESYAPNYYQIIKAPMDISSMEKKLN 67

Query: 331 DGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTK 375
            G Y +  +   D+  M +N   +N   S+  K +  L++     
Sbjct: 68  GGLYCTKEEFVNDMKTMFRNCRKYNGESSEYTKMSDNLERCFHRA 112

>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 = 54.6 bits (132), Expect = 2e-09
 Identities = 12/60 (20%), Positives = 29/60 (48%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           ++  P+D   +++KL    Y    +F  D++ + +N + +   +S+  + +  L   FH 
Sbjct: 52  IIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNGESSEYTKMSDNLERCFHR 111

>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 = 82.5 bits (204), Expect = 1e-18
 Identities = 26/89 (29%), Positives = 42/89 (47%), Gaps = 1/89 (1%)

Query: 490 PSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYK 549
             +   PDY+++I++P+DM  I  +L  N Y    E + DF  MF N   YN+P   I  
Sbjct: 59  AVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVL 118

Query: 550 DALSLQRIVLQTKMHLREDEDSVPDVPAA 578
            A +L++ +   K+     E+    V   
Sbjct: 119 MAQTLEK-IFLQKVASMPQEEQELVVTIP 146

>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 = 75.9 bits (187), Expect = 2e-16
 Identities = 29/142 (20%), Positives = 55/142 (38%), Gaps = 8/142 (5%)

Query: 258 ASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQL--LPSKKRYPEYYDV 315
            S   + +     T   Q   + +  A+     A        F+      K   P+Y+ +
Sbjct: 17  GSHMSNPKKPGRVTNQLQYLHKVVMKALWKHQFA------WPFRQPVDAVKLGLPDYHKI 70

Query: 316 IDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTK 375
           I  P+D+ TI RR+++  Y +  +  +D   M  N   +N+P   I   A+ L+K+   K
Sbjct: 71  IKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQK 130

Query: 376 KMEIEQGKFTPAGKSERIRSKR 397
              + Q +        +   K+
Sbjct: 131 VASMPQEEQELVVTIPKNSHKK 152

>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 = 54.4 bits (131), Expect = 6e-09
 Identities = 26/180 (14%), Positives = 53/180 (29%), Gaps = 40/180 (22%)

Query: 77  DDSSSHTSETPTMQ--TRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIR--IPKK 132
                 +   P     + PK+     +        V++   K   A    PF +     K
Sbjct: 5   HHHHHSSGLVPRGSHMSNPKKPGRVTNQLQYLHKVVMKALWKHQFAW---PFRQPVDAVK 61

Query: 133 RQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDE 192
              P YH+++  P+D       + T                          I+++L+ + 
Sbjct: 62  LGLPDYHKIIKQPMD-------MGT--------------------------IKRRLENNY 88

Query: 193 YDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEGTSQKRS 252
           Y   S+   D   +  N   + K        AQ L ++F      +   +     +  ++
Sbjct: 89  YWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQEEQELVVTIPKN 148

>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 = 83.0 bits (205), Expect = 1e-18
 Identities = 28/80 (35%), Positives = 45/80 (56%)

Query: 481 QLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKY 540
           +++  F      +D PDYY VI++P+D+  +  +++   YE L E VAD  ++FDN   Y
Sbjct: 88  KMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYY 147

Query: 541 NEPDSHIYKDALSLQRIVLQ 560
           N  DS  Y+ A  L+   +Q
Sbjct: 148 NPSDSPFYQCAEVLESFFVQ 167

>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 = 79.9 bits (197), Expect = 1e-17
 Identities = 29/150 (19%), Positives = 51/150 (34%), Gaps = 9/150 (6%)

Query: 231 FHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTD 290
           +H     +L     E       +     S  +     +  TE +    + +  ++     
Sbjct: 33  YHGRCVGILQS---EAELIDEYVCPQCQSTEDAMTVLTPLTEKDYEGLKRVLRSLQAHKM 89

Query: 291 ADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN 350
           A        F         P+YY VI  P+DL T+  R+Q   Y  L +   D+  +  N
Sbjct: 90  A------WPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDN 143

Query: 351 ACTFNEPGSQIYKDAKALKKLVQTKKMEIE 380
              +N   S  Y+ A+ L+     K    +
Sbjct: 144 CRYYNPSDSPFYQCAEVLESFFVQKLKGFK 173

>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 = 55.7 bits (134), Expect = 3e-09
 Identities = 13/60 (21%), Positives = 32/60 (53%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           V+  P+D   ++++++   Y+ L++F AD+  +  N + +   +S  ++ A+ L   F  
Sbjct: 108 VIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQ 167

>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 = 81.8 bits (202), Expect = 2e-18
 Identities = 26/99 (26%), Positives = 44/99 (44%)

Query: 483 SHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNE 542
           S  F    ++   PDYY+VI  P+D+E I   +  ++Y+  +  + D   +  N+ KYN 
Sbjct: 48  SWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNG 107

Query: 543 PDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAAVQE 581
           P+S   K A  +  +  QT     E    +       +E
Sbjct: 108 PESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTAKE 146

>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 = 73.3 bits (180), Expect = 2e-15
 Identities = 34/115 (29%), Positives = 53/115 (46%), Gaps = 9/115 (7%)

Query: 271 TEDEQNQCEDLFNAVMTS---TDADSRPLHEVFQLLP-SKKRYPEYYDVIDVPIDLRTIA 326
            +D+Q     + + ++T       DS P H      P +KK  P+YY VI  P+DL TI 
Sbjct: 23  MDDDQVAFSFILDNIVTQKMMAVPDSWPFHH-----PVNKKFVPDYYKVIVNPMDLETIR 77

Query: 327 RRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
           + I   KY S      D+ L+  N+  +N P SQ  K A+ +  +      E ++
Sbjct: 78  KNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDE 132

>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 = 52.1 bits (125), Expect = 4e-08
 Identities = 15/60 (25%), Positives = 31/60 (51%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           V+ NP+D   I++ +   +Y     F  D+ L++ N+  +    SQ  + AQE++ + + 
Sbjct: 66  VIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQ 125

>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 = 48.7 bits (116), Expect = 7e-07
 Identities = 20/103 (19%), Positives = 37/103 (35%), Gaps = 6/103 (5%)

Query: 77  DDSSSHTSETPTMQTRPKRKKIDPSDAMQQIYD--VIRNFKKEDGALLCDPFIRIPKKRQ 134
                 +      +    +   D   A   I D  V +       +    PF     K+ 
Sbjct: 3   HHHHHSSGVDLGTENLYFQSMDDDQVAFSFILDNIVTQKMMAVPDSW---PFHHPVNKKF 59

Query: 135 EPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTN 177
            P Y++V+ NP+D   I++ +   +Y     F  D+  L++ N
Sbjct: 60  VPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVN-LILAN 101

>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 = 80.4 bits (199), Expect = 2e-18
 Identities = 23/68 (33%), Positives = 35/68 (51%)

Query: 490 PSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYK 549
           P     PDY+++++ P+D+  I  KL   QY+   + V D   MF+NA  YN   S +YK
Sbjct: 39  PQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYK 98

Query: 550 DALSLQRI 557
               L  +
Sbjct: 99  FCSKLAEV 106

>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 = 72.3 bits (178), Expect = 1e-15
 Identities = 30/118 (25%), Positives = 52/118 (44%), Gaps = 5/118 (4%)

Query: 265 RDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHE-VFQLLPSKKRYPEYYDVIDVPIDLR 323
           R      E+ +        A+    D +S P  + V    P     P+Y+D++  P+DL 
Sbjct: 3   RKKIFKPEELRQALMPTLEALYRQ-DPESLPFRQPV---DPQLLGIPDYFDIVKNPMDLS 58

Query: 324 TIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
           TI R++  G+Y        D+ LM  NA  +N   S++YK    L ++ + +   + Q
Sbjct: 59  TIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQ 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 = 52.7 bits (127), Expect = 1e-08
 Identities = 17/58 (29%), Positives = 34/58 (58%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
           +V NP+D   I++KL T +Y +   +  D+ L+  NA  + ++ S+ ++   +L E+F
Sbjct: 50  IVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVF 107

>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 = 80.1 bits (198), Expect = 3e-18
 Identities = 32/111 (28%), Positives = 47/111 (42%), Gaps = 4/111 (3%)

Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRL--PSRHDYPDYYEVIRKPVDMEMIASKLRYN 518
           ++++     +KE    K     +  F +          DY ++I+ P+DM  I SKL   
Sbjct: 22  EQLKCCSGILKEMFAKK-HAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAR 80

Query: 519 QYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDE 569
           +Y    E  AD   MF N  KYN PD  +   A  LQ  V + +     DE
Sbjct: 81  EYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD-VFEMRFAKMPDE 130

>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 = 71.2 bits (175), Expect = 5e-15
 Identities = 16/72 (22%), Positives = 36/72 (50%)

Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
            +Y D+I  P+D+ TI  +++  +Y    +   D+ LM  N   +N P  ++   A+ L+
Sbjct: 58  HDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQ 117

Query: 370 KLVQTKKMEIEQ 381
            + + +  ++  
Sbjct: 118 DVFEMRFAKMPD 129

>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 = 55.4 bits (134), Expect = 2e-09
 Identities = 24/149 (16%), Positives = 52/149 (34%), Gaps = 35/149 (23%)

Query: 87  PTMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIR--IPKKRQEPSYHEVVTN 144
            + Q     K    S+ ++    +++    +  A    PF +    +      Y +++ +
Sbjct: 7   DSQQHPAPEKSSKVSEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKH 66

Query: 145 PIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIE 204
           P+D       + T                          I+ KL+  EY D  +F AD+ 
Sbjct: 67  PMD-------MST--------------------------IKSKLEAREYRDAQEFGADVR 93

Query: 205 LLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           L+  N   +   + +    A++L ++F  
Sbjct: 94  LMFSNCYKYNPPDHEVVAMARKLQDVFEM 122

>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 = 79.6 bits (197), Expect = 4e-18
 Identities = 25/68 (36%), Positives = 32/68 (47%)

Query: 490 PSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYK 549
                  DY ++I+ P+DM  I SKL   +Y    E  AD   MF N  KYN PD  +  
Sbjct: 39  VEALGLHDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVA 98

Query: 550 DALSLQRI 557
            A  LQ +
Sbjct: 99  MARKLQDV 106

>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 = 71.2 bits (175), Expect = 3e-15
 Identities = 16/72 (22%), Positives = 36/72 (50%)

Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
            +Y D+I  P+D+ TI  +++  +Y    +   D+ LM  N   +N P  ++   A+ L+
Sbjct: 45  HDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQ 104

Query: 370 KLVQTKKMEIEQ 381
            + + +  ++  
Sbjct: 105 DVFEMRFAKMPD 116

>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 = 53.1 bits (128), Expect = 9e-09
 Identities = 16/60 (26%), Positives = 33/60 (55%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           ++ +P+D   I+ KL++ EY D  +F AD+ L+  N   +   + +    A++L ++F  
Sbjct: 50  IIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEM 109

>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 = 51.1 bits (123), Expect = 4e-08
 Identities = 19/81 (23%), Positives = 38/81 (46%), Gaps = 4/81 (4%)

Query: 94  KRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIR--IPKKRQEPSYHEVVTNPIDFIKI 151
              KI  S+ ++    +++    +  A    PF +    +      Y +++ +P+D   I
Sbjct: 3   MGSKI--SEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTI 60

Query: 152 QQKLKTDEYDDLSDFQADIEL 172
           + KL++ EY D  +F AD+ L
Sbjct: 61  KSKLESREYRDAQEFGADVRL 81

>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 = 79.3 bits (196), Expect = 5e-18
 Identities = 29/112 (25%), Positives = 49/112 (43%), Gaps = 15/112 (13%)

Query: 470 IKETCEPKTG---RQLSHIFQRLPSRHDY------------PDYYEVIRKPVDMEMIASK 514
           +K + E ++    + L H  ++L  +  +            P Y  +I+ P+D   +  K
Sbjct: 3   LKLSAENESTPIQQLLEHFLRQLQRKDPHGFFAFPVTDAIAPGYSMIIKHPMDFGTMKDK 62

Query: 515 LRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLR 566
           +  N+Y+ + E  ADF  M DNA  YN PD+  YK A  +     +     R
Sbjct: 63  IVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKILHAGFKMMSKER 114

>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 = 74.3 bits (183), Expect = 4e-16
 Identities = 27/114 (23%), Positives = 48/114 (42%), Gaps = 13/114 (11%)

Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLP-SKKRYPEYYDVIDVPIDLRTIARRIQDGK 333
           Q   E     +        +  H  F   P +    P Y  +I  P+D  T+  +I   +
Sbjct: 15  QQLLEHFLRQLQ------RKDPHGFF-AFPVTDAIAPGYSMIIKHPMDFGTMKDKIVANE 67

Query: 334 YASLGDMEKDLILMTKNACTFNEPGSQIYKDAKAL-----KKLVQTKKMEIEQG 382
           Y S+ + + D  LM  NA T+N P +  YK AK +     K + + + + +++ 
Sbjct: 68  YKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKILHAGFKMMSKERLLALKRS 121

>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 = 55.1 bits (133), Expect = 2e-09
 Identities = 14/58 (24%), Positives = 38/58 (65%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
           ++ +P+DF  ++ K+  +EY  +++F+AD +L+  NA T+ + ++  ++ A++++   
Sbjct: 49  IIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKILHAG 106

>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 = 77.8 bits (192), Expect = 2e-17
 Identities = 32/119 (26%), Positives = 53/119 (44%), Gaps = 7/119 (5%)

Query: 264 SRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLR 323
           S  ++    + + QC++L N +    D+      E F+       YP+Y D+ID P+D  
Sbjct: 1   SMATNYVESNWKKQCKELVNLIFQCEDS------EPFRQPVDLVEYPDYRDIIDTPMDFG 54

Query: 324 TIARRIQDGKYASLGDMEKDLILMTKNACTFNE-PGSQIYKDAKALKKLVQTKKMEIEQ 381
           T+   +  G Y S  +  KD+ L+  NA  +     S+IY     L  L + K  +I  
Sbjct: 55  TVRETLDAGNYDSPLEFCKDIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEEKMKKISS 113

>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 = 74.3 bits (183), Expect = 3e-16
 Identities = 20/65 (30%), Positives = 28/65 (43%), Gaps = 1/65 (1%)

Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNE-PDSHIYKDAL 552
           +YPDY ++I  P+D   +   L    Y+   E   D   +F NA  Y     S IY   L
Sbjct: 39  EYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAKAYTPNKRSKIYSMTL 98

Query: 553 SLQRI 557
            L  +
Sbjct: 99  RLSAL 103

>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 = 49.3 bits (118), Expect = 2e-07
 Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTF-YKRNSQEHRDAQELMELFH 232
           ++  P+DF  +++ L    YD   +F  DI L+  NAK +   + S+ +     L  LF 
Sbjct: 46  IIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAKAYTPNKRSKIYSMTLRLSALFE 105

Query: 233 S 233
            
Sbjct: 106 E 106

>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 = 45.8 bits (109), Expect = 3e-06
 Identities = 12/37 (32%), Positives = 20/37 (54%)

Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIEL 172
           P Y +++  P+DF  +++ L    YD   +F  DI L
Sbjct: 41  PDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRL 77

>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural genomics, NPPSFA; 2.50A {Homo sapiens} Length = 135

 Score = 77.4 bits (191), Expect = 3e-17
 Identities = 30/119 (25%), Positives = 49/119 (41%), Gaps = 9/119 (7%)

Query: 271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQ 330
           T  ++ +CE L   +     +        F   P     P+YY +I  P+DL TI +R+Q
Sbjct: 18  TPIDKRKCERLLLFLYCHEMS------LAF-QDPVPLTVPDYYKIIKNPMDLSTIKKRLQ 70

Query: 331 D--GKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPA 387
           +    Y+   D   D  L+ +N   FNEP S++      L+   +     +   K  P 
Sbjct: 71  EDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNLYPEKRFPK 129

>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural genomics, NPPSFA; 2.50A {Homo sapiens} Length = 135

 Score = 76.6 bits (189), Expect = 6e-17
 Identities = 29/97 (29%), Positives = 49/97 (50%), Gaps = 4/97 (4%)

Query: 481 QLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLR--YNQYEHLDEMVADFIQMFDNAC 538
           ++S  FQ  P     PDYY++I+ P+D+  I  +L+  Y+ Y   ++ VADF  +F N  
Sbjct: 36  EMSLAFQD-PVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCA 94

Query: 539 KYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDV 575
           ++NEPDS +    + L+    +  +     E   P  
Sbjct: 95  EFNEPDSEVANAGIKLEN-YFEELLKNLYPEKRFPKS 130

>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural genomics, NPPSFA; 2.50A {Homo sapiens} Length = 135

 Score = 53.5 bits (129), Expect = 9e-09
 Identities = 23/150 (15%), Positives = 49/150 (32%), Gaps = 35/150 (23%)

Query: 84  SETPTMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVT 143
           S   + + + +          ++   ++      + +L    F + P     P Y++++ 
Sbjct: 2   SSGSSGKKKTEGLVKLTPIDKRKCERLLLFLYCHEMSL---AF-QDPVPLTVPDYYKIIK 57

Query: 144 NPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADI 203
           NP+D   I+++L+ D                                  Y    DF AD 
Sbjct: 58  NPMDLSTIKKRLQEDYS-------------------------------MYSKPEDFVADF 86

Query: 204 ELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
            L+ +N   F + +S+      +L   F  
Sbjct: 87  RLIFQNCAEFNEPDSEVANAGIKLENYFEE 116

>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 = 77.3 bits (190), Expect = 1e-16
 Identities = 24/70 (34%), Positives = 40/70 (57%), Gaps = 2/70 (2%)

Query: 490 PSRHDYPDYYEVIRKPVDMEMIASKLR--YNQYEHLDEMVADFIQMFDNACKYNEPDSHI 547
           P     PDYY++I+ P+D+  I  +L+  Y+ Y   ++ VADF  +F N  ++NEPDS +
Sbjct: 105 PVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEV 164

Query: 548 YKDALSLQRI 557
               + L+  
Sbjct: 165 ANAGIKLENY 174

>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 = 71.5 bits (175), Expect = 1e-14
 Identities = 30/141 (21%), Positives = 53/141 (37%), Gaps = 9/141 (6%)

Query: 241 PQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVF 300
               +   +         SE + +      T  ++ +CE L   +       S    +  
Sbjct: 49  RDLSKPEVEYDCDAPSHNSEKKKTEGLVKLTPIDKRKCERLLLFLYCH--EMSLAFQD-- 104

Query: 301 QLLPSKKRYPEYYDVIDVPIDLRTIARRIQD--GKYASLGDMEKDLILMTKNACTFNEPG 358
              P     P+YY +I  P+DL TI +R+Q+    Y+   D   D  L+ +N   FNEP 
Sbjct: 105 ---PVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPD 161

Query: 359 SQIYKDAKALKKLVQTKKMEI 379
           S++      L+   +     +
Sbjct: 162 SEVANAGIKLENYFEELLKNL 182

>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 = 59.6 bits (144), Expect = 1e-10
 Identities = 24/185 (12%), Positives = 54/185 (29%), Gaps = 36/185 (19%)

Query: 49  DCATLPPKRFIMGKRRRASSLTRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQQIY 108
            C  +P            +        + +         + + + +          ++  
Sbjct: 29  SCH-VPTLTNFPSGEWICTFCRDLSKPEVEYDCDAPSHNSEKKKTEGLVKLTPIDKRKCE 87

Query: 109 DVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQA 168
            ++      + +L    F + P     P Y++++ NP+D   I+++L+ D          
Sbjct: 88  RLLLFLYCHEMSL---AF-QDPVPLTVPDYYKIIKNPMDLSTIKKRLQEDYS-------- 135

Query: 169 DIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELM 228
                                   Y    DF AD  L+ +N   F + +S+      +L 
Sbjct: 136 -----------------------MYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLE 172

Query: 229 ELFHS 233
             F  
Sbjct: 173 NYFEE 177

>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 = 74.0 bits (182), Expect = 6e-16
 Identities = 31/134 (23%), Positives = 57/134 (42%), Gaps = 8/134 (5%)

Query: 260 ETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVP 319
               +R  S   +  + QCE+L N +    D+      E F+       YP+Y D+ID P
Sbjct: 8   RRLRNRAQSYDIQAWKKQCEELLNLIFQCEDS------EPFRQPVDLLEYPDYRDIIDTP 61

Query: 320 IDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEP-GSQIYKDAKALKKLVQTKKME 378
           +D  T+   ++ G Y S  ++ KD+ L+  N+  +     S+IY  +  L    +     
Sbjct: 62  MDFATVRETLEAGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEEHISS 121

Query: 379 IEQGKFTPAGKSER 392
           +    +  A +  +
Sbjct: 122 VLS-DYKSALRFHK 134

>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 = 73.2 bits (180), Expect = 1e-15
 Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 1/65 (1%)

Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPD-SHIYKDAL 552
           +YPDY ++I  P+D   +   L    YE   E+  D   +F N+  Y     S IY  +L
Sbjct: 50  EYPDYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSL 109

Query: 553 SLQRI 557
            L   
Sbjct: 110 RLSAF 114

>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 = 52.8 bits (127), Expect = 1e-08
 Identities = 15/86 (17%), Positives = 38/86 (44%), Gaps = 3/86 (3%)

Query: 87  PTMQTRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPI 146
           P  + R + +  D     +Q  +++    + + +    PF +     + P Y +++  P+
Sbjct: 6   PRRRLRNRAQSYDIQAWKKQCEELLNLIFQCEDSE---PFRQPVDLLEYPDYRDIIDTPM 62

Query: 147 DFIKIQQKLKTDEYDDLSDFQADIEL 172
           DF  +++ L+   Y+   +   D+ L
Sbjct: 63  DFATVRETLEAGNYESPMELCKDVRL 88

>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 131

 Score = 71.3 bits (175), Expect = 4e-15
 Identities = 22/110 (20%), Positives = 43/110 (39%), Gaps = 8/110 (7%)

Query: 480 RQLSHIFQRLPSRHDY-------PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQ 532
             L  + +RL +   +        DY EVI++P+D+  + +K+  + Y    + + D   
Sbjct: 15  LFLRDVTKRLATDKRFNIFSKPVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDL 74

Query: 533 MFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSVPDVPAAVQEL 582
           +  NA +YN       K         L+   H     +  P+     +E+
Sbjct: 75  ICSNALEYNPDKDPGDKIIRHRAC-TLKDTAHAIIAAELDPEFNKLCEEI 123

>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 131

 Score = 67.5 bits (165), Expect = 1e-13
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 9/115 (7%)

Query: 296 LHEVFQLLPSKKRY-------PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMT 348
           L +V + L + KR+        +Y +VI  P+DL T+  +I    Y +  D  KD+ L+ 
Sbjct: 17  LRDVTKRLATDKRFNIFSKPVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLIC 76

Query: 349 KNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTP--AGKSERIRSKRIRGG 401
            NA  +N       K  +     ++     I   +  P      E I+      G
Sbjct: 77  SNALEYNPDKDPGDKIIRHRACTLKDTAHAIIAAELDPEFNKLCEEIKESGPSSG 131

>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 131

 Score = 54.8 bits (132), Expect = 3e-09
 Identities = 13/72 (18%), Positives = 26/72 (36%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           V+  P+D   +  K+    Y    DF  DI+L+  NA  +        +  +        
Sbjct: 43  VIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKIIRHRACTLKD 102

Query: 234 TRNKLLNPQSHE 245
           T + ++  +   
Sbjct: 103 TAHAIIAAELDP 114

>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 131

 Score = 46.7 bits (111), Expect = 2e-06
 Identities = 13/42 (30%), Positives = 20/42 (47%), Gaps = 1/42 (2%)

Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTN 177
             Y EV+  P+D   +  K+    Y    DF  DI+ L+ +N
Sbjct: 38  SDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDID-LICSN 78

>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 = 69.0 bits (169), Expect = 3e-14
 Identities = 17/79 (21%), Positives = 36/79 (45%)

Query: 491 SRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKD 550
              + PDY  VI++P+D+  + SK+  ++Y  + + + D   +  NA +YN       + 
Sbjct: 36  DPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYNPDRDPGDRL 95

Query: 551 ALSLQRIVLQTKMHLREDE 569
                  +  T   + ++E
Sbjct: 96  IRHRACALRDTAYAIIKEE 114

>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 = 64.0 bits (156), Expect = 2e-12
 Identities = 20/75 (26%), Positives = 32/75 (42%), Gaps = 4/75 (5%)

Query: 305 SKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGS----Q 360
                P+Y  VI  P+DL ++  +I   KY ++ D  +D+ L+  NA  +N         
Sbjct: 36  DPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYNPDRDPGDRL 95

Query: 361 IYKDAKALKKLVQTK 375
           I   A AL+      
Sbjct: 96  IRHRACALRDTAYAI 110

>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 = 51.3 bits (123), Expect = 4e-08
 Identities = 14/72 (19%), Positives = 28/72 (38%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           V+  P+D   +  K+   +Y  + D+  DI+L+  NA  +        R  +        
Sbjct: 46  VIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYNPDRDPGDRLIRHRACALRD 105

Query: 234 TRNKLLNPQSHE 245
           T   ++  +  E
Sbjct: 106 TAYAIIKEELDE 117

>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 = 47.8 bits (114), Expect = 8e-07
 Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 1/46 (2%)

Query: 132 KRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTN 177
             + P Y  V+  P+D   +  K+   +Y  + D+  DI+ L+ +N
Sbjct: 37  PDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDID-LICSN 81

>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 = 70.3 bits (171), Expect = 1e-12
 Identities = 76/594 (12%), Positives = 159/594 (26%), Gaps = 187/594 (31%)

Query: 146 IDFIKIQQKLKTDEYDD-LSDFQAD-IELLVVTNPIDFIKIQQKLKTDEYDD-------- 195
           +DF   + + +   Y D LS F+   ++     +  D  K    L  +E D         
Sbjct: 7   MDFETGEHQYQ---YKDILSVFEDAFVDNFDCKDVQDMPK--SILSKEEIDHIIMSKDAV 61

Query: 196 ---------LSDFQADI------ELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLN 240
                    L   Q ++      E+L  N K        E R    +  ++   R++L N
Sbjct: 62  SGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN 121

Query: 241 -PQS---------------HEGTSQKRSMDF-----M-------MASETEDSRDSSI--- 269
             Q                 +   + R         +       +A +        +   
Sbjct: 122 DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDV--CLSYKVQCK 179

Query: 270 ------------CTEDE------QNQCEDL---FNAVMTSTDADSRPLHEV---FQLLPS 305
                       C   E      Q     +   + +    +      +H +    + L  
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239

Query: 306 KKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDA 365
            K Y     V+    +       +Q+ K  +  ++   ++L T+     +   +      
Sbjct: 240 SKPYENCLLVLL---N-------VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTH- 288

Query: 366 KALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALE-SEDDESEDDEEI 424
                      ++      TP               +  S +   L+    D   +    
Sbjct: 289 ---------ISLDHHSMTLTPD--------------EVKSLLLKYLDCRPQDLPREVLTT 325

Query: 425 DQEDPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSH 484
                 +P       +       +I       A S++     ++  K     K    +  
Sbjct: 326 ------NPR-----RL------SII-------AESIRDGLATWDNWKHVNCDKLTTIIES 361

Query: 485 IFQRLPSRHDYPDYYE---VIRKPVDMEMIASKL-----RYNQYEHLDEMVADFIQMFDN 536
               L    +Y   ++   V         I + L            +  +V    +    
Sbjct: 362 SLNVLEP-AEYRKMFDRLSVFPPSAH---IPTILLSLIWFDVIKSDVMVVVNKLHKYSLV 417

Query: 537 ACKYNEPDSHIYKDALSLQR-IVLQTKMHLR-EDEDSVPDVPAAVQELLTSLFTSVYNHQ 594
             +  E    I    L L+  +  +  +H    D  ++P    +   +   L    Y+H 
Sbjct: 418 EKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSH- 476

Query: 595 KQCLGSFHVLNVDN---KPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKI 645
              +G  H+ N+++     L R ++      +D+R          F+E    KI
Sbjct: 477 ---IG-HHLKNIEHPERMTLFRMVF------LDFR----------FLE---QKI 507

>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 = 61.0 bits (147), Expect = 8e-10
 Identities = 45/315 (14%), Positives = 94/315 (29%), Gaps = 71/315 (22%)

Query: 109 DVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVV-TNPI----------DFIKIQQKLKT 157
                   ++   L   ++    +   P   EV+ TNP           D +      K 
Sbjct: 293 HHSMTLTPDEVKSLLLKYLDCRPQ-DLP--REVLTTNPRRLSIIAESIRDGLATWDNWKH 349

Query: 158 DEYDDLSD-FQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKR 216
              D L+   ++ + +L    P ++    +K+    +D LS F     +        +  
Sbjct: 350 VNCDKLTTIIESSLNVL---EPAEY----RKM----FDRLSVFPPSAHIPTILLSLIWFD 398

Query: 217 NSQEHRDAQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRD---------- 266
             +   D   ++   H  +  L+  Q  E T    S+   +  + E+             
Sbjct: 399 VIKS--DVMVVVNKLH--KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYN 454

Query: 267 --SSICTEDEQNQCED----------LFNAVMTSTDADSRPLHEVFQLLPSKKRYPEY-- 312
              +  ++D      D          L N          R +   F+ L  K R+     
Sbjct: 455 IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAW 514

Query: 313 ---YDVIDVPIDLRTIARRI--QDGKY-ASLGDMEKDL------ILMTKNAC----TFNE 356
                +++    L+     I   D KY   +  +   L      ++ +K           
Sbjct: 515 NASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMA 574

Query: 357 PGSQIYKDA-KALKK 370
               I+++A K +++
Sbjct: 575 EDEAIFEEAHKQVQR 589

>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 = 63.8 bits (154), Expect = 9e-12
 Identities = 24/103 (23%), Positives = 44/103 (42%), Gaps = 4/103 (3%)

Query: 457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLR 516
             +     +     +         +LS  FQ  P     P+YY++I+KP+D+  +  KL+
Sbjct: 73  KTAQGLSPVDQRKCERLLLYLYCHELSIEFQE-PVPASIPNYYKIIKKPMDLSTVKKKLQ 131

Query: 517 ---YNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
                 Y+  D+ VAD   +F N  ++NE    +   A + + 
Sbjct: 132 KKHSQHYQIPDDFVADVRLIFKNCERFNEMMKVVQVYADTQEI 174

>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 = 57.2 bits (137), Expect = 2e-09
 Identities = 22/83 (26%), Positives = 35/83 (42%), Gaps = 3/83 (3%)

Query: 304 PSKKRYPEYYDVIDVPIDLRTIARRIQ---DGKYASLGDMEKDLILMTKNACTFNEPGSQ 360
           P     P YY +I  P+DL T+ +++Q      Y    D   D+ L+ KN   FNE    
Sbjct: 105 PVPASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKNCERFNEMMKV 164

Query: 361 IYKDAKALKKLVQTKKMEIEQGK 383
           +   A   +  ++      + GK
Sbjct: 165 VQVYADTQEINLKADSEVAQAGK 187

>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 = 43.7 bits (102), Expect = 5e-05
 Identities = 27/188 (14%), Positives = 46/188 (24%), Gaps = 35/188 (18%)

Query: 50  CATLPPKR----FIMGKRRRASSLTRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQ 105
           C   P        +       S         D                K+ K     +  
Sbjct: 22  CEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIGKPEVEYDCDNLQHSKKGKTAQGLSPV 81

Query: 106 QIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSD 165
                 R         L   F   P     P+Y++++  P+D   +++KL+         
Sbjct: 82  DQRKCERLLLYLYCHELSIEFQE-PVPASIPNYYKIIKKPMDLSTVKKKLQ--------- 131

Query: 166 FQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQ 225
                                K  +  Y    DF AD+ L+ KN + F +        A 
Sbjct: 132 ---------------------KKHSQHYQIPDDFVADVRLIFKNCERFNEMMKVVQVYAD 170

Query: 226 ELMELFHS 233
                  +
Sbjct: 171 TQEINLKA 178

>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 = 58.7 bits (141), Expect = 4e-10
 Identities = 15/80 (18%), Positives = 27/80 (33%), Gaps = 6/80 (7%)

Query: 481 QLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKL---RYNQYEHLDEMVADFIQMFDNA 537
           +      +L    D     +     +D+ +I ++L       Y    E   D  +MF   
Sbjct: 92  EPCRPLHQLA--TDSTFSLDQPGGTLDLTLIRARLQEKLSPPYSSPQEFAQDVGRMFKQF 149

Query: 538 CKYNEPDSHIYKDALSLQRI 557
            K  E  +   +  + LQR 
Sbjct: 150 NKLTEDKA-DVQSIIGLQRF 168

>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 = 47.2 bits (111), Expect = 3e-06
 Identities = 17/88 (19%), Positives = 30/88 (34%), Gaps = 4/88 (4%)

Query: 307 KRYPEYYDVIDVPIDLRTIARRIQD---GKYASLGDMEKDLILMTKNACTFNEPGSQIYK 363
                  D     +DL  I  R+Q+     Y+S  +  +D+  M K      E  +   +
Sbjct: 102 TDSTFSLDQPGGTLDLTLIRARLQEKLSPPYSSPQEFAQDVGRMFKQFNKLTEDKA-DVQ 160

Query: 364 DAKALKKLVQTKKMEIEQGKFTPAGKSE 391
               L++  +T+  E        A   E
Sbjct: 161 SIIGLQRFFETRMNEAFGDTKFSAVLVE 188

>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 = 42.5 bits (99), Expect = 1e-04
 Identities = 10/68 (14%), Positives = 24/68 (35%), Gaps = 4/68 (5%)

Query: 175 VTNPIDFIKIQQKLK---TDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
               +D   I+ +L+   +  Y    +F  D+  + K      +  + + +    L   F
Sbjct: 111 PGGTLDLTLIRARLQEKLSPPYSSPQEFAQDVGRMFKQFNKLTEDKA-DVQSIIGLQRFF 169

Query: 232 HSTRNKLL 239
            +  N+  
Sbjct: 170 ETRMNEAF 177

>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 = 57.7 bits (138), Expect = 9e-10
 Identities = 17/110 (15%), Positives = 38/110 (34%), Gaps = 3/110 (2%)

Query: 269 ICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARR 328
            C    +    +   A+        + +        +      Y      P+DL  + R+
Sbjct: 56  TCVNCTERHPAEWRLALEKELQISLKQVLTALLNSRTTSHLLRYRQ--QQPLDLEGVKRK 113

Query: 329 IQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKME 378
           +  G Y S+ +   D++ + + A   +    +I K    +K     ++ME
Sbjct: 114 MDQGNYTSVLEFSDDIVKIIQAAINSDGGQPEIKKANSMVKSFFI-RQME 162

>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 = 53.1 bits (126), Expect = 3e-08
 Identities = 13/91 (14%), Positives = 30/91 (32%), Gaps = 1/91 (1%)

Query: 467 YNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRK-PVDMEMIASKLRYNQYEHLDE 525
               +   E +    L  +   L +           ++ P+D+E +  K+    Y  + E
Sbjct: 65  PAEWRLALEKELQISLKQVLTALLNSRTTSHLLRYRQQQPLDLEGVKRKMDQGNYTSVLE 124

Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
              D +++   A   +     I K    ++ 
Sbjct: 125 FSDDIVKIIQAAINSDGGQPEIKKANSMVKS 155

>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 = 47.7 bits (112), Expect = 2e-06
 Identities = 9/59 (15%), Positives = 22/59 (37%)

Query: 173 LVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
                P+D   +++K+    Y  + +F  DI  +++ A        +  +    +   F
Sbjct: 99  YRQQQPLDLEGVKRKMDQGNYTSVLEFSDDIVKIIQAAINSDGGQPEIKKANSMVKSFF 157

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	653
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	100.0
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	100.0
2r10_A	361	Chromatin structure-remodeling complex protein RSC	100.0
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	100.0
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	100.0
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	100.0
2r10_A	361	Chromatin structure-remodeling complex protein RSC	100.0
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	100.0
2dat_A	123	Possible global transcription activator SNF2L2; br	99.94
3iu5_A	116	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.94
3mb4_A	124	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.94
3iu5_A	116	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.93
3ljw_A	120	Protein polybromo-1; alpha helix, alternative spli	99.93
3mb4_A	124	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.93
2dat_A	123	Possible global transcription activator SNF2L2; br	99.93
3k2j_A	130	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.93
3mqm_A	126	Probable histone-lysine N-methyltransferase ASH1L;	99.93
3ljw_A	120	Protein polybromo-1; alpha helix, alternative spli	99.92
3mqm_A	126	Probable histone-lysine N-methyltransferase ASH1L;	99.92
2grc_A	129	Probable global transcription activator SNF2L4; br	99.92
3k2j_A	130	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.92
2grc_A	129	Probable global transcription activator SNF2L4; br	99.92
3g0l_A	117	Hwalp4, bromodomain adjacent to zinc finger domain	99.91
3tlp_A	150	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.91
3g0l_A	117	Hwalp4, bromodomain adjacent to zinc finger domain	99.91
3d7c_A	112	General control of amino acid synthesis protein 5;	99.9
3tlp_A	150	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.9
2ouo_A	130	HUNK1 protein, bromodomain-containing protein 4; B	99.9
3jvl_A	120	Bromodomain-containing protein 4; alpha helical, N	99.9
2ouo_A	130	HUNK1 protein, bromodomain-containing protein 4; B	99.9
3d7c_A	112	General control of amino acid synthesis protein 5;	99.9
2oss_A	127	HUNK1 protein, bromodomain-containing protein 4; B	99.9
1e6i_A	121	Transcriptional activator GCN5; gene regulation, b	99.9
3iu6_A	147	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.89
2oss_A	127	HUNK1 protein, bromodomain-containing protein 4; B	99.89
1e6i_A	121	Transcriptional activator GCN5; gene regulation, b	99.89
2d9e_A	121	Peregrin; four-helix bundle, transcription activat	99.89
4alg_A	154	Bromodomain-containing protein 2; signaling protei	99.89
3nxb_A	116	CAT eye syndrome critical region protein 2; struct	99.89
3nxb_A	116	CAT eye syndrome critical region protein 2; struct	99.89
3q2e_A	123	Bromodomain and WD repeat-containing protein 1; st	99.89
2d9e_A	121	Peregrin; four-helix bundle, transcription activat	99.89
3mb3_A	135	PH-interacting protein; PHIP, pleckstrin homology	99.89
2i7k_A	117	Bromodomain-containing protein 7; helix, LEFT-hand	99.89
2i7k_A	117	Bromodomain-containing protein 7; helix, LEFT-hand	99.88
4alg_A	154	Bromodomain-containing protein 2; signaling protei	99.88
3mb3_A	135	PH-interacting protein; PHIP, pleckstrin homology	99.88
3q2e_A	123	Bromodomain and WD repeat-containing protein 1; st	99.88
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	99.88
3p1f_A	119	CREB-binding protein; structural genomics consorti	99.88
3jvl_A	120	Bromodomain-containing protein 4; alpha helical, N	99.88
2yyn_A	135	Transcription intermediary factor 1-alpha; bromo d	99.88
3uv4_A	158	Second bromodomain of human transcription initiat	99.88
3hme_A	123	Bromodomain-containing protein 9; BRD9, bromodomai	99.88
3hme_A	123	Bromodomain-containing protein 9; BRD9, bromodomai	99.87
3p1f_A	119	CREB-binding protein; structural genomics consorti	99.87
3rcw_A	135	Bromodomain-containing protein 1; transcription, s	99.87
3rcw_A	135	Bromodomain-containing protein 1; transcription, s	99.87
3fkm_X	166	Signaling protein; bromodomain, malaria, structura	99.87
3uv4_A	158	Second bromodomain of human transcription initiat	99.86
2yyn_A	135	Transcription intermediary factor 1-alpha; bromo d	99.86
3iu6_A	147	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.86
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	99.86
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	99.85
3fkm_X	166	Signaling protein; bromodomain, malaria, structura	99.85
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	99.85
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	99.84
3dai_A	130	ATPase family AAA domain-containing protein 2; anc	99.84
3dai_A	130	ATPase family AAA domain-containing protein 2; anc	99.83
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	99.83
2dkw_A	131	Hypothetical protein KIAA1240; bromodomain-like, f	99.81
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	99.81
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	99.8
2dkw_A	131	Hypothetical protein KIAA1240; bromodomain-like, f	99.79
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	99.26
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	99.22

>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=100.00  E-value=3e-45  Score=383.22  Aligned_cols=265  Identities=22%  Similarity=0.349  Sum_probs=193.5

Q ss_pred             CCCCCCccccccc-cCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCChHHHH----HHHHHHHHhhhhhcCCccc
Q psy15468         49 DCATLPPKRFIMG-KRRRASSLTRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAM----QQIYDVIRNFKKEDGALLC  123 (653)
Q Consensus        49 ~~~~~~~~~~~~~-krr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~l~~~i~~~k~~~~~~~~  123 (653)
                      +..+..||..+.+ ||||.++.++     +|....      +.+..+||+.+|...+    ..|++.|.++      ..+
T Consensus         3 ~~~~~~~k~~~~~kk~rr~~~~~~-----~d~~~~------~~~~~~rr~~~p~~~l~~~~~~il~~l~~~------~~a   65 (292)
T 3aad_A            3 HMVLKFPKQQLPPKKKRRVGTTVH-----CDYLNR------PHKSIHRRRTDPMVTLSSILESIINDMRDL------PNT   65 (292)
T ss_dssp             -------------CCCCCSSCSCC-----CCC------------------CCHHHHHHHHHHHHHHHHSSS------TTC
T ss_pred             ceEEecchhhcCccccCCCCCCCC-----CccccC------CcccccccccChHHHHHHHHHHHHHHHHhC------Ccc
Confidence            3455668887655 5556555543     333311      2345677888886544    5555555544      349


Q ss_pred             cccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchHHHHhhhcccCcCCCHHHHHHHH
Q psy15468        124 DPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADI  203 (653)
Q Consensus       124 ~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~~~~~~~~~~~~Y~~~~~f~~D~  203 (653)
                      +||+.||+...+||||+||++||||+||++||+++.                                 |.++.+|.+|+
T Consensus        66 ~~F~~pV~~~~~pdY~~iIk~PmDL~tIk~kl~~~~---------------------------------Y~s~~~f~~D~  112 (292)
T 3aad_A           66 YPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRL---------------------------------YPSREEFREHL  112 (292)
T ss_dssp             GGGSSSCCTTTSTTHHHHCSSCCCHHHHHHHHHTTC---------------------------------CSSHHHHHHHH
T ss_pred             hhhcCCCCchhcccHHHHcCCcCCHHHHHHHhhCCC---------------------------------cCCHHHHHHHH
Confidence            999999999999999999999999999999999999                                 99999999999


Q ss_pred             HHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccCCCCCCCccccccccccCCCcccCCCCCCCCChHHHHHHHHHHH
Q psy15468        204 ELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFN  283 (653)
Q Consensus       204 ~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~ss~~~~~~~~~~~~ll~  283 (653)
                      +|||+||..||+++|.++.+|..|.+.|.+.+.++...    .....+.+.+..+             +++...|..+++
T Consensus       113 ~li~~Na~~yN~~~s~i~~~A~~L~~~~~~~~~~~~~~----~~~~e~~i~Pl~d-------------d~~~~~~~~~l~  175 (292)
T 3aad_A          113 ELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDK----LARLEKAINPLLD-------------DDDQVAFSFILD  175 (292)
T ss_dssp             HHHHHHHHHHTCSSSHHHHHHTHHHHTTTTTGGGSHHH----HHHHHHTTSSSTT-------------CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCchHHHHHHHHHHHHHHhhhhcchhh----hhhhhhccccccc-------------cchhHHHHHHHH
Confidence            99999999999999999999999999988877654110    0000011111111             122345666677


Q ss_pred             HHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhhCCCCCHHHH
Q psy15468        284 AVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYK  363 (653)
Q Consensus       284 ~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~yN~~~S~i~~  363 (653)
                      .+...+- .++..+++|+.||+...+||||++|++||||+||++||++|.|.++++|..||+|||.||++||+++|.||.
T Consensus       176 ~i~~~~l-~~~~~s~~F~~pvd~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~Li~~Na~~yN~~~s~i~~  254 (292)
T 3aad_A          176 NIVTQKM-MAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTK  254 (292)
T ss_dssp             HHHHHTG-GGSTTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHHCTTSHHHH
T ss_pred             HHhhhhh-hcCcchhHHHhcccccccccHHHHcCCcCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHH
Confidence            6654321 245679999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhc
Q psy15468        364 DAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       364 ~A~~L~~~~~~~~~~i~~  381 (653)
                      +|..|+++|...+.++..
T Consensus       255 ~A~~L~~~~~~~~~~~~~  272 (292)
T 3aad_A          255 TAQEIVNVCYQTLTEYDE  272 (292)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            999999999999887753

>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=100.00  E-value=2.1e-44  Score=372.26  Aligned_cols=232  Identities=22%  Similarity=0.383  Sum_probs=191.4

Q ss_pred             CCCCCCChH----HHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHH
Q psy15468         93 PKRKKIDPS----DAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQA  168 (653)
Q Consensus        93 ~~~~~~~~~----~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~  168 (653)
                      .+||+.+|.    .+|..|++.|..++      .++||..||+...+||||+||++||||+||++||++|.         
T Consensus         4 ~~Rrr~~~~~~l~~~l~~il~~l~~~~------~~~~F~~pv~~~~~pdY~~iI~~PmdL~tI~~kl~~~~---------   68 (265)
T 3uv5_A            4 IHRRRTDPMVTLSSILESIINDMRDLP------NTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRL---------   68 (265)
T ss_dssp             ---CCCCHHHHHHHHHHHHHHHHHTST------TCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTC---------
T ss_pred             ccccccCcHHHHHHHHHHHHHHHHcCC------CchhhhCCCChhhcCCHHHHhCCCCcHHHHHHHHHcCC---------
Confidence            345556554    44555666666554      39999999999999999999999999999999999999         


Q ss_pred             HHHHHhhcCCchHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccCCCCCCCcc
Q psy15468        169 DIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEGTS  248 (653)
Q Consensus       169 d~~l~~~~~P~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~  248 (653)
                                              |.++++|..||+|||+||..||+++|.++++|..|.+.|...+.++...-    ..
T Consensus        69 ------------------------Y~~~~~f~~D~~li~~Na~~yN~~~s~i~~~A~~l~~~~~~~~~~~~~~~----~~  120 (265)
T 3uv5_A           69 ------------------------YPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDKL----AR  120 (265)
T ss_dssp             ------------------------CSSHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHTHHHH----HH
T ss_pred             ------------------------CCCHHHHHHHHHHHHhhhhhcCCCCChHHHHHHHHHHHHHHHHHHHhhhh----hh
Confidence                                    99999999999999999999999999999999999999999887752100    00


Q ss_pred             ccccccccCCCcccCCCCCCCCChHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHH
Q psy15468        249 QKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARR  328 (653)
Q Consensus       249 ~~r~~~~~~~~~~~~~~~ss~~~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~k  328 (653)
                      ..+.+.+..++             ++...+..++..|...+- ..++.+++|+.||+...+|+||++|++||||+||++|
T Consensus       121 ~ek~i~p~~dd-------------~~~~~~~~il~~i~~~~l-~~~~~~~~F~~pv~~~~~pdY~~iIk~Pmdl~tI~~k  186 (265)
T 3uv5_A          121 LEKAINPLLDD-------------DDQVAFSFILDNIVTQKM-MAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKN  186 (265)
T ss_dssp             HHHHHSTTTTC-------------HHHHHHHHHHHHHHHHTT-TTSTTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHH
T ss_pred             hhhhhhhcccc-------------chhhHHHHHHHHHHHHHH-HhhhhhHHHhCCCChhHhCcHHHHhCCcccHHHHHHH
Confidence            11112222111             234567777777665432 3456799999999999999999999999999999999


Q ss_pred             hhCCCCCCHHHHHHHHHHHHHhhhhhCCCCCHHHHHHHHHHHHHHHHHHhhhc
Q psy15468        329 IQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       329 l~~~~Y~s~~ef~~Dv~Lmf~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~  381 (653)
                      |++|.|.++++|..||+|||.||++||+++|.||.+|..|.++|...+.++..
T Consensus       187 l~~~~Y~~~~~f~~D~~lif~Na~~yN~~~s~~~~~A~~l~~~~~~~~~~~~~  239 (265)
T 3uv5_A          187 ISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDE  239 (265)
T ss_dssp             HHTTCCSSHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHHHHHTHH
T ss_pred             HhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999988753

>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=100.00  E-value=1.2e-42  Score=373.50  Aligned_cols=216  Identities=24%  Similarity=0.410  Sum_probs=177.2

Q ss_pred             HHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchHHHHh
Q psy15468        106 QIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQ  185 (653)
Q Consensus       106 ~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~~~~~  185 (653)
                      .++..+.....+.|+.+|++|+.||++..+||||+||++||||+||++||  +.|                         
T Consensus        81 ~~~~~~l~~l~~~~~~~~~~F~~p~~~~~~PdY~~iIk~Pmdl~tI~~kl--~~y-------------------------  133 (361)
T 2r10_A           81 RFISFTLDVLIDKYKDIFKDFIKLPSRKFHPQYYYKIQQPMSINEIKSRD--YEY-------------------------  133 (361)
T ss_dssp             HHHHHHHHHHHHHTHHHHGGGSSCCCTTTCTTHHHHCSSCCCHHHHHTSC--CCS-------------------------
T ss_pred             HHHHHHHHHHHHcCCcccHHhcCCCCcccCCChHhhcCCCcCHHHHHHHh--hcc-------------------------
Confidence            44444444444567788999999999999999999999999999999998  562                         


Q ss_pred             hhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccCCCCCCCccccccccccCCCcccCCC
Q psy15468        186 QKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSR  265 (653)
Q Consensus       186 ~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~  265 (653)
                             |.++++|.+||+|||+||..||+++|.++++|..|+++|.+.|.+.-....        .             
T Consensus       134 -------~~~~~~f~~D~~li~~Na~~yN~~~s~i~~~a~~l~~~~~~~~~k~k~~~~--------~-------------  185 (361)
T 2r10_A          134 -------EDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVMLIEFEVLKAKNLKR--------N-------------  185 (361)
T ss_dssp             -------TTHHHHHHHHHHHHHHHHHHHBCSSSHHHHHHHHHHHHHHHHHHHHHTTTT--------C-------------
T ss_pred             -------CCCHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhhccccCC--------c-------------
Confidence                   338999999999999999999999999999999999999998875411000        0             


Q ss_pred             CCCCCChHHHHHHHHHHHHHHhcc----------------CCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHh
Q psy15468        266 DSSICTEDEQNQCEDLFNAVMTST----------------DADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRI  329 (653)
Q Consensus       266 ~ss~~~~~~~~~~~~ll~~l~~~~----------------d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl  329 (653)
                        ....++....+..+++.|....                ..+++.++++|+.||+...+||||+||++||||+||++||
T Consensus       186 --~~i~~~~k~~l~~~~~~l~~~~~~~i~~~~~~~r~~~~~~~~~~~s~~F~~pvd~~~~PdY~~iIk~PmDL~tI~~kl  263 (361)
T 2r10_A          186 --YLINSEVKAKLLHYLNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNL  263 (361)
T ss_dssp             --CBCCHHHHHHHHHHHHHHHHCCHHHHHHHHHGGGCCSSCCCSSCTTGGGSSCCCTTTCTHHHHHCSSCCCHHHHHHHH
T ss_pred             --CcCCHHHHHHHHHHHHHhhccchHHHHHHHhccccccccccCCcchhcccCCCChhhcccHHHHhcCcccHHHHHHHH
Confidence              0001122223333333333211                1257889999999999999999999999999999999999


Q ss_pred             hCCCCCCHHHHHHHHHHHHHhhhhhCCCCCHHHHHHHHHHHHHHHHHHh
Q psy15468        330 QDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKME  378 (653)
Q Consensus       330 ~~~~Y~s~~ef~~Dv~Lmf~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~  378 (653)
                      ++|.|.++++|..||+|||.||++||+++|.||.+|..|+++|+..+.+
T Consensus       264 ~~~~Y~s~~ef~~Dv~Lif~N~~~yN~~~s~i~~~A~~L~~~f~~~~~~  312 (361)
T 2r10_A          264 EIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQK  312 (361)
T ss_dssp             HHTCCCBHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHH
T ss_pred             hcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999998886

>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=100.00  E-value=3.3e-41  Score=348.44  Aligned_cols=225  Identities=24%  Similarity=0.385  Sum_probs=186.2

Q ss_pred             HHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhh
Q psy15468        274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT  353 (653)
Q Consensus       274 ~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~  353 (653)
                      ....|..|++.|.++..      +++|..||+...+|+||++|++||||+||++||++|.|.++++|..||+|||+||++
T Consensus        15 l~~~l~~il~~l~~~~~------~~~F~~pv~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~   88 (265)
T 3uv5_A           15 LSSILESIINDMRDLPN------TYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSAT   88 (265)
T ss_dssp             HHHHHHHHHHHHHTSTT------CGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCC------chhhhCCCChhhcCCHHHHhCCCCcHHHHHHHHHcCCCCCHHHHHHHHHHHHhhhhh
Confidence            46789999999998765      999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHHhhhcCCCCCCCcccccccccccCCCCchhhhhcCCCCCCCCCCcccccCCCCCCCc
Q psy15468        354 FNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQEDPNSPL  433 (653)
Q Consensus       354 yN~~~S~i~~~A~~L~~~~~~~~~~i~~~~~~~~~k~~r~~~~~~~~~~~~~~~~~~~~~e~~~~sd~e~~~~~~~~~P~  433 (653)
                      ||+++|.|+.+|..|.++|.+.+.++....       .+..+          ..    ...    .+++           
T Consensus        89 yN~~~s~i~~~A~~l~~~~~~~~~~~~~~~-------~~~ek----------~i----~p~----~dd~-----------  132 (265)
T 3uv5_A           89 YNGPKHSLTQISQSMLDLCDEKLKEKEDKL-------ARLEK----------AI----NPL----LDDD-----------  132 (265)
T ss_dssp             HHCTTCHHHHHHHHHHHHHHHHHHHTHHHH-------HHHHH----------HH----STT----TTCH-----------
T ss_pred             cCCCCChHHHHHHHHHHHHHHHHHHHhhhh-------hhhhh----------hh----hhc----cccc-----------
Confidence            999999999999999999999988765321       00000          00    000    0000           


Q ss_pred             hhhhhhhhccccCCcccccccCCHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHH
Q psy15468        434 WQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIAS  513 (653)
Q Consensus       434 ~~~~~~ir~~~~~g~~~~~s~~~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~  513 (653)
                                               -...+..++..|...+- .. ++.+++|..||+...+||||++|++||||++|++
T Consensus       133 -------------------------~~~~~~~il~~i~~~~l-~~-~~~~~~F~~pv~~~~~pdY~~iIk~Pmdl~tI~~  185 (265)
T 3uv5_A          133 -------------------------DQVAFSFILDNIVTQKM-MA-VPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRK  185 (265)
T ss_dssp             -------------------------HHHHHHHHHHHHHHHTT-TT-STTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHH
T ss_pred             -------------------------hhhHHHHHHHHHHHHHH-Hh-hhhhHHHhCCCChhHhCcHHHHhCCcccHHHHHH
Confidence                                     01112223333322111 11 5679999999999999999999999999999999


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        514 KLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       514 kl~~~~Y~s~~ef~~D~~Lmf~Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      ||++|.|.++++|..||+|||.||++||+++|.+|.+|..|+++|.+.+.++..
T Consensus       186 kl~~~~Y~~~~~f~~D~~lif~Na~~yN~~~s~~~~~A~~l~~~~~~~~~~~~~  239 (265)
T 3uv5_A          186 NISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDE  239 (265)
T ss_dssp             HHHTTCCSSHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHHHHHTHH
T ss_pred             HHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999887764

>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=100.00  E-value=3.7e-42  Score=362.10  Aligned_cols=204  Identities=25%  Similarity=0.448  Sum_probs=171.6

Q ss_pred             hcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchHHHHhhhcccCcCC-C
Q psy15468        117 EDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYD-D  195 (653)
Q Consensus       117 ~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~~~~~~~~~~~~Y~-~  195 (653)
                      +.|+.+|++|++||++..+||||+||++||||+||++||  +.                                 |. +
T Consensus        42 ~~~r~~~~~F~~p~~~~~~PdY~~iIk~PmDL~tI~~kl--~~---------------------------------y~~s   86 (311)
T 2r0y_A           42 DKYKDIFKDFIKLPSRKFHPQYYYKIQQPMSINEIKSRD--YE---------------------------------YEDG   86 (311)
T ss_dssp             HHSHHHHGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHSC--CC---------------------------------STTH
T ss_pred             HcCCchhHHhcCCCCcccCCChHHHcCCCCCHHHHHHHH--hc---------------------------------ccCC
Confidence            367889999999999999999999999999999999998  56                                 54 8


Q ss_pred             HHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccCCCCCCCccccccccccCCCcccCCCCCCCCChHHH
Q psy15468        196 LSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQ  275 (653)
Q Consensus       196 ~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~ss~~~~~~~  275 (653)
                      +++|.+||+|||+||..||+++|.++++|.+|+++|.+.+.+.-..        .+.     ..          ..++..
T Consensus        87 ~~~f~~D~~li~~Na~~yN~~~s~i~~~A~~l~~~~~~~~~k~k~~--------~~~-----~~----------i~~~~k  143 (311)
T 2r0y_A           87 PSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVMLIEFEVLKAKNL--------KRN-----YL----------INSEVK  143 (311)
T ss_dssp             HHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHTG--------GGC-----CB----------CCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHhhcccC--------CCC-----CC----------CChHHH
Confidence            9999999999999999999999999999999999999987764110        000     00          001112


Q ss_pred             HHHHHHHHHHHhc---------------cC-CCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHH
Q psy15468        276 NQCEDLFNAVMTS---------------TD-ADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGD  339 (653)
Q Consensus       276 ~~~~~ll~~l~~~---------------~d-~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~e  339 (653)
                      +.+..+++.|...               ++ .+++.++++|++||++..+|+||++|++||||+||++||++|.|.++++
T Consensus       144 ~~l~~~~~~l~~~~~~~i~~~l~~~r~~k~~~~~~~~s~~F~~pvd~~~~PdY~~iIk~PMDL~tI~~kl~~~~Y~s~~e  223 (311)
T 2r0y_A          144 AKLLHYLNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYD  223 (311)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHGGGSCSSCCCSSCTTGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHHTCCCBHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHhccccccccccCCccHHHHhCCCChhhcccHHHHhCCccCHHHHHHHHHcCCCCCHHH
Confidence            2222333333211               11 2578899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhCCCCCHHHHHHHHHHHHHHHHHHh
Q psy15468        340 MEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKME  378 (653)
Q Consensus       340 f~~Dv~Lmf~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~  378 (653)
                      |.+||+|||.||++||+++|.||.+|..|+++|+..+++
T Consensus       224 f~~Dv~Lif~N~~~yN~~~s~i~~~A~~L~~~f~~~~~~  262 (311)
T 2r0y_A          224 FIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQK  262 (311)
T ss_dssp             HHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999998886

>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=100.00  E-value=1.1e-40  Score=350.90  Aligned_cols=232  Identities=22%  Similarity=0.374  Sum_probs=177.6

Q ss_pred             HHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCC-CHHHHHHHHHHHHHhhhhh
Q psy15468        276 NQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYA-SLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       276 ~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~-s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      ..+..+|..+.+    +|+.++++|++||++..+||||++|++||||+||++||  +.|. ++++|..||+|||+||++|
T Consensus        31 ~~~~~~L~~~~~----~~r~~~~~F~~p~~~~~~PdY~~iIk~PmDL~tI~~kl--~~y~~s~~~f~~D~~li~~Na~~y  104 (311)
T 2r0y_A           31 RFISFTLDVLID----KYKDIFKDFIKLPSRKFHPQYYYKIQQPMSINEIKSRD--YEYEDGPSNFLLDVELLTKNCQAY  104 (311)
T ss_dssp             HHHHHHHHHHHH----HSHHHHGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHSC--CCSTTHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH----cCCchhHHhcCCCCcccCCChHHHcCCCCCHHHHHHHH--hcccCCHHHHHHHHHHHHHHHHHc
Confidence            445555665553    58899999999999999999999999999999999998  5665 8999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhhhcCCCCCCCcccccccccccCCCCchhhhhcCCCCCCCCCCcccccCCCCCCCch
Q psy15468        355 NEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQEDPNSPLW  434 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~~~~i~~~~~~~~~k~~r~~~~~~~~~~~~~~~~~~~~~e~~~~sd~e~~~~~~~~~P~~  434 (653)
                      |+++|.||.+|..|+++|.+.|.+....           . ++...  +                +..       .....
T Consensus       105 N~~~s~i~~~A~~l~~~~~~~~~k~k~~-----------~-~~~~i--~----------------~~~-------k~~l~  147 (311)
T 2r0y_A          105 NEYDSLIVKNSMQVVMLIEFEVLKAKNL-----------K-RNYLI--N----------------SEV-------KAKLL  147 (311)
T ss_dssp             SCTTSHHHHHHHHHHHHHHHHHHHHHTG-----------G-GCCBC--C----------------HHH-------HHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHhhcccC-----------C-CCCCC--C----------------hHH-------HHHHH
Confidence            9999999999999999999988764210           0 00000  0                000       00000


Q ss_pred             hhhhhhhccccCCcccccccCCHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHH
Q psy15468        435 QVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASK  514 (653)
Q Consensus       435 ~~~~~ir~~~~~g~~~~~s~~~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~k  514 (653)
                      ....++...               ..+.+..++...+..++..+++.++++|++||+...+|+||++|++||||+||++|
T Consensus       148 ~~~~~l~~~---------------~~~~i~~~l~~~r~~k~~~~~~~~s~~F~~pvd~~~~PdY~~iIk~PMDL~tI~~k  212 (311)
T 2r0y_A          148 HYLNKLVDA---------------TEKKINQALLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQN  212 (311)
T ss_dssp             HHHHHHHHC---------------CHHHHHHHHHGGGSCSSCCCSSCTTGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHH
T ss_pred             HHHHHHHhh---------------hHHHHHHHHhccccccccccCCccHHHHhCCCChhhcccHHHHhCCccCHHHHHHH
Confidence            000000000               00111111111122222223488999999999999999999999999999999999


Q ss_pred             HhcCCCCCHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHhh
Q psy15468        515 LRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHL  565 (653)
Q Consensus       515 l~~~~Y~s~~ef~~D~~Lmf~Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL  565 (653)
                      |++|.|.++++|.+||+|||.||++||+++|.||.+|..|+++|++.+++.
T Consensus       213 l~~~~Y~s~~ef~~Dv~Lif~N~~~yN~~~s~i~~~A~~L~~~f~~~~~~~  263 (311)
T 2r0y_A          213 LEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKE  263 (311)
T ss_dssp             HHHTCCCBHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHcCCCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999988863

>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=100.00  E-value=1.6e-40  Score=357.02  Aligned_cols=232  Identities=22%  Similarity=0.373  Sum_probs=177.0

Q ss_pred             HHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCC-CHHHHHHHHHHHHHhhhhh
Q psy15468        276 NQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYA-SLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       276 ~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~-s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      ..|..+++.+.+    .|+.++++|+.||++..+||||+||++||||+||++||  +.|. ++++|..||+|||+||++|
T Consensus        81 ~~~~~~l~~l~~----~~~~~~~~F~~p~~~~~~PdY~~iIk~Pmdl~tI~~kl--~~y~~~~~~f~~D~~li~~Na~~y  154 (361)
T 2r10_A           81 RFISFTLDVLID----KYKDIFKDFIKLPSRKFHPQYYYKIQQPMSINEIKSRD--YEYEDGPSNFLLDVELLTKNCQAY  154 (361)
T ss_dssp             HHHHHHHHHHHH----HTHHHHGGGSSCCCTTTCTTHHHHCSSCCCHHHHHTSC--CCSTTHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH----cCCcccHHhcCCCCcccCCChHhhcCCCcCHHHHHHHh--hccCCCHHHHHHHHHHHHHHHhhc
Confidence            456666666654    57889999999999999999999999999999999998  5555 8999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhhhcCCCCCCCcccccccccccCCCCchhhhhcCCCCCCCCCCcccccCCCCCCCch
Q psy15468        355 NEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQEDPNSPLW  434 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~~~~i~~~~~~~~~k~~r~~~~~~~~~~~~~~~~~~~~~e~~~~sd~e~~~~~~~~~P~~  434 (653)
                      |+++|.||.+|..|+++|...|.+.....  .          +..  .+                ++.       .....
T Consensus       155 N~~~s~i~~~a~~l~~~~~~~~~k~k~~~--~----------~~~--i~----------------~~~-------k~~l~  197 (361)
T 2r10_A          155 NEYDSLIVKNSMQVVMLIEFEVLKAKNLK--R----------NYL--IN----------------SEV-------KAKLL  197 (361)
T ss_dssp             BCSSSHHHHHHHHHHHHHHHHHHHHHTTT--T----------CCB--CC----------------HHH-------HHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhhccccC--C----------cCc--CC----------------HHH-------HHHHH
Confidence            99999999999999999999887642110  0          000  00                000       00000


Q ss_pred             hhhhhhhccccCCcccccccCCHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHH
Q psy15468        435 QVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASK  514 (653)
Q Consensus       435 ~~~~~ir~~~~~g~~~~~s~~~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~k  514 (653)
                      .....+...               ....+...+...+..++..+++.++++|++||+...+||||++|++||||++|++|
T Consensus       198 ~~~~~l~~~---------------~~~~i~~~~~~~r~~~~~~~~~~~s~~F~~pvd~~~~PdY~~iIk~PmDL~tI~~k  262 (361)
T 2r10_A          198 HYLNKLVDA---------------TEKKINQALLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQN  262 (361)
T ss_dssp             HHHHHHHHC---------------CHHHHHHHHHGGGCCSSCCCSSCTTGGGSSCCCTTTCTHHHHHCSSCCCHHHHHHH
T ss_pred             HHHHHhhcc---------------chHHHHHHHhccccccccccCCcchhcccCCCChhhcccHHHHhcCcccHHHHHHH
Confidence            000000000               00011111111111122223488999999999999999999999999999999999


Q ss_pred             HhcCCCCCHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHhh
Q psy15468        515 LRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHL  565 (653)
Q Consensus       515 l~~~~Y~s~~ef~~D~~Lmf~Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL  565 (653)
                      |++|.|.++++|.+||+|||.||++||+++|.||.+|..|+++|++.+.+.
T Consensus       263 l~~~~Y~s~~ef~~Dv~Lif~N~~~yN~~~s~i~~~A~~L~~~f~~~~~~~  313 (361)
T 2r10_A          263 LEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKE  313 (361)
T ss_dssp             HHHTCCCBHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHT
T ss_pred             HhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999988863

>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=100.00  E-value=3.7e-40  Score=344.75  Aligned_cols=224  Identities=24%  Similarity=0.387  Sum_probs=181.6

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      ...|..|++.|+++..      +++|+.||+...+|+||++|++||||+||++||++|.|.++++|..||+|||+||.+|
T Consensus        49 ~~~~~~il~~l~~~~~------a~~F~~pV~~~~~pdY~~iIk~PmDL~tIk~kl~~~~Y~s~~~f~~D~~li~~Na~~y  122 (292)
T 3aad_A           49 SSILESIINDMRDLPN------TYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY  122 (292)
T ss_dssp             HHHHHHHHHHHSSSTT------CGGGSSSCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCc------chhhcCCCCchhcccHHHHcCCcCCHHHHHHHhhCCCcCCHHHHHHHHHHHHHHHHHH
Confidence            5778889998887654      9999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhhhcCCCCCCCcccccccccccCCCCchhhhhcCCCCCCCCCCcccccCCCCCCCch
Q psy15468        355 NEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQEDPNSPLW  434 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~~~~i~~~~~~~~~k~~r~~~~~~~~~~~~~~~~~~~~~e~~~~sd~e~~~~~~~~~P~~  434 (653)
                      |+++|.|+.+|..|.++|...+.++....       .+..+              .....    .+++         +  
T Consensus       123 N~~~s~i~~~A~~L~~~~~~~~~~~~~~~-------~~~e~--------------~i~Pl----~dd~---------~--  166 (292)
T 3aad_A          123 NGPKHSLTQISQSMLDLCDEKLKEKEDKL-------ARLEK--------------AINPL----LDDD---------D--  166 (292)
T ss_dssp             TCSSSHHHHHHTHHHHTTTTTGGGSHHHH-------HHHHH--------------TTSSS----TTCH---------H--
T ss_pred             cCCchHHHHHHHHHHHHHHhhhhcchhhh-------hhhhh--------------ccccc----cccc---------h--
Confidence            99999999999999999987766543210       00000              00000    0000         0  


Q ss_pred             hhhhhhhccccCCcccccccCCHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHH
Q psy15468        435 QVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASK  514 (653)
Q Consensus       435 ~~~~~ir~~~~~g~~~~~s~~~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~k  514 (653)
                                               +..+..+++.+...+- .. +..+++|..+|+...+||||++|++||||++|++|
T Consensus       167 -------------------------~~~~~~~l~~i~~~~l-~~-~~~s~~F~~pvd~~~~pdY~~iIk~PmdL~tI~~k  219 (292)
T 3aad_A          167 -------------------------QVAFSFILDNIVTQKM-MA-VPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKN  219 (292)
T ss_dssp             -------------------------HHHHHHHHHHHHHHTG-GG-STTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHH
T ss_pred             -------------------------hHHHHHHHHHHhhhhh-hc-CcchhHHHhcccccccccHHHHcCCcCCHHHHHHH
Confidence                                     0012223333221100 11 56799999999999999999999999999999999


Q ss_pred             HhcCCCCCHHHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        515 LRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       515 l~~~~Y~s~~ef~~D~~Lmf~Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      |++|.|.|+++|.+||+|||.||++||+++|.+|.+|..|+++|.+.+.++..
T Consensus       220 l~~~~Y~s~~~f~~D~~Li~~Na~~yN~~~s~i~~~A~~L~~~~~~~~~~~~~  272 (292)
T 3aad_A          220 ISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDE  272 (292)
T ss_dssp             HHTTCCSSHHHHHHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999988887653

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

Probab=99.94  E-value=1.6e-26  Score=211.77  Aligned_cols=112  Identities=39%  Similarity=0.675  Sum_probs=107.0

Q ss_pred             CChHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q psy15468        270 CTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTK  349 (653)
Q Consensus       270 ~~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~  349 (653)
                      ......+.|..|++.|++++|..|++++++|.+||++..+|+||++|++||||+||++||+++.|.++++|.+||+|||.
T Consensus        10 ~~~~l~~~~~~il~~l~~~~d~~g~~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~   89 (123)
T 2dat_A           10 NPPKLTKQMNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCH   89 (123)
T ss_dssp             CCHHHHHHHHHHHHHHHHCBCSSSCBSGGGGTSCCCTTTSCHHHHHCSSCCCHHHHHHHHTTTCCCSHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhhhcccCCeeeHHhcCCCCcccCCCHHHHcCCCCCHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Confidence            34556899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhhCCCCCHHHHHHHHHHHHHHHHHHhhhc
Q psy15468        350 NACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       350 Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~  381 (653)
                      ||++||+++|.||.+|..|+++|++.+++++.
T Consensus        90 Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~ps  121 (123)
T 2dat_A           90 NAQTFNLEGSQIYEDSIVLQSVFKSARQSGPS  121 (123)
T ss_dssp             HHHHHSCTTSHHHHHHHHHHHHHHHHHHSSSC
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999988764

>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=99.94  E-value=6.7e-27  Score=212.13  Aligned_cols=112  Identities=47%  Similarity=0.861  Sum_probs=107.8

Q ss_pred             CChHHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcC
Q psy15468         98 IDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTN  177 (653)
Q Consensus        98 ~~~~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~  177 (653)
                      .++...|..|++.|+++++++|++++++|.+||++..+||||+||++||||+||++||+++.                  
T Consensus         4 ~~~~~~c~~il~~l~~~~d~~g~~~s~~F~~p~~~~~~pdY~~iI~~PmdL~tI~~kl~~~~------------------   65 (116)
T 3iu5_A            4 VDPIAVCHELYNTIRDYKDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLKMEE------------------   65 (116)
T ss_dssp             CCHHHHHHHHHHHHHHCBCTTCCBGGGGGSSCCCGGGCHHHHHHCSSCCCHHHHHHHHHTTC------------------
T ss_pred             HHHHHHHHHHHHHHHHhhccCCCeeeHHhcCCCCcccCCCHHHHhCCCCCHHHHHHHHHcCC------------------
Confidence            46899999999999999999999999999999999999999999999999999999999999                  


Q ss_pred             CchHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccCCC
Q psy15468        178 PIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQ  242 (653)
Q Consensus       178 P~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~~~  242 (653)
                                     |.++++|..|++|||+||..||+++|.++++|.+|++.|.+.++++.+.|
T Consensus        66 ---------------Y~s~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~l~~~g  115 (116)
T 3iu5_A           66 ---------------YDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTRNEFVQKG  115 (116)
T ss_dssp             ---------------CCSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHCC-
T ss_pred             ---------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHhcc
Confidence                           99999999999999999999999999999999999999999999987754

>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=99.94  E-value=1.6e-26  Score=212.10  Aligned_cols=112  Identities=48%  Similarity=0.856  Sum_probs=108.5

Q ss_pred             CHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHH
Q psy15468        456 TAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFD  535 (653)
Q Consensus       456 ~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~  535 (653)
                      .++++++|+.|++.|+++++..| ++++++|.+||+...+||||++|++||||++|++||+++.|.++++|.+||+|||.
T Consensus        13 ~~~l~~~~~~il~~l~~~~d~~g-~~~s~~F~~pv~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~   91 (124)
T 3mb4_A           13 MTPMQQKLNEVYEAVKNYTDKRG-RRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFN   91 (124)
T ss_dssp             CCHHHHHHHHHHHHHHHCBCTTS-CBGGGGGSCCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHhHhcccC-CcccHHhhcCCCccccCCHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            56899999999999999999988 99999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCHHHHHHHHHHHHHHHHHHhhcCC
Q psy15468        536 NACKYNEPDSHIYKDALSLQRIVLQTKMHLRED  568 (653)
Q Consensus       536 Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~~  568 (653)
                      ||++||+++|.+|.+|..|+++|+++++++..+
T Consensus        92 Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~d  124 (124)
T 3mb4_A           92 NACTYNEPESLIYKDALVLHKVLLETRRDLEGD  124 (124)
T ss_dssp             HHHHHSCTTSHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Confidence            999999999999999999999999999998753

>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=99.93  E-value=2.3e-26  Score=208.58  Aligned_cols=110  Identities=30%  Similarity=0.523  Sum_probs=106.2

Q ss_pred             hHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhh
Q psy15468        272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNA  351 (653)
Q Consensus       272 ~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na  351 (653)
                      .++.+.|..|++.|++++|++|++++++|.+||++..+|+||++|++||||+||++||++|.|.++++|..||+|||.||
T Consensus         4 ~~~~~~c~~il~~l~~~~d~~g~~~s~~F~~p~~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na   83 (116)
T 3iu5_A            4 VDPIAVCHELYNTIRDYKDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNA   83 (116)
T ss_dssp             CCHHHHHHHHHHHHHHCBCTTCCBGGGGGSSCCCGGGCHHHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhccCCCeeeHHhcCCCCcccCCCHHHHhCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Confidence            34678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhCCCCCHHHHHHHHHHHHHHHHHHhhhc
Q psy15468        352 CTFNEPGSQIYKDAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       352 ~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~  381 (653)
                      ++||+++|.+|.+|..|+++|++.+.++.+
T Consensus        84 ~~yN~~~s~~~~~A~~L~~~f~~~~~~l~~  113 (116)
T 3iu5_A           84 KSYYKPDSPEYKAACKLWDLYLRTRNEFVQ  113 (116)
T ss_dssp             HHHSCTTSHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999998865

>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=99.93  E-value=3.9e-26  Score=208.29  Aligned_cols=111  Identities=49%  Similarity=0.791  Sum_probs=106.4

Q ss_pred             hHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhh
Q psy15468        272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNA  351 (653)
Q Consensus       272 ~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na  351 (653)
                      +.....|+.|++.|+++++++|++++++|.+||++..+|+||++|++||||+||++||++|.|.++++|..||+|||.||
T Consensus         7 ~~l~~~~~~ll~~l~~~~d~~g~~~s~~F~~~~~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na   86 (120)
T 3ljw_A            7 AYLKEILEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNA   86 (120)
T ss_dssp             HHHHHHHHHHHHHHHHCBCTTSCBTTGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccCcCCCcccHHhcCCCCcccCCChHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHHH
Confidence            34578899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhCCCCCHHHHHHHHHHHHHHHHHHhhhcC
Q psy15468        352 CTFNEPGSQIYKDAKALKKLVQTKKMEIEQG  382 (653)
Q Consensus       352 ~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~~  382 (653)
                      +.||+++|.||.+|..|+++|++++++++..
T Consensus        87 ~~yN~~~s~~~~~A~~L~~~f~~~~~~i~~~  117 (120)
T 3ljw_A           87 KTYNEPGSQVFKDANSIKKIFYMKKAEIEHH  117 (120)
T ss_dssp             HHHSCTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHHHhhhc
Confidence            9999999999999999999999999988753

>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=99.93  E-value=8.3e-26  Score=207.30  Aligned_cols=110  Identities=35%  Similarity=0.648  Sum_probs=105.7

Q ss_pred             hHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhh
Q psy15468        272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNA  351 (653)
Q Consensus       272 ~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na  351 (653)
                      ....+.|..|++.|+++++++|++++++|..||++..+|+||++|++||||+||++||+++.|.++++|..||+|||.||
T Consensus        14 ~~l~~~~~~il~~l~~~~d~~g~~~s~~F~~pv~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na   93 (124)
T 3mb4_A           14 TPMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNA   93 (124)
T ss_dssp             CHHHHHHHHHHHHHHHCBCTTSCBGGGGGSCCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhHhcccCCcccHHhhcCCCccccCCHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Confidence            34578999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhCCCCCHHHHHHHHHHHHHHHHHHhhhc
Q psy15468        352 CTFNEPGSQIYKDAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       352 ~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~  381 (653)
                      ++||+++|.||.+|..|+++|++.++++..
T Consensus        94 ~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~  123 (124)
T 3mb4_A           94 CTYNEPESLIYKDALVLHKVLLETRRDLEG  123 (124)
T ss_dssp             HHHSCTTSHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            999999999999999999999999998753

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

Probab=99.93  E-value=1e-25  Score=206.47  Aligned_cols=110  Identities=32%  Similarity=0.583  Sum_probs=106.1

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy15468        457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDN  536 (653)
Q Consensus       457 ~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~N  536 (653)
                      ..+++.|+.|++.|++++|..| +.++++|.+||++..+||||++|++||||++|++||+++.|.++++|.+||+|||.|
T Consensus        12 ~~l~~~~~~il~~l~~~~d~~g-~~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~N   90 (123)
T 2dat_A           12 PKLTKQMNAIIDTVINYKDSSG-RQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCHN   90 (123)
T ss_dssp             HHHHHHHHHHHHHHHHCBCSSS-CBSGGGGTSCCCTTTSCHHHHHCSSCCCHHHHHHHHTTTCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhcccC-CeeeHHhcCCCCcccCCCHHHHcCCCCCHHHHHHHHhCCCCCCHHHHHHHHHHHHHH
Confidence            4688999999999999999888 999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCCCCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        537 ACKYNEPDSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       537 a~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      |++||+++|.+|.+|..|+++|++.+++++.
T Consensus        91 a~~yN~~~s~i~~~A~~L~~~f~~~~~~~ps  121 (123)
T 2dat_A           91 AQTFNLEGSQIYEDSIVLQSVFKSARQSGPS  121 (123)
T ss_dssp             HHHHSCTTSHHHHHHHHHHHHHHHHHHSSSC
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHcCC
Confidence            9999999999999999999999999998864

>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=99.93  E-value=9.1e-26  Score=208.52  Aligned_cols=111  Identities=36%  Similarity=0.618  Sum_probs=106.3

Q ss_pred             hHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhh
Q psy15468        272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNA  351 (653)
Q Consensus       272 ~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na  351 (653)
                      .....+|..|++.|+++++.+|++++++|.+||++..+|+||++|++||||+||++||+++.|.++++|..||+|||.||
T Consensus        16 ~kl~~~~~~l~~~l~~~~d~~g~~~s~~F~~pv~~~~~PdY~~iIk~PMdL~tI~~kL~~~~Y~s~~ef~~Dv~Lif~Na   95 (130)
T 3k2j_A           16 ENLYFQSMQLYDTVRSCRNNQGQLIAEPFYHLPSKKKYPDYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFENA   95 (130)
T ss_dssp             HHHHHHHHHHHHHHHTCBCSSSCBTTGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCCccHhhcCCCChhhCccHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Confidence            34578999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhCCCCCHHHHHHHHHHHHHHHHHHhhhcC
Q psy15468        352 CTFNEPGSQIYKDAKALKKLVQTKKMEIEQG  382 (653)
Q Consensus       352 ~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~~  382 (653)
                      ++||+++|.||.+|..|+++|++.++++...
T Consensus        96 ~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~~  126 (130)
T 3k2j_A           96 KRYNVPNSAIYKRVLKLQQVMQAKKKELARR  126 (130)
T ss_dssp             HHHSCTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999988643

>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=99.93  E-value=1.4e-25  Score=206.34  Aligned_cols=110  Identities=23%  Similarity=0.379  Sum_probs=105.7

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy15468        457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDN  536 (653)
Q Consensus       457 ~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~N  536 (653)
                      ..+++.|+.|++.|++++|+.| ++++++|.+||++..+||||++|++||||++|++||++|.|.++++|.+||+|||.|
T Consensus         8 ~~l~~~~~~i~~~l~~~~d~~g-~~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~N   86 (126)
T 3mqm_A            8 ARLAQIFKEICDGIISYKDSSR-QALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTGYYKTVEAFDADMLKVFRN   86 (126)
T ss_dssp             HHHHHHHHHHHHHHHHCBCTTC-CBTTGGGSSCCCGGGCTTHHHHCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCcCC-CChhHHhcCCCCcccCCCHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Confidence            4678999999999999999988 999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCCCCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        537 ACKYNEPDSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       537 a~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      |++||+++|.+|++|..|+++|.++++++..
T Consensus        87 a~~yN~~~s~~~~~A~~L~~~f~~~~~~~~~  117 (126)
T 3mqm_A           87 AEKYYGRKSPVGRDVCRLRKAYYNARHEASA  117 (126)
T ss_dssp             HHHHHCTTSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999887754

>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=99.92  E-value=1.6e-25  Score=204.31  Aligned_cols=110  Identities=34%  Similarity=0.635  Sum_probs=105.8

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy15468        457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDN  536 (653)
Q Consensus       457 ~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~N  536 (653)
                      ..|+..|+.+++.|+++++..| ++++++|.+||++..+|+||++|++||||++|++||.+|.|.++++|.+||+|||.|
T Consensus         7 ~~l~~~~~~ll~~l~~~~d~~g-~~~s~~F~~~~~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~N   85 (120)
T 3ljw_A            7 AYLKEILEQLLEAIVVATNPSG-RLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKN   85 (120)
T ss_dssp             HHHHHHHHHHHHHHHHCBCTTS-CBTTGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccCcCC-CcccHHhcCCCCcccCCChHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHH
Confidence            3578899999999999999988 999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCCCCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        537 ACKYNEPDSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       537 a~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      |++||+++|.+|++|..|+++|++++.++..
T Consensus        86 a~~yN~~~s~~~~~A~~L~~~f~~~~~~i~~  116 (120)
T 3ljw_A           86 AKTYNEPGSQVFKDANSIKKIFYMKKAEIEH  116 (120)
T ss_dssp             HHHHSCTTSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHhhh
Confidence            9999999999999999999999999998763

>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=99.92  E-value=1.4e-25  Score=206.40  Aligned_cols=107  Identities=23%  Similarity=0.420  Sum_probs=103.4

Q ss_pred             HHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhh
Q psy15468        274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT  353 (653)
Q Consensus       274 ~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~  353 (653)
                      ..+.|+.|++.|++++|++|++++++|.+||++..+||||++|++||||+||++||++|.|.++++|.+||+|||.||++
T Consensus        10 l~~~~~~i~~~l~~~~d~~g~~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~   89 (126)
T 3mqm_A           10 LAQIFKEICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTGYYKTVEAFDADMLKVFRNAEK   89 (126)
T ss_dssp             HHHHHHHHHHHHHHCBCTTCCBTTGGGSSCCCGGGCTTHHHHCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCcCCCChhHHhcCCCCcccCCCHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence            36889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        354 FNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       354 yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      ||+++|.+|.+|..|+++|++.+.++.
T Consensus        90 yN~~~s~~~~~A~~L~~~f~~~~~~~~  116 (126)
T 3mqm_A           90 YYGRKSPVGRDVCRLRKAYYNARHEAS  116 (126)
T ss_dssp             HHCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999888764

>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=2.1e-25  Score=205.98  Aligned_cols=113  Identities=39%  Similarity=0.680  Sum_probs=106.8

Q ss_pred             CChHHHHHHHHHHHHHHhccCC-CCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q psy15468        270 CTEDEQNQCEDLFNAVMTSTDA-DSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMT  348 (653)
Q Consensus       270 ~~~~~~~~~~~ll~~l~~~~d~-~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf  348 (653)
                      .+....+.|..||+.|++++++ +|+.++++|..||++..+|+||++|++||||+||++||++|.|.++++|.+||+|||
T Consensus         8 ~~~~l~~~~~~il~~l~~~~d~~~~~~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~Li~   87 (129)
T 2grc_A            8 NPPNLTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLC   87 (129)
T ss_dssp             CCHHHHHHHHHHHHHHHHCBCTTTCCBGGGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHhcccccccCeeeHHhcCCCCcccCCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence            3455689999999999999875 799999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhhhCCCCCHHHHHHHHHHHHHHHHHHhhhcC
Q psy15468        349 KNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQG  382 (653)
Q Consensus       349 ~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~~  382 (653)
                      .||++||+++|.||.+|..|+++|++.+.+++..
T Consensus        88 ~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~~  121 (129)
T 2grc_A           88 QNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKE  121 (129)
T ss_dssp             HHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHccCC
Confidence            9999999999999999999999999999988654

>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=99.92  E-value=2.5e-25  Score=205.61  Aligned_cols=110  Identities=35%  Similarity=0.635  Sum_probs=106.2

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy15468        457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDN  536 (653)
Q Consensus       457 ~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~N  536 (653)
                      ..+..+|+.|++.|+++++..| ++++++|.+||++..+|+||++|++||||++|++||+++.|.|+++|.+||+|||.|
T Consensus        16 ~kl~~~~~~l~~~l~~~~d~~g-~~~s~~F~~pv~~~~~PdY~~iIk~PMdL~tI~~kL~~~~Y~s~~ef~~Dv~Lif~N   94 (130)
T 3k2j_A           16 ENLYFQSMQLYDTVRSCRNNQG-QLIAEPFYHLPSKKKYPDYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFEN   94 (130)
T ss_dssp             HHHHHHHHHHHHHHHTCBCSSS-CBTTGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccC-CCccHhhcCCCChhhCccHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence            4678899999999999999988 999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCCCCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        537 ACKYNEPDSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       537 a~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      |++||+++|.+|++|..|+++|++.+.++..
T Consensus        95 a~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~  125 (130)
T 3k2j_A           95 AKRYNVPNSAIYKRVLKLQQVMQAKKKELAR  125 (130)
T ss_dssp             HHHHSCTTSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999998864

>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=3e-25  Score=204.91  Aligned_cols=113  Identities=32%  Similarity=0.635  Sum_probs=106.9

Q ss_pred             CHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHH
Q psy15468        456 TAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFD  535 (653)
Q Consensus       456 ~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~  535 (653)
                      ...+++.|..|++.|.+++++.+++.++++|..||+...+|+||++|++||||++|++||++|.|.|+++|.+||+|||.
T Consensus         9 ~~~l~~~~~~il~~l~~~~d~~~~~~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~Li~~   88 (129)
T 2grc_A            9 PPNLTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQ   88 (129)
T ss_dssp             CHHHHHHHHHHHHHHHHCBCTTTCCBGGGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhcccccccCeeeHHhcCCCCcccCCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Confidence            45788999999999999988644599999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCHHHHHHHHHHHHHHHHHHhhcCC
Q psy15468        536 NACKYNEPDSHIYKDALSLQRIVLQTKMHLRED  568 (653)
Q Consensus       536 Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~~  568 (653)
                      ||++||+++|.+|.+|..|+++|.+.+++|..+
T Consensus        89 Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~~  121 (129)
T 2grc_A           89 NAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKE  121 (129)
T ss_dssp             HHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHccCC
Confidence            999999999999999999999999999999764

>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=99.91  E-value=1.4e-24  Score=197.20  Aligned_cols=112  Identities=23%  Similarity=0.453  Sum_probs=103.6

Q ss_pred             CCCCCCCCCChHHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHH
Q psy15468         90 QTRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQAD  169 (653)
Q Consensus        90 ~~~~~~~~~~~~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d  169 (653)
                      .++++|........|..|++.|..++.      ++||..||+...+||||+||++||||+||++||++|.          
T Consensus         4 ~~k~~~~~~~~~~~c~~il~~l~~~~~------s~~F~~pv~~~~~pdY~~~I~~Pmdl~tI~~kl~~~~----------   67 (117)
T 3g0l_A            4 VKKPKRDDSKDLALCSMILTEMETHED------AWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQ----------   67 (117)
T ss_dssp             CCCCCCCCTTHHHHHHHHHHHHHTSTT------CGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTC----------
T ss_pred             CcCCCcCCHHHHHHHHHHHHHHHhCCC------chhhcCcCChhhcCChHHHcCCCCCHHHHHHHHhCCC----------
Confidence            345556666788999999999998754      9999999999999999999999999999999999999          


Q ss_pred             HHHHhhcCCchHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccC
Q psy15468        170 IELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLN  240 (653)
Q Consensus       170 ~~l~~~~~P~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~  240 (653)
                                             |.++++|..|++|||.||..||+++|.++++|..|.+.|++.++++++
T Consensus        68 -----------------------Y~~~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~~~  115 (117)
T 3g0l_A           68 -----------------------YPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKKWTDTFK  115 (117)
T ss_dssp             -----------------------CCSHHHHHHHHHHHHHHHHHHSCSSSHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             -----------------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHc
Confidence                                   999999999999999999999999999999999999999999998764

>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=99.91  E-value=2.7e-25  Score=210.50  Aligned_cols=109  Identities=26%  Similarity=0.512  Sum_probs=103.7

Q ss_pred             ChHHHHHHHHHHHHhhhh-hcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcC
Q psy15468         99 DPSDAMQQIYDVIRNFKK-EDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTN  177 (653)
Q Consensus        99 ~~~~~~~~l~~~i~~~k~-~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~  177 (653)
                      -..+.|+.|++.|.++++ .+|+.++++|..||++..+||||+||++||||+||++||+++.                  
T Consensus        24 ~~~~~~k~ll~~l~~~~~~~~~~~~~~~F~~~~~~~~~pdY~~iIk~PmdL~tI~~kl~~~~------------------   85 (150)
T 3tlp_A           24 IRKQRMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDYPDYYKIILEPMDLKIIEHNIRNDK------------------   85 (150)
T ss_dssp             HHHHHHHHHHHHHHHCBCTTTCCBGGGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTC------------------
T ss_pred             hhHHHHHHHHHHHHHHHhcccCCcccHHhcCCCchhhCcCHHHHhCCCCCHHHHHHHHhcCC------------------
Confidence            457889999999999985 5789999999999999999999999999999999999999999                  


Q ss_pred             CchHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccC
Q psy15468        178 PIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLN  240 (653)
Q Consensus       178 P~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~  240 (653)
                                     |.++++|..||+|||+||..||+++|.++++|..|.+.|.+.+.++..
T Consensus        86 ---------------Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~  133 (150)
T 3tlp_A           86 ---------------YAGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEKLLKEKRKELGP  133 (150)
T ss_dssp             ---------------CSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             ---------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHccC
Confidence                           999999999999999999999999999999999999999999998854

>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=99.91  E-value=5.4e-24  Score=193.26  Aligned_cols=105  Identities=27%  Similarity=0.389  Sum_probs=99.5

Q ss_pred             CChHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q psy15468        270 CTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTK  349 (653)
Q Consensus       270 ~~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~  349 (653)
                      ....+.+.|..|++.|+++.+      +++|..||+...+|+||++|++||||+||++||++|.|.++++|.+||+|||.
T Consensus        10 ~~~~~~~~c~~il~~l~~~~~------s~~F~~pv~~~~~pdY~~~I~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~   83 (117)
T 3g0l_A           10 DDSKDLALCSMILTEMETHED------AWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFD   83 (117)
T ss_dssp             CCTTHHHHHHHHHHHHHTSTT------CGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhCCC------chhhcCcCChhhcCChHHHcCCCCCHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Confidence            345678999999999998865      99999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhhCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        350 NACTFNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       350 Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      ||..||+++|.++.+|..|+++|++.|+++.
T Consensus        84 Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~~  114 (117)
T 3g0l_A           84 NCETFNEDDSDIGRAGHNMRKYFEKKWTDTF  114 (117)
T ss_dssp             HHHHHSCSSSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999998864

>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=99.90  E-value=7.3e-24  Score=190.96  Aligned_cols=102  Identities=26%  Similarity=0.358  Sum_probs=96.8

Q ss_pred             HHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhh
Q psy15468        273 DEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC  352 (653)
Q Consensus       273 ~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~  352 (653)
                      .....|..|++.|.++..      +++|..||+...+|+||++|++||||+||++||++|.|.++++|.+||+|||.||+
T Consensus         7 ~l~~~~~~il~~l~~~~~------~~~F~~pvd~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na~   80 (112)
T 3d7c_A            7 QLYTTLKNLLAQIKSHPS------AWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCR   80 (112)
T ss_dssp             HHHHHHHHHHHHHHHSGG------GGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCC------chhhcCCCCcccccCHHHHccCCcCHHHHHHHHcCCCCcCHHHHHHHHHHHHHHHH
Confidence            346889999999998754      99999999999999999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        353 TFNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       353 ~yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      +||+++|.+|.+|..|++.|++.++++.
T Consensus        81 ~yN~~~s~~~~~A~~L~~~f~~~~~~~~  108 (112)
T 3d7c_A           81 EYNPPDSEYCRCASALEKFFYFKLKEGG  108 (112)
T ss_dssp             HHSCTTSHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHCC
Confidence            9999999999999999999999998765

>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=99.90  E-value=8.8e-24  Score=200.08  Aligned_cols=109  Identities=38%  Similarity=0.735  Sum_probs=103.8

Q ss_pred             HHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy15468        459 SLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNAC  538 (653)
Q Consensus       459 ~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~  538 (653)
                      -+++|+.|++.|.++.++..++.++.+|..+|++..+||||++|++||||++|++||++|.|.++++|.+||+|||.||+
T Consensus        25 ~~~~~k~ll~~l~~~~~~~~~~~~~~~F~~~~~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~  104 (150)
T 3tlp_A           25 RKQRMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDYPDYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNAR  104 (150)
T ss_dssp             HHHHHHHHHHHHHHCBCTTTCCBGGGGGSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhcccCCcccHHhcCCCchhhCcCHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            47889999999999987554499999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        539 KYNEPDSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       539 ~YN~~~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      +||+++|.+|.+|..|+++|++.+.++..
T Consensus       105 ~yN~~~s~i~~~A~~L~~~f~~~~~~l~~  133 (150)
T 3tlp_A          105 HYNEEGSQVYNDAHILEKLLKEKRKELGP  133 (150)
T ss_dssp             HHSCTTSHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHccC
Confidence            99999999999999999999999999974

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

Probab=99.90  E-value=7.5e-24  Score=195.79  Aligned_cols=108  Identities=17%  Similarity=0.369  Sum_probs=99.2

Q ss_pred             ChHHHHHHHHHHHHHHhccCCCCcccccccccccccC--CCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q psy15468        271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKK--RYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMT  348 (653)
Q Consensus       271 ~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~--~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf  348 (653)
                      ..++.+.|..||+.|+.+++   ..++++|+.||+..  ++|+||++|++||||+||++||++|.|.++++|.+||+|||
T Consensus        20 ~~~~l~~c~~il~~L~~~~~---~~~a~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~li~   96 (130)
T 2ouo_A           20 VSEQLKCCSGILKEMFAKKH---AAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMF   96 (130)
T ss_dssp             HHHHHHHHHHHHHHHTSGGG---HHHHGGGSSCCCTTSTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhCCc---chhHHHhcCCCChhhccCCcHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            34568899999999998753   35789999999865  59999999999999999999999999999999999999999


Q ss_pred             HhhhhhCCCCCHHHHHHHHHHHHHHHHHHhhhc
Q psy15468        349 KNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       349 ~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~  381 (653)
                      .||++||+++|.||.+|..|+++|++.+++++.
T Consensus        97 ~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~lp~  129 (130)
T 2ouo_A           97 SNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPD  129 (130)
T ss_dssp             HHHHHHSCTTSHHHHHHHHHHHHHHHHHHTSCC
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHHHHHHHCCC
Confidence            999999999999999999999999999998764

>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=99.90  E-value=5.7e-24  Score=193.95  Aligned_cols=110  Identities=16%  Similarity=0.352  Sum_probs=101.2

Q ss_pred             CChHHHHHHHHHHHHHHhccCCCCcccccccccccccCC--CCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHH
Q psy15468        270 CTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKR--YPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILM  347 (653)
Q Consensus       270 ~~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~--~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lm  347 (653)
                      ....+.+.|..|+..|..++   +..++++|..||+...  +|+||++|++||||+||++||++|.|.++++|..||+||
T Consensus         6 ~~~~~l~~c~~il~~l~~~~---~~~~a~~F~~pvd~~~~~~pdY~~iI~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li   82 (120)
T 3jvl_A            6 KISEQLKCCSGILKEMFAKK---HAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLM   82 (120)
T ss_dssp             SSCHHHHHHHHHHHHHTSGG---GHHHHGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHhCc---CccccchhcCCCCchhcCCCCHHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHH
Confidence            34567899999999998874   3567999999999876  999999999999999999999999999999999999999


Q ss_pred             HHhhhhhCCCCCHHHHHHHHHHHHHHHHHHhhhcC
Q psy15468        348 TKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQG  382 (653)
Q Consensus       348 f~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~~  382 (653)
                      |.||++||+++|.|+.+|..|+++|++.+.+++..
T Consensus        83 ~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~p~~  117 (120)
T 3jvl_A           83 FSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDE  117 (120)
T ss_dssp             HHHHHHHSCTTSHHHHHHHHHHHHHHHHHTTCCC-
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCcCC
Confidence            99999999999999999999999999999988653

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

Probab=99.90  E-value=5.1e-24  Score=196.92  Aligned_cols=112  Identities=21%  Similarity=0.330  Sum_probs=99.2

Q ss_pred             CCCCCCChHHHHHHHHHHHHhhhhhcCCccccccccCCCCC--CCCccccccCCccchHHHHHHHhcCCCCChhhHHHHH
Q psy15468         93 PKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKR--QEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADI  170 (653)
Q Consensus        93 ~~~~~~~~~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~--~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~  170 (653)
                      ++++..+.+..|..||+.|.+++..   .+|+||+.||+..  .+||||+||++||||+||++||++|.           
T Consensus        16 k~~~~~~~l~~c~~il~~L~~~~~~---~~a~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kl~~~~-----------   81 (130)
T 2ouo_A           16 KSSKVSEQLKCCSGILKEMFAKKHA---AYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEARE-----------   81 (130)
T ss_dssp             ---CHHHHHHHHHHHHHHHTSGGGH---HHHGGGSSCCCTTSTTCTTHHHHCSSCCCHHHHHHHHHTTC-----------
T ss_pred             CCcccHHHHHHHHHHHHHHHhCCcc---hhHHHhcCCCChhhccCCcHHHHcCCCCCHHHHHHHHHcCC-----------
Confidence            3444457788999999999887642   3589999999864  59999999999999999999999999           


Q ss_pred             HHHhhcCCchHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccC
Q psy15468        171 ELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLN  240 (653)
Q Consensus       171 ~l~~~~~P~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~  240 (653)
                                            |.++++|.+||+|||+||.+||+++|.++++|..|.+.|.+.+.++..
T Consensus        82 ----------------------Y~s~~ef~~Dv~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~lp~  129 (130)
T 2ouo_A           82 ----------------------YRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPD  129 (130)
T ss_dssp             ----------------------CSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHTSCC
T ss_pred             ----------------------CCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHCCC
Confidence                                  999999999999999999999999999999999999999999988753

>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=99.90  E-value=2.3e-23  Score=187.65  Aligned_cols=103  Identities=27%  Similarity=0.415  Sum_probs=97.3

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy15468        457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDN  536 (653)
Q Consensus       457 ~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~N  536 (653)
                      ..|...|..+++.|++       +..+++|..||+...+||||++|++||||++|++||++|.|.++++|.+||+|||.|
T Consensus         6 ~~l~~~~~~il~~l~~-------~~~~~~F~~pvd~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~N   78 (112)
T 3d7c_A            6 DQLYTTLKNLLAQIKS-------HPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIAN   78 (112)
T ss_dssp             HHHHHHHHHHHHHHHH-------SGGGGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHc-------CCCchhhcCCCCcccccCHHHHccCCcCHHHHHHHHcCCCCcCHHHHHHHHHHHHHH
Confidence            3678889999999987       567999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCCCCHHHHHHHHHHHHHHHHHHhhc
Q psy15468        537 ACKYNEPDSHIYKDALSLQRIVLQTKMHLR  566 (653)
Q Consensus       537 a~~YN~~~S~iy~dA~~L~~~~~~~~~eL~  566 (653)
                      |++||+++|.+|.+|..|+++|++.+.++.
T Consensus        79 a~~yN~~~s~~~~~A~~L~~~f~~~~~~~~  108 (112)
T 3d7c_A           79 CREYNPPDSEYCRCASALEKFFYFKLKEGG  108 (112)
T ss_dssp             HHHHSCTTSHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHCC
Confidence            999999999999999999999999998775

>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=99.90  E-value=2e-23  Score=192.12  Aligned_cols=107  Identities=17%  Similarity=0.313  Sum_probs=94.3

Q ss_pred             CCCCChHH-HHHHHHHHHHhhhhhcCCccccccccCCCC--CCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHH
Q psy15468         95 RKKIDPSD-AMQQIYDVIRNFKKEDGALLCDPFIRIPKK--RQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIE  171 (653)
Q Consensus        95 ~~~~~~~~-~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~--~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~  171 (653)
                      +|..+.+. +|+.|++.|.+++      .+++|..||+.  ..+||||+||++||||+||++||++|.            
T Consensus        16 ~r~~~~l~~~~~~il~~L~~~~------~a~~F~~PVd~~~~~~pdY~~iIk~PmdL~tI~~kl~~~~------------   77 (127)
T 2oss_A           16 KRQTNQLQYLLRVVLKTLWKHQ------FAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNY------------   77 (127)
T ss_dssp             CCCCHHHHHHHHTHHHHHHTST------TCGGGSSCCCTTTTTCTTHHHHCSSCCCHHHHHHHHHTTC------------
T ss_pred             cccHHHHHHHHHHHHHHHHhCc------cchhhcCCCChhhccCccHHHHcCCCCCHHHHHHHHHcCC------------
Confidence            33444443 4566777777654      49999999984  599999999999999999999999999            


Q ss_pred             HHhhcCCchHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccC
Q psy15468        172 LLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLN  240 (653)
Q Consensus       172 l~~~~~P~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~  240 (653)
                                           |.++++|.+|++|||+||..||+++|.++.+|..|++.|.+.+.++..
T Consensus        78 ---------------------Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~lp~  125 (127)
T 2oss_A           78 ---------------------YWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELPT  125 (127)
T ss_dssp             ---------------------CSSHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTTCCC
T ss_pred             ---------------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCC
Confidence                                 999999999999999999999999999999999999999999998854

>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=99.90  E-value=1.7e-23  Score=191.13  Aligned_cols=102  Identities=25%  Similarity=0.429  Sum_probs=96.6

Q ss_pred             HHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhh
Q psy15468        274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT  353 (653)
Q Consensus       274 ~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~  353 (653)
                      ....|..|++.|.++.      .+++|..||+...+|+||++|++||||+||++||++|.|.++++|.+||+|||.||++
T Consensus        14 ~~~~~~~il~~l~~~~------~a~~F~~pvd~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~   87 (121)
T 1e6i_A           14 HDAAIQNILTELQNHA------AAWPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRM   87 (121)
T ss_dssp             THHHHHHHHHHHHHST------TCGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCC------CchhhCCCCChhhCcCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            3678999999999875      4999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHHhhhc
Q psy15468        354 FNEPGSQIYKDAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       354 yN~~~S~i~~~A~~L~~~~~~~~~~i~~  381 (653)
                      ||+++|.+|.+|..|++.|++++.+++.
T Consensus        88 yN~~~s~i~~~A~~L~~~f~~~~~~~p~  115 (121)
T 1e6i_A           88 YNGENTSYYKYANRLEKFFNNKVKEIPE  115 (121)
T ss_dssp             HSCTTSHHHHHHHHHHHHHHHHHHTSGG
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHHHccc
Confidence            9999999999999999999999988753

>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=99.89  E-value=3.1e-23  Score=192.83  Aligned_cols=107  Identities=21%  Similarity=0.441  Sum_probs=102.7

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy15468        457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDN  536 (653)
Q Consensus       457 ~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~N  536 (653)
                      ..++..+..|+++|.+++|+.| |.+|.+|+++|++.  |+||.  ++||+|++|++||++|.|.++++|..||.+||.|
T Consensus         6 ~~lq~~l~~l~~~v~~~~De~G-R~lsd~F~~LPsk~--pdYY~--k~Pi~l~~Ikkri~~~~Y~sld~f~~D~~lmf~N   80 (147)
T 3iu6_A            6 LLIQELIHNLFVSVMSHQDDEG-RCYSDSLAEIPAVD--PNFPN--KPPLTFDIIRKNVENNRYRRLDLFQEHMFEVLER   80 (147)
T ss_dssp             CHHHHHHHHHHHHHHTCBCTTS-CBGGGGGTTCCSSC--TTSTT--SCCCCHHHHHHHHHTTCCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhcCCCC-CcchHHHhHCCCCC--ccccC--CCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence            3578889999999999999999 99999999999998  89998  9999999999999999999999999999999999


Q ss_pred             HhhhcCCCCHHHHHHHHHHHHHHHHHHhhcCC
Q psy15468        537 ACKYNEPDSHIYKDALSLQRIVLQTKMHLRED  568 (653)
Q Consensus       537 a~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~~  568 (653)
                      |++||.+||+||.||..||++|.+++.+|.++
T Consensus        81 Ar~yN~e~S~IyeDAv~Lq~~f~~~r~eL~~~  112 (147)
T 3iu6_A           81 ARRMNRTDSEIYEDAVELQQFFIKIRDELCKN  112 (147)
T ss_dssp             HHHHSCTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhCCCCCHHHHHHHHHHHHHHHHHHHHhhC
Confidence            99999999999999999999999999999874

>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=99.89  E-value=3e-23  Score=190.94  Aligned_cols=106  Identities=26%  Similarity=0.375  Sum_probs=96.8

Q ss_pred             ChHHHHHHHHHHHHHHhccCCCCccccccccccccc--CCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q psy15468        271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSK--KRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMT  348 (653)
Q Consensus       271 ~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~--~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf  348 (653)
                      .......|..|++.|+++..      +++|..||+.  ..+||||++|++||||+||++||++|.|.++++|.+||+|||
T Consensus        19 ~~~l~~~~~~il~~L~~~~~------a~~F~~PVd~~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~   92 (127)
T 2oss_A           19 TNQLQYLLRVVLKTLWKHQF------AWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMF   92 (127)
T ss_dssp             CHHHHHHHHTHHHHHHTSTT------CGGGSSCCCTTTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCcc------chhhcCCCChhhccCccHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            34456677889999987654      9999999985  489999999999999999999999999999999999999999


Q ss_pred             HhhhhhCCCCCHHHHHHHHHHHHHHHHHHhhhcC
Q psy15468        349 KNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQG  382 (653)
Q Consensus       349 ~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~~  382 (653)
                      .||++||+++|.||.+|..|++.|++++++++.+
T Consensus        93 ~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~lp~~  126 (127)
T 2oss_A           93 TNCYIYNKPGDDIVLMAEALEKLFLQKINELPTE  126 (127)
T ss_dssp             HHHHHHSCTTCHHHHHHHHHHHHHHHHHTTCCCC
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCCC
Confidence            9999999999999999999999999999988754

>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=99.89  E-value=1.9e-23  Score=190.70  Aligned_cols=101  Identities=23%  Similarity=0.464  Sum_probs=95.5

Q ss_pred             hHHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCc
Q psy15468        100 PSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPI  179 (653)
Q Consensus       100 ~~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~  179 (653)
                      ....|..|++.|.+++      .++||..||+...+||||+||++||||+||++||++|.                    
T Consensus        14 ~~~~~~~il~~l~~~~------~a~~F~~pvd~~~~pdY~~iIk~PmdL~tI~~kl~~~~--------------------   67 (121)
T 1e6i_A           14 HDAAIQNILTELQNHA------AAWPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNK--------------------   67 (121)
T ss_dssp             THHHHHHHHHHHHHST------TCGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTC--------------------
T ss_pred             HHHHHHHHHHHHHcCC------CchhhCCCCChhhCcCHHHHcCCCCCHHHHHHHHhcCC--------------------
Confidence            4688999999998764      49999999999999999999999999999999999999                    


Q ss_pred             hHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhcc
Q psy15468        180 DFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLL  239 (653)
Q Consensus       180 d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~  239 (653)
                                   |.++++|..|++|||+||..||+++|.++++|..|++.|.+.+.+++
T Consensus        68 -------------Y~s~~~f~~D~~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~p  114 (121)
T 1e6i_A           68 -------------YQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEIP  114 (121)
T ss_dssp             -------------CSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHTSG
T ss_pred             -------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHcc
Confidence                         99999999999999999999999999999999999999999998764

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

Probab=99.89  E-value=4.1e-23  Score=188.52  Aligned_cols=102  Identities=18%  Similarity=0.298  Sum_probs=95.8

Q ss_pred             HHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhh
Q psy15468        273 DEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC  352 (653)
Q Consensus       273 ~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~  352 (653)
                      .....|..||+.|+++..      +++|..||+...+|+||++|++||||+||++||+++.|.++++|.+||+|||.||+
T Consensus         7 pl~~~l~~il~~l~~~~~------~~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~   80 (121)
T 2d9e_A            7 GFLILLRKTLEQLQEKDT------GNIFSEPVPLSEVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCL   80 (121)
T ss_dssp             HHHHHHHHHHHHHHHHCS------SCSSSSCCCTTTCTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCc------cHhhCCcCCccccCCHHHHcCCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            345789999999998765      99999999999999999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        353 TFNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       353 ~yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      .||+++|.+|.+|..|++.|+..+.++.
T Consensus        81 ~yN~~~s~~~~~A~~L~~~~~~~l~~~~  108 (121)
T 2d9e_A           81 KYNAKDTIFYRAAVRLREQGGAVLRQAR  108 (121)
T ss_dssp             HHSCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999998887654

>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=99.89  E-value=3.3e-23  Score=196.76  Aligned_cols=108  Identities=23%  Similarity=0.322  Sum_probs=99.2

Q ss_pred             CChHHHHHHHHHHHHHHhccCCCCcccccccccccccC--CCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHH
Q psy15468        270 CTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKK--RYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILM  347 (653)
Q Consensus       270 ~~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~--~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lm  347 (653)
                      .+......|..|++.|.++..      +++|.+||+..  ++|+||++|++||||+||++||+++.|.++++|.+||+||
T Consensus        29 ~t~~l~~~~~~il~~l~~~~~------a~~F~~PVd~~~~~~PdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~~Dv~Li  102 (154)
T 4alg_A           29 VTNQLQYLHKVVMKALWKHQF------AWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTM  102 (154)
T ss_dssp             CBHHHHHHHHTHHHHHHTSTT------CGGGSSCCCTTTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHhCcC------chhhcCCCChhhccCCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHH
Confidence            344556777888899988754      99999999976  7999999999999999999999999999999999999999


Q ss_pred             HHhhhhhCCCCCHHHHHHHHHHHHHHHHHHhhhcCC
Q psy15468        348 TKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGK  383 (653)
Q Consensus       348 f~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~~~  383 (653)
                      |.||++||+++|.||.+|..|+++|++.+++++...
T Consensus       103 f~Na~~YN~~~s~i~~~A~~L~~~f~~~~~~l~~~~  138 (154)
T 4alg_A          103 FTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQEE  138 (154)
T ss_dssp             HHHHHHHSCTTSHHHHHHHHHHHHHHHHHTTSCSSC
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCchh
Confidence            999999999999999999999999999999988665

>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=99.89  E-value=2.7e-23  Score=188.41  Aligned_cols=101  Identities=20%  Similarity=0.393  Sum_probs=95.7

Q ss_pred             hHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhh
Q psy15468        272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNA  351 (653)
Q Consensus       272 ~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na  351 (653)
                      ++..+.|..+++.|+++.+      +++|..||+...+|+||++|++||||+||++||++|.|.++++|..||+|||.||
T Consensus        15 ~~~~~~~~~il~~l~~~~~------s~~F~~pv~~~~~pdY~~~I~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~Na   88 (116)
T 3nxb_A           15 DDDFTAMYKVLDVVKAHKD------SWPFLEPVDESYAPNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNC   88 (116)
T ss_dssp             CCHHHHHHHHHHHHHHSTT------CGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCC------cHhhcCcCChhhccChHHHcCCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Confidence            3457899999999999876      9999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhCCCCCHHHHHHHHHHHHHHHHHHh
Q psy15468        352 CTFNEPGSQIYKDAKALKKLVQTKKME  378 (653)
Q Consensus       352 ~~yN~~~S~i~~~A~~L~~~~~~~~~~  378 (653)
                      ..||+++|.++.+|..|+++|++.+.+
T Consensus        89 ~~yN~~~s~~~~~A~~L~~~f~~~~~k  115 (116)
T 3nxb_A           89 RKYNGESSEYTKMSDNLERCFHRAMMK  115 (116)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHhh
Confidence            999999999999999999999988753

>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=99.89  E-value=3e-23  Score=188.05  Aligned_cols=99  Identities=22%  Similarity=0.434  Sum_probs=91.7

Q ss_pred             hHHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCc
Q psy15468        100 PSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPI  179 (653)
Q Consensus       100 ~~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~  179 (653)
                      ....|..|++.|.+++.      +++|..||+...+||||+||++||||+||++||++|.                    
T Consensus        17 ~~~~~~~il~~l~~~~~------s~~F~~pv~~~~~pdY~~~I~~Pmdl~tI~~kl~~~~--------------------   70 (116)
T 3nxb_A           17 DFTAMYKVLDVVKAHKD------SWPFLEPVDESYAPNYYQIIKAPMDISSMEKKLNGGL--------------------   70 (116)
T ss_dssp             HHHHHHHHHHHHHHSTT------CGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTC--------------------
T ss_pred             HHHHHHHHHHHHHhCCC------cHhhcCcCChhhccChHHHcCCCCCHHHHHHHHcCCC--------------------
Confidence            35677788888877654      8999999999999999999999999999999999999                    


Q ss_pred             hHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhh
Q psy15468        180 DFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNK  237 (653)
Q Consensus       180 d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~  237 (653)
                                   |.++++|..||+|||.||..||+++|.++++|..|.+.|.+.+++
T Consensus        71 -------------Y~~~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~k  115 (116)
T 3nxb_A           71 -------------YCTKEEFVNDMKTMFRNCRKYNGESSEYTKMSDNLERCFHRAMMK  115 (116)
T ss_dssp             -------------CSSHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             -------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhh
Confidence                         999999999999999999999999999999999999999998763

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

Probab=99.89  E-value=3.7e-23  Score=189.40  Aligned_cols=104  Identities=30%  Similarity=0.509  Sum_probs=98.3

Q ss_pred             HHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhh
Q psy15468        273 DEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC  352 (653)
Q Consensus       273 ~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~  352 (653)
                      .-.+.|..|++.|+++.+      +++|..||+...+|+||++|++||||+||++||++|.|.++++|..||+|||.||+
T Consensus        10 ~~~~~c~~il~~l~~~~~------s~~F~~pv~~~~~pdY~~~I~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~   83 (123)
T 3q2e_A           10 NWKKQCKELVNLIFQCED------SEPFRQPVDLVEYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAK   83 (123)
T ss_dssp             CHHHHHHHHHHHHHTSGG------GGGGSSCCCTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCC------cHhhcCCCChhhcCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            347889999999999876      99999999999999999999999999999999999999999999999999999999


Q ss_pred             hhCCC-CCHHHHHHHHHHHHHHHHHHhhhcC
Q psy15468        353 TFNEP-GSQIYKDAKALKKLVQTKKMEIEQG  382 (653)
Q Consensus       353 ~yN~~-~S~i~~~A~~L~~~~~~~~~~i~~~  382 (653)
                      .||++ +|.||.+|..|+++|++.+.++...
T Consensus        84 ~yN~~~~s~i~~~A~~L~~~f~~~~~~~~~~  114 (123)
T 3q2e_A           84 AYTPNKRSKIYSMTLRLSALFEEKMKKISSD  114 (123)
T ss_dssp             HHSCCTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99996 9999999999999999999988643

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

Probab=99.89  E-value=4.7e-23  Score=188.11  Aligned_cols=105  Identities=25%  Similarity=0.416  Sum_probs=97.8

Q ss_pred             CHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHH
Q psy15468        456 TAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFD  535 (653)
Q Consensus       456 ~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~  535 (653)
                      ..+++..|+.+++.|++       +..+++|.+||+...+|+||++|++||||++|++||+++.|.++++|.+||+|||.
T Consensus         5 ~~pl~~~l~~il~~l~~-------~~~~~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~   77 (121)
T 2d9e_A            5 SSGFLILLRKTLEQLQE-------KDTGNIFSEPVPLSEVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVS   77 (121)
T ss_dssp             CCHHHHHHHHHHHHHHH-------HCSSCSSSSCCCTTTCTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHc-------CCccHhhCCcCCccccCCHHHHcCCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Confidence            35788999999999997       44689999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        536 NACKYNEPDSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       536 Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      ||++||+++|.+|.+|..|++.|...+.++..
T Consensus        78 Na~~yN~~~s~~~~~A~~L~~~~~~~l~~~~~  109 (121)
T 2d9e_A           78 NCLKYNAKDTIFYRAAVRLREQGGAVLRQARR  109 (121)
T ss_dssp             HHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999888776654

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

Probab=99.89  E-value=5.1e-23  Score=191.47  Aligned_cols=105  Identities=27%  Similarity=0.489  Sum_probs=99.1

Q ss_pred             ChHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHh
Q psy15468        271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN  350 (653)
Q Consensus       271 ~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~N  350 (653)
                      ...-.+.|..|++.|..+.+      +++|..||+...+||||++|++||||+||++||++|.|.++++|..||+|||.|
T Consensus        19 ~~~l~~~~~~il~~l~~~~~------s~~F~~pv~~~~~pdY~~iI~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~N   92 (135)
T 3mb3_A           19 IQAWKKQCEELLNLIFQCED------SEPFRQPVDLLEYPDYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSN   92 (135)
T ss_dssp             SSTHHHHHHHHHHHHHHSGG------GGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCC------ChhhcCCCChhhCCCHHHHhCCCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHH
Confidence            34567899999999999876      999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhCCC-CCHHHHHHHHHHHHHHHHHHhhhc
Q psy15468        351 ACTFNEP-GSQIYKDAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       351 a~~yN~~-~S~i~~~A~~L~~~~~~~~~~i~~  381 (653)
                      |..||++ +|.||.+|..|+++|++.+.++..
T Consensus        93 a~~yN~~~~s~i~~~A~~L~~~f~~~~~~~~~  124 (135)
T 3mb3_A           93 SKAYTPSKRSRIYSMSLRLSAFFEEHISSVLS  124 (135)
T ss_dssp             HHHHSCCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999998 999999999999999999988753

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

Probab=99.89  E-value=5.9e-23  Score=186.30  Aligned_cols=104  Identities=23%  Similarity=0.399  Sum_probs=96.5

Q ss_pred             CHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHH
Q psy15468        456 TAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFD  535 (653)
Q Consensus       456 ~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~  535 (653)
                      .++++..|..+++.|++       +..+++|..||+...+||||++|++||||++|++||++|.|.|+++|.+||+|||.
T Consensus         6 ~~~l~~~l~~il~~L~~-------~~~~~~F~~PVd~~~~pdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~~Dv~Li~~   78 (117)
T 2i7k_A            6 QTPLQEALNQLMRQLQR-------KDPSAFFSFPVTDFIAPGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCT   78 (117)
T ss_dssp             HHHHHHHHHHHHHHHHT-------SSGGGTSSSCCCTTTSSSHHHHCSCCCCHHHHHHHHTTTSCCSHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHh-------CcccHHhcCCCCccccCCHHHHhCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            35788999999999986       44688999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCHHHHHHHHHHHHHHHHHHhhc
Q psy15468        536 NACKYNEPDSHIYKDALSLQRIVLQTKMHLR  566 (653)
Q Consensus       536 Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~  566 (653)
                      ||++||+++|.+|++|..|++.|.+.+....
T Consensus        79 Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~~  109 (117)
T 2i7k_A           79 NAMIYNKPETIYYKAAKKLLHSGMKILSQER  109 (117)
T ss_dssp             HHHHTSCSSSSHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999998887553

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

Probab=99.88  E-value=5e-23  Score=186.75  Aligned_cols=101  Identities=23%  Similarity=0.362  Sum_probs=94.6

Q ss_pred             HHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhh
Q psy15468        274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT  353 (653)
Q Consensus       274 ~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~  353 (653)
                      ....|..|++.|++...      +++|..||+...+|+||++|++||||+||++||++|.|.++++|.+||+|||.||.+
T Consensus         9 l~~~l~~il~~L~~~~~------~~~F~~PVd~~~~pdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~~Dv~Li~~Na~~   82 (117)
T 2i7k_A            9 LQEALNQLMRQLQRKDP------SAFFSFPVTDFIAPGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMI   82 (117)
T ss_dssp             HHHHHHHHHHHHHTSSG------GGTSSSCCCTTTSSSHHHHCSCCCCHHHHHHHHTTTSCCSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcc------cHHhcCCCCccccCCHHHHhCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence            36788999999987654      899999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        354 FNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       354 yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      ||+++|.+|.+|..|++.|.+.+....
T Consensus        83 yN~~~s~i~~~A~~L~~~f~~~~~~~~  109 (117)
T 2i7k_A           83 YNKPETIYYKAAKKLLHSGMKILSQER  109 (117)
T ss_dssp             TSCSSSSHHHHHHHHHHHHHHHHHHHT
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999887654

>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=99.88  E-value=5e-23  Score=195.54  Aligned_cols=113  Identities=16%  Similarity=0.272  Sum_probs=97.0

Q ss_pred             CCCCCCCChHHH-HHHHHHHHHhhhhhcCCccccccccCCCCC--CCCccccccCCccchHHHHHHHhcCCCCChhhHHH
Q psy15468         92 RPKRKKIDPSDA-MQQIYDVIRNFKKEDGALLCDPFIRIPKKR--QEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQA  168 (653)
Q Consensus        92 ~~~~~~~~~~~~-~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~--~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~  168 (653)
                      +++.+.++.+.. |+.|++.|..++      .++||+.||+..  .+||||+||++||||+||++||+++.         
T Consensus        24 ~~~~r~t~~l~~~~~~il~~l~~~~------~a~~F~~PVd~~~~~~PdY~~iIk~PMDL~tI~~kl~~~~---------   88 (154)
T 4alg_A           24 KKPGRVTNQLQYLHKVVMKALWKHQ------FAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNY---------   88 (154)
T ss_dssp             --CCCCBHHHHHHHHTHHHHHHTST------TCGGGSSCCCTTTTTCTTHHHHCSSCCCHHHHHHHHHTTC---------
T ss_pred             CCCCcchHHHHHHHHHHHHHHHhCc------CchhhcCCCChhhccCCCHHHHcCCCCCHHHHHHHHhcCC---------
Confidence            334444555544 466777777764      499999999976  79999999999999999999999999         


Q ss_pred             HHHHHhhcCCchHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccCCCC
Q psy15468        169 DIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNPQS  243 (653)
Q Consensus       169 d~~l~~~~~P~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~~~~  243 (653)
                                              |.++++|..||+|||.||..||+++|.++++|..|++.|.+.++++.....
T Consensus        89 ------------------------Y~s~~ef~~Dv~Lif~Na~~YN~~~s~i~~~A~~L~~~f~~~~~~l~~~~~  139 (154)
T 4alg_A           89 ------------------------YWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQEEQ  139 (154)
T ss_dssp             ------------------------CSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHTTSCSSCC
T ss_pred             ------------------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCchhc
Confidence                                    999999999999999999999999999999999999999999999865433

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

Probab=99.88  E-value=7.2e-23  Score=190.49  Aligned_cols=101  Identities=18%  Similarity=0.404  Sum_probs=95.0

Q ss_pred             hHHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCc
Q psy15468        100 PSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPI  179 (653)
Q Consensus       100 ~~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~  179 (653)
                      -...|..|++.|..++.      +++|..||+...+||||+||++||||+||++||++|.                    
T Consensus        22 l~~~~~~il~~l~~~~~------s~~F~~pv~~~~~pdY~~iI~~Pmdl~tI~~kl~~~~--------------------   75 (135)
T 3mb3_A           22 WKKQCEELLNLIFQCED------SEPFRQPVDLLEYPDYRDIIDTPMDFATVRETLEAGN--------------------   75 (135)
T ss_dssp             HHHHHHHHHHHHHHSGG------GGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTC--------------------
T ss_pred             HHHHHHHHHHHHHhCCC------ChhhcCCCChhhCCCHHHHhCCCcCHHHHHHHHhCCC--------------------
Confidence            45678899999988765      9999999999999999999999999999999999999                    


Q ss_pred             hHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccC-CCHHHHHHHHHHHHHHHHhhhcc
Q psy15468        180 DFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKR-NSQEHRDAQELMELFHSTRNKLL  239 (653)
Q Consensus       180 d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~-~s~~~~~a~~l~~~~~~~~~~~~  239 (653)
                                   |.++++|..||.|||.||..||++ +|.++.+|..|.+.|.+.+.+++
T Consensus        76 -------------Y~~~~~f~~D~~li~~Na~~yN~~~~s~i~~~A~~L~~~f~~~~~~~~  123 (135)
T 3mb3_A           76 -------------YESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEEHISSVL  123 (135)
T ss_dssp             -------------CSSHHHHHHHHHHHHHHHHHHSCCTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -------------CCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence                         999999999999999999999998 89999999999999999998764

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

Probab=99.88  E-value=1.3e-22  Score=185.87  Aligned_cols=103  Identities=24%  Similarity=0.364  Sum_probs=97.4

Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q psy15468        458 ASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA  537 (653)
Q Consensus       458 ~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na  537 (653)
                      .|+++|..+++.|..       +..+++|.+||+...+||||++|++||||++|++||++|.|.++++|.+||+|||.||
T Consensus        10 ~~~~~c~~il~~l~~-------~~~s~~F~~pv~~~~~pdY~~~I~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na   82 (123)
T 3q2e_A           10 NWKKQCKELVNLIFQ-------CEDSEPFRQPVDLVEYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNA   82 (123)
T ss_dssp             CHHHHHHHHHHHHHT-------SGGGGGGSSCCCTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh-------CCCcHhhcCCCChhhcCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Confidence            578899999999987       4568999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcCC-CCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        538 CKYNEP-DSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       538 ~~YN~~-~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      ++||++ +|.+|.+|..|+++|++.+.++..
T Consensus        83 ~~yN~~~~s~i~~~A~~L~~~f~~~~~~~~~  113 (123)
T 3q2e_A           83 KAYTPNKRSKIYSMTLRLSALFEEKMKKISS  113 (123)
T ss_dssp             HHHSCCTTSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            999996 999999999999999999998865

>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=6.7e-23  Score=200.45  Aligned_cols=99  Identities=20%  Similarity=0.354  Sum_probs=90.8

Q ss_pred             HHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhc--CCCCChhhHHHHHHHHhhcCC
Q psy15468        101 SDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKT--DEYDDLSDFQADIELLVVTNP  178 (653)
Q Consensus       101 ~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~--~~y~~~~~~~~d~~l~~~~~P  178 (653)
                      ...|+.||..|..++.      +++|..||+. .+||||+||++||||+||++||++  +.                   
T Consensus        83 ~~~c~~il~~l~~~~~------s~~F~~Pv~~-~~pdY~~iIk~PmdL~tI~~kl~~~~~~-------------------  136 (184)
T 3o36_A           83 KRKCERLLLFLYCHEM------SLAFQDPVPL-TVPDYYKIIKNPMDLSTIKKRLQEDYSM-------------------  136 (184)
T ss_dssp             HHHHHHHHHHHHHSTT------CHHHHSCCCT-TSTTHHHHCSSCCCHHHHHHHHHSTTCS-------------------
T ss_pred             HHHHHHHHHHHHhchh------hhhhcccccc-CCCchhhhcCCCCCHHHHHHHHHhcCCC-------------------
Confidence            3568888888887754      8999999985 599999999999999999999998  67                   


Q ss_pred             chHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhcc
Q psy15468        179 IDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLL  239 (653)
Q Consensus       179 ~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~  239 (653)
                                    |.++++|.+||+|||.||..||+++|.++++|..|.+.|.+.++++.
T Consensus       137 --------------Y~s~~ef~~Dv~li~~Na~~yN~~~s~v~~~a~~L~~~f~~~~~~~~  183 (184)
T 3o36_A          137 --------------YSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNLY  183 (184)
T ss_dssp             --------------CCSHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             --------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHhC
Confidence                          99999999999999999999999999999999999999999988764

>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=99.88  E-value=1e-22  Score=185.46  Aligned_cols=111  Identities=22%  Similarity=0.421  Sum_probs=100.1

Q ss_pred             CCCCCChHHHHHHHHHHHHhhhhhcCCccccccccCCCCC--CCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHH
Q psy15468         94 KRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKR--QEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIE  171 (653)
Q Consensus        94 ~~~~~~~~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~--~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~  171 (653)
                      +|+..++.++.+.++..+..+...  .+.++||..||+..  .+||||+||++||||+||++||++|.            
T Consensus         3 r~~~~~~~el~~~l~~~l~~l~~~--~~~s~~F~~pv~~~~~~~pdY~~iI~~Pmdl~tI~~kl~~~~------------   68 (119)
T 3p1f_A            3 RKKIFKPEELRQALMPTLEALYRQ--DPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQ------------   68 (119)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHHHTC--TTTTGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTC------------
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHh--CCCCchhcCCCCchhccCCCHHHHhcCCCCHHHHHHHHhcCC------------
Confidence            456678888888888888776542  24599999999977  89999999999999999999999999            


Q ss_pred             HHhhcCCchHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhcc
Q psy15468        172 LLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLL  239 (653)
Q Consensus       172 l~~~~~P~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~  239 (653)
                                           |.++++|..|++|||+||..||+++|.++++|..|.+.|.+.+.++.
T Consensus        69 ---------------------Y~~~~~f~~D~~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~~  115 (119)
T 3p1f_A           69 ---------------------YQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVM  115 (119)
T ss_dssp             ---------------------CSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ---------------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence                                 99999999999999999999999999999999999999999988764

>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=99.88  E-value=5.8e-23  Score=187.29  Aligned_cols=108  Identities=25%  Similarity=0.362  Sum_probs=95.9

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCC--CCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHH
Q psy15468        457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHD--YPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMF  534 (653)
Q Consensus       457 ~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~--~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf  534 (653)
                      +...+.|..++..|....   + +.++++|..||+...  +||||++|++||||++|++||++|.|.++++|.+||+|||
T Consensus         8 ~~~l~~c~~il~~l~~~~---~-~~~a~~F~~pvd~~~~~~pdY~~iI~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~   83 (120)
T 3jvl_A            8 SEQLKCCSGILKEMFAKK---H-AAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMF   83 (120)
T ss_dssp             CHHHHHHHHHHHHHTSGG---G-HHHHGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCc---C-ccccchhcCCCCchhcCCCCHHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHH
Confidence            355666777777766533   2 567999999999876  9999999999999999999999999999999999999999


Q ss_pred             HHHhhhcCCCCHHHHHHHHHHHHHHHHHHhhcCC
Q psy15468        535 DNACKYNEPDSHIYKDALSLQRIVLQTKMHLRED  568 (653)
Q Consensus       535 ~Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~~  568 (653)
                      .||++||+++|.+|.+|..|+++|++.+.+++.+
T Consensus        84 ~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~p~~  117 (120)
T 3jvl_A           84 SNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDE  117 (120)
T ss_dssp             HHHHHHSCTTSHHHHHHHHHHHHHHHHHTTCCC-
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCcCC
Confidence            9999999999999999999999999999988764

>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural genomics, NPPSFA; 2.50A {Homo sapiens}

Probab=99.88  E-value=2e-22  Score=187.41  Aligned_cols=107  Identities=27%  Similarity=0.450  Sum_probs=98.7

Q ss_pred             CChHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhC--CCCCCHHHHHHHHHHH
Q psy15468        270 CTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQD--GKYASLGDMEKDLILM  347 (653)
Q Consensus       270 ~~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~--~~Y~s~~ef~~Dv~Lm  347 (653)
                      .+..+.+.|..||..|+++.      .+++|+.|++. .+|+||++|++||||+||++||++  +.|.++++|.+||+||
T Consensus        17 m~p~~~~~c~~il~~L~~~~------~s~~F~~Pv~~-~~pdY~~iIk~PmDL~tI~~kL~~~~~~Y~s~~ef~~Dv~Li   89 (135)
T 2yyn_A           17 LTPIDKRKCERLLLFLYCHE------MSLAFQDPVPL-TVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLI   89 (135)
T ss_dssp             CCHHHHHHHHHHHHHHHTSG------GGGGGSSCCCT-TSTTHHHHCSSCCCHHHHHHHHHSSSCCCSSHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhCc------cchhhcCCCcc-cCCCHHHHcCCCCCHHHHHHHHhccccCCCCHHHHHHHHHHH
Confidence            35567899999999999865      49999998877 799999999999999999999998  5999999999999999


Q ss_pred             HHhhhhhCCCCCHHHHHHHHHHHHHHHHHHhhhcCC
Q psy15468        348 TKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGK  383 (653)
Q Consensus       348 f~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~~~  383 (653)
                      |.||++||+++|.||.+|..|+++|++.+.++.+..
T Consensus        90 f~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~~~~~  125 (135)
T 2yyn_A           90 FQNCAEFNEPDSEVANAGIKLENYFEELLKNLYPEK  125 (135)
T ss_dssp             HHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHSSSC
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999999999999999999999987553

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

Probab=99.88  E-value=1.7e-22  Score=192.58  Aligned_cols=111  Identities=28%  Similarity=0.389  Sum_probs=101.8

Q ss_pred             CChHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q psy15468        270 CTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTK  349 (653)
Q Consensus       270 ~~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~  349 (653)
                      ..+++...|..+|..|...+- .+++.+++|..||+...+|+||++|++||||+||++||+++.|.++++|..||+|||.
T Consensus        22 ~~~d~~~~l~~iL~~i~~~kl-~~~~~s~~F~~PVd~~~~PdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~~Dv~Lif~  100 (158)
T 3uv4_A           22 SMDDDQVAFSFILDNIVTQKM-MAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILA  100 (158)
T ss_dssp             CCSHHHHHHHHHHHHHHHHTT-TTSTTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHH
T ss_pred             cCCchHHHHHHHHHHHHHHHH-HcCCCchhhcCcCChhhcccHHHHcCCccCHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            345668899999999887543 4567899999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhhCCCCCHHHHHHHHHHHHHHHHHHhhhc
Q psy15468        350 NACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       350 Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~  381 (653)
                      ||++||+++|.||.+|..|.++|...+.++..
T Consensus       101 Na~~yN~~~s~i~~~A~~L~~~~~~~l~e~~~  132 (158)
T 3uv4_A          101 NSVKYNGPESQYTKTAQEIVNVCYQTLTEYDE  132 (158)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHHHHHHTHH
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999888753

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

Probab=99.88  E-value=1.4e-22  Score=185.53  Aligned_cols=99  Identities=18%  Similarity=0.353  Sum_probs=91.8

Q ss_pred             hHHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCc
Q psy15468        100 PSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPI  179 (653)
Q Consensus       100 ~~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~  179 (653)
                      -..+|..|++.|..+..      +++|..||+...+||||+||++||||+||++||++|.                    
T Consensus        14 ~~~~l~~il~~l~~~~~------~~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~--------------------   67 (123)
T 3hme_A           14 IQQLLEHFLRQLQRKDP------HGFFAFPVTDAIAPGYSMIIKHPMDFGTMKDKIVANE--------------------   67 (123)
T ss_dssp             HHHHHHHHHHHHHTTCT------TCSSSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTC--------------------
T ss_pred             HHHHHHHHHHHHHhCCc------cHhhcCCCChhhccCHHHHCCCCCCHHHHHHHhccCC--------------------
Confidence            34678888888887643      8999999999999999999999999999999999999                    


Q ss_pred             hHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhh
Q psy15468        180 DFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNK  237 (653)
Q Consensus       180 d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~  237 (653)
                                   |.++++|..|++|||+||..||+++|.++++|..|.+.|.+.+.+
T Consensus        68 -------------Y~~~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~~~~~~~~  112 (123)
T 3hme_A           68 -------------YKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKILHAGFKMMSK  112 (123)
T ss_dssp             -------------CCSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTCH
T ss_pred             -------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH
Confidence                         999999999999999999999999999999999999999987764

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

Probab=99.87  E-value=1.8e-22  Score=184.88  Aligned_cols=100  Identities=25%  Similarity=0.367  Sum_probs=94.1

Q ss_pred             HHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhh
Q psy15468        273 DEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC  352 (653)
Q Consensus       273 ~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~  352 (653)
                      ...+.|..+++.|.++..      +++|..||+...+||||++|++||||+||++||++|.|.++++|..||+|||.||.
T Consensus        13 p~~~~l~~il~~l~~~~~------~~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~   86 (123)
T 3hme_A           13 PIQQLLEHFLRQLQRKDP------HGFFAFPVTDAIAPGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAM   86 (123)
T ss_dssp             HHHHHHHHHHHHHHTTCT------TCSSSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCc------cHhhcCCCChhhccCHHHHCCCCCCHHHHHHHhccCCCCCHHHHHHHHHHHHHHHH
Confidence            346789999999998765      89999999999999999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHHh
Q psy15468        353 TFNEPGSQIYKDAKALKKLVQTKKME  378 (653)
Q Consensus       353 ~yN~~~S~i~~~A~~L~~~~~~~~~~  378 (653)
                      .||+++|.+|.+|..|.+.|.+.+.+
T Consensus        87 ~yN~~~s~~~~~A~~L~~~~~~~~~~  112 (123)
T 3hme_A           87 TYNRPDTVYYKLAKKILHAGFKMMSK  112 (123)
T ss_dssp             HHSCTTSHHHHHHHHHHHHHHHHTCH
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999887654

>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=99.87  E-value=2.6e-22  Score=182.74  Aligned_cols=103  Identities=23%  Similarity=0.403  Sum_probs=94.9

Q ss_pred             HHHHHHHHHHHHHHhccCCCCcccccccccccccC--CCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHh
Q psy15468        273 DEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKK--RYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN  350 (653)
Q Consensus       273 ~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~--~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~N  350 (653)
                      +..+.|..++..|...     ++.+++|.+||+..  ++|+||++|++||||+||++||++|.|.++++|.+||+|||.|
T Consensus        11 el~~~l~~~l~~l~~~-----~~~s~~F~~pv~~~~~~~pdY~~iI~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~N   85 (119)
T 3p1f_A           11 ELRQALMPTLEALYRQ-----DPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNN   85 (119)
T ss_dssp             HHHHHHHHHHHHHHTC-----TTTTGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHh-----CCCCchhcCCCCchhccCCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence            3467888999998863     24599999999986  8999999999999999999999999999999999999999999


Q ss_pred             hhhhCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        351 ACTFNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       351 a~~yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      |.+||+++|.+|.+|..|+++|++.+.++.
T Consensus        86 a~~yN~~~s~i~~~A~~L~~~f~~~~~~~~  115 (119)
T 3p1f_A           86 AWLYNRKTSRVYKFCSKLAEVFEQEIDPVM  115 (119)
T ss_dssp             HHHHSCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999988764

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

Probab=99.87  E-value=2.9e-22  Score=186.35  Aligned_cols=102  Identities=21%  Similarity=0.352  Sum_probs=96.2

Q ss_pred             HHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhh
Q psy15468        273 DEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC  352 (653)
Q Consensus       273 ~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~  352 (653)
                      .....|..+++.|.++..      +++|..||+...+|+||++|++||||+||++||++|.|.++++|.+||+|||.||.
T Consensus        13 ~l~~~l~~il~~l~~~~~------~~~F~~pv~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~   86 (135)
T 3rcw_A           13 PLTVLLRSVLDQLQDKDP------ARIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCM   86 (135)
T ss_dssp             HHHHHHHHHHHHHHHTCT------TCSSSSCCCTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCc------chhhcCCCChhhcCCHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            456889999999999865      99999999999999999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        353 TFNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       353 ~yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      .||+++|.+|.+|..|.+.|...+++..
T Consensus        87 ~yN~~~s~~~~~A~~L~~~~~~~~~~~~  114 (135)
T 3rcw_A           87 KYNARDTVFYRAAVRLRDQGGVVLRQAR  114 (135)
T ss_dssp             HHSCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999998887653

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

Probab=99.87  E-value=3.9e-22  Score=185.51  Aligned_cols=105  Identities=25%  Similarity=0.435  Sum_probs=97.9

Q ss_pred             CHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHH
Q psy15468        456 TAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFD  535 (653)
Q Consensus       456 ~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~  535 (653)
                      .+++...|+.+++.|.+       +..+++|..||+...+||||++|++||||++|++||++|.|.++++|.+||+|||.
T Consensus        11 ~~~l~~~l~~il~~l~~-------~~~~~~F~~pv~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~   83 (135)
T 3rcw_A           11 LTPLTVLLRSVLDQLQD-------KDPARIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIID   83 (135)
T ss_dssp             CCHHHHHHHHHHHHHHH-------TCTTCSSSSCCCTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHh-------CCcchhhcCCCChhhcCCHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Confidence            35789999999999987       45689999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        536 NACKYNEPDSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       536 Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      ||++||+++|.+|++|..|++.|.+.+.++..
T Consensus        84 Na~~yN~~~s~~~~~A~~L~~~~~~~~~~~~~  115 (135)
T 3rcw_A           84 NCMKYNARDTVFYRAAVRLRDQGGVVLRQARR  115 (135)
T ss_dssp             HHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999888876654

>3fkm_X Signaling protein; bromodomain, malaria, structural genomics, structural genomi consortium, SGC; 2.50A {Plasmodium falciparum 3D7}

Probab=99.87  E-value=4.9e-22  Score=190.99  Aligned_cols=103  Identities=20%  Similarity=0.387  Sum_probs=94.4

Q ss_pred             hHHHHHHHHHHHHHHhccCCCCccccccccccccc--CCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q psy15468        272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSK--KRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTK  349 (653)
Q Consensus       272 ~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~--~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~  349 (653)
                      ......|..||..|+++..      +++|..||+.  ..+|+||++|++||||+||++||+++.|.++++|..||+|||.
T Consensus        20 ~~~~~~~~~il~~L~~~~~------s~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~Dv~Lif~   93 (166)
T 3fkm_X           20 KQWYLLANQLILSLSKYEG------GHIFEKLVDAKKQNCPDYYDVIKNPMSFSCIKTKLKKGQYAYPSEFVKDVQLIFD   93 (166)
T ss_dssp             HHHHHHHHHHHHHHTTSTT------GGGGSSCCC-----CCCGGGCCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCC------ChhhcCCCChhhccCCCHHHhcCCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHH
Confidence            4457899999999998765      9999999874  4799999999999999999999999999999999999999999


Q ss_pred             hhhhhCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        350 NACTFNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       350 Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      ||++||+++|.|+.+|..|+++|++.+.++.
T Consensus        94 Na~~yN~~~s~i~~~A~~L~~~f~~~l~~~~  124 (166)
T 3fkm_X           94 NCSLYNTSNSVVAITGKNIETYFNNQLIVMG  124 (166)
T ss_dssp             HHHHSSCTTSHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHcc
Confidence            9999999999999999999999999998875

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

Probab=99.86  E-value=5.2e-22  Score=189.17  Aligned_cols=106  Identities=25%  Similarity=0.361  Sum_probs=97.3

Q ss_pred             ChHHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCC
Q psy15468         99 DPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNP  178 (653)
Q Consensus        99 ~~~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P  178 (653)
                      ++...|..||+.|...+ -.+.+.++||+.||+...+||||+||++||||+||++||+++.                   
T Consensus        25 d~~~~l~~iL~~i~~~k-l~~~~~s~~F~~PVd~~~~PdY~~iIk~PMDL~tI~~kl~~~~-------------------   84 (158)
T 3uv4_A           25 DDQVAFSFILDNIVTQK-MMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHK-------------------   84 (158)
T ss_dssp             HHHHHHHHHHHHHHHHT-TTTSTTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTC-------------------
T ss_pred             chHHHHHHHHHHHHHHH-HHcCCCchhhcCcCChhhcccHHHHcCCccCHHHHHHHHHcCC-------------------
Confidence            67888999999887642 2334569999999999999999999999999999999999999                   


Q ss_pred             chHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhc
Q psy15468        179 IDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL  238 (653)
Q Consensus       179 ~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~  238 (653)
                                    |.++++|..||+|||+||..||+++|.++++|..|.+.|.+.+.++
T Consensus        85 --------------Y~s~~ef~~Dv~Lif~Na~~yN~~~s~i~~~A~~L~~~~~~~l~e~  130 (158)
T 3uv4_A           85 --------------YQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEY  130 (158)
T ss_dssp             --------------CSSHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHT
T ss_pred             --------------CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence                          9999999999999999999999999999999999999999988776

>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural genomics, NPPSFA; 2.50A {Homo sapiens}

Probab=99.86  E-value=1.5e-21  Score=181.43  Aligned_cols=103  Identities=27%  Similarity=0.481  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhc--CCCCCHHHHHHHHHHHHH
Q psy15468        458 ASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRY--NQYEHLDEMVADFIQMFD  535 (653)
Q Consensus       458 ~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~--~~Y~s~~ef~~D~~Lmf~  535 (653)
                      ...+.|..|+..|.+       +..+++|..|++. .+||||++|++||||++|++||++  +.|.++++|.+||+|||.
T Consensus        20 ~~~~~c~~il~~L~~-------~~~s~~F~~Pv~~-~~pdY~~iIk~PmDL~tI~~kL~~~~~~Y~s~~ef~~Dv~Lif~   91 (135)
T 2yyn_A           20 IDKRKCERLLLFLYC-------HEMSLAFQDPVPL-TVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQ   91 (135)
T ss_dssp             HHHHHHHHHHHHHHT-------SGGGGGGSSCCCT-TSTTHHHHCSSCCCHHHHHHHHHSSSCCCSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh-------CccchhhcCCCcc-cCCCHHHHcCCCCCHHHHHHHHhccccCCCCHHHHHHHHHHHHH
Confidence            456778889988875       5679999998776 799999999999999999999998  589999999999999999


Q ss_pred             HHhhhcCCCCHHHHHHHHHHHHHHHHHHhhcCC
Q psy15468        536 NACKYNEPDSHIYKDALSLQRIVLQTKMHLRED  568 (653)
Q Consensus       536 Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~~  568 (653)
                      ||++||+++|.+|.+|..|+++|++.+.++..+
T Consensus        92 Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~~~~  124 (135)
T 2yyn_A           92 NCAEFNEPDSEVANAGIKLENYFEELLKNLYPE  124 (135)
T ss_dssp             HHHHHSCTTSHHHHHHHHHHHHHHHHHHHHSSS
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHhccc
Confidence            999999999999999999999999999999875

>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=99.86  E-value=1.8e-21  Score=181.02  Aligned_cols=105  Identities=21%  Similarity=0.421  Sum_probs=100.1

Q ss_pred             HHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhh
Q psy15468        274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT  353 (653)
Q Consensus       274 ~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~  353 (653)
                      -...+..|++.|++++|++||.++.+|+++|+++  |+||.  ++||+|.+|++||++|.|+++++|..||.+||+||++
T Consensus         8 lq~~l~~l~~~v~~~~De~GR~lsd~F~~LPsk~--pdYY~--k~Pi~l~~Ikkri~~~~Y~sld~f~~D~~lmf~NAr~   83 (147)
T 3iu6_A            8 IQELIHNLFVSVMSHQDDEGRCYSDSLAEIPAVD--PNFPN--KPPLTFDIIRKNVENNRYRRLDLFQEHMFEVLERARR   83 (147)
T ss_dssp             HHHHHHHHHHHHHTCBCTTSCBGGGGGTTCCSSC--TTSTT--SCCCCHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhcCCCCCcchHHHhHCCCCC--ccccC--CCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            4678999999999999999999999999999998  89998  9999999999999999999999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHHhhhcC
Q psy15468        354 FNEPGSQIYKDAKALKKLVQTKKMEIEQG  382 (653)
Q Consensus       354 yN~~~S~i~~~A~~L~~~~~~~~~~i~~~  382 (653)
                      ||.+||+||.||..|+++|.....++...
T Consensus        84 yN~e~S~IyeDAv~Lq~~f~~~r~eL~~~  112 (147)
T 3iu6_A           84 MNRTDSEIYEDAVELQQFFIKIRDELCKN  112 (147)
T ss_dssp             HSCTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hCCCCCHHHHHHHHHHHHHHHHHHHHhhC
Confidence            99999999999999999999998887644

>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=99.86  E-value=8e-22  Score=196.31  Aligned_cols=100  Identities=19%  Similarity=0.376  Sum_probs=92.3

Q ss_pred             HHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhc---CCCCChhhHHHHHHHHhhcC
Q psy15468        101 SDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKT---DEYDDLSDFQADIELLVVTN  177 (653)
Q Consensus       101 ~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~---~~y~~~~~~~~d~~l~~~~~  177 (653)
                      ...|+.||..|..++      .+++|+.||+. .+||||+||++||||+||++||++   +.                  
T Consensus        83 ~~~c~~il~~l~~~~------~s~~F~~Pv~~-~~pdY~~iIk~PmdL~tI~~kl~~~~~~~------------------  137 (207)
T 3u5n_A           83 QRKCERLLLYLYCHE------LSIEFQEPVPA-SIPNYYKIIKKPMDLSTVKKKLQKKHSQH------------------  137 (207)
T ss_dssp             HHHHHHHHHHHHTST------TCGGGSSCCCT-TSTTHHHHCSSCCCHHHHHHHHSTTSTTC------------------
T ss_pred             HHHHHHHHHHHHhcc------chhhhhccCCh-hhccHhHHhCCccCHHHHHHHHhcccCCC------------------
Confidence            456788999988765      49999999986 899999999999999999999997   56                  


Q ss_pred             CchHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhcccc-----------------CCCHHHHHHHHHHHHHHHHhhhccC
Q psy15468        178 PIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYK-----------------RNSQEHRDAQELMELFHSTRNKLLN  240 (653)
Q Consensus       178 P~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~-----------------~~s~~~~~a~~l~~~~~~~~~~~~~  240 (653)
                                     |.++++|..||+|||+||..||+                 ++|.++++|.+|...|.+.++++..
T Consensus       138 ---------------Y~s~~~f~~Dv~li~~Na~~yN~~~s~v~~~A~~l~~~~~~~s~i~~~a~~L~~~fe~~~~~~~p  202 (207)
T 3u5n_A          138 ---------------YQIPDDFVADVRLIFKNCERFNEMMKVVQVYADTQEINLKADSEVAQAGKAVALYFEDKLTEIYS  202 (207)
T ss_dssp             ---------------CSSHHHHHHHHHHHHHHHHHHHHHHHHHC----------CCCCHHHHHHHHHHHHHHHHHHHHST
T ss_pred             ---------------cCCHHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHhcccccCHHHHHHHHHHHHHHHHHHHhCC
Confidence                           99999999999999999999999                 9999999999999999999998864

>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=99.85  E-value=8.1e-22  Score=190.99  Aligned_cols=105  Identities=23%  Similarity=0.365  Sum_probs=97.7

Q ss_pred             CChHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q psy15468        270 CTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTK  349 (653)
Q Consensus       270 ~~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~  349 (653)
                      .+..+.+.|..+|..|.++.      .+++|+.||+...+|+||++|++||||+||++||++|.|.++++|.+||+|||.
T Consensus        69 l~~~~~~~l~~il~~l~~~~------~~~~F~~pv~~~~~pdY~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~  142 (174)
T 2ri7_A           69 LTEKDYEGLKRVLRSLQAHK------MAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFD  142 (174)
T ss_dssp             CCHHHHHHHHHHHHHHHTSG------GGTTTSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTCCCBHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhhh------hhhhhhcCCCcccCCchHHHhCCcCCHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            34556789999999999865      499999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhhCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        350 NACTFNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       350 Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      ||++||+++|.+|.+|..|+++|+++++++.
T Consensus       143 Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~~  173 (174)
T 2ri7_A          143 NCRYYNPSDSPFYQCAEVLESFFVQKLKGFK  173 (174)
T ss_dssp             HHHHHSCTTSHHHHHHHHHHHHHHHHTTTCC
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHhcc
Confidence            9999999999999999999999999887653

>3fkm_X Signaling protein; bromodomain, malaria, structural genomics, structural genomi consortium, SGC; 2.50A {Plasmodium falciparum 3D7}

Probab=99.85  E-value=2.1e-21  Score=186.57  Aligned_cols=105  Identities=25%  Similarity=0.407  Sum_probs=95.0

Q ss_pred             CHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCC--CCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHH
Q psy15468        456 TAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSR--HDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQM  533 (653)
Q Consensus       456 ~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~--~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lm  533 (653)
                      ...|...|..|++.|.+       +..+++|..||+.  ..+|+||++|++||||++|++||+++.|.++++|.+||+||
T Consensus        19 ~~~~~~~~~~il~~L~~-------~~~s~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~Dv~Li   91 (166)
T 3fkm_X           19 NKQWYLLANQLILSLSK-------YEGGHIFEKLVDAKKQNCPDYYDVIKNPMSFSCIKTKLKKGQYAYPSEFVKDVQLI   91 (166)
T ss_dssp             THHHHHHHHHHHHHHTT-------STTGGGGSSCCC-----CCCGGGCCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHh-------CCCChhhcCCCChhhccCCCHHHhcCCCCCHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            56788889999998876       4568999999874  47999999999999999999999999999999999999999


Q ss_pred             HHHHhhhcCCCCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        534 FDNACKYNEPDSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       534 f~Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      |.||++||+++|.+|.+|..|+++|.+.+.++.-
T Consensus        92 f~Na~~yN~~~s~i~~~A~~L~~~f~~~l~~~~~  125 (166)
T 3fkm_X           92 FDNCSLYNTSNSVVAITGKNIETYFNNQLIVMGY  125 (166)
T ss_dssp             HHHHHHSSCTTSHHHHHHHHHHHHHHHHHHHTTH
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHccc
Confidence            9999999999999999999999999999988763

>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=8.2e-22  Score=193.37  Aligned_cols=97  Identities=13%  Similarity=0.297  Sum_probs=89.2

Q ss_pred             HHHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccC--CccchHHHHHHHhcC---CCCChhhHHHHHHHHhh
Q psy15468        101 SDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVT--NPIDFIKIQQKLKTD---EYDDLSDFQADIELLVV  175 (653)
Q Consensus       101 ~~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~--~PmDL~tI~~kl~~~---~y~~~~~~~~d~~l~~~  175 (653)
                      ...|+.||+.|..++      .++||++||+    |+||+||+  +||||+||++||+++   .                
T Consensus        78 ~~~c~~iL~~l~~~~------~s~pF~~pV~----~~Yy~iIk~~~PMDL~tIk~kL~~~~~~~----------------  131 (189)
T 2ro1_A           78 QRKCERVLLALFCHE------PCRPLHQLAT----DSTFSLDQPGGTLDLTLIRARLQEKLSPP----------------  131 (189)
T ss_dssp             HHHHHHHHHHHHHST------THHHHHSCSC----CTTCSSSCSSCCCCHHHHHHHHHTSSSSC----------------
T ss_pred             HHHHHHHHhhcccCc------cchhhcCCCC----hhhhccccCCCcccHHHHHHHHhcCCCcc----------------
Confidence            456889999998765      3999999998    89999998  899999999999999   8                


Q ss_pred             cCCchHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhccCC
Q psy15468        176 TNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKLLNP  241 (653)
Q Consensus       176 ~~P~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~~~~  241 (653)
                                       |.++++|++||+|||+||.+|| ++|.++++|..|++.|++.++++...
T Consensus       132 -----------------Y~s~~eF~~Dv~Lif~N~~~yN-~~s~~~~~a~~L~~~Fe~~~~~~~~~  179 (189)
T 2ro1_A          132 -----------------YSSPQEFAQDVGRMFKQFNKLT-EDKADVQSIIGLQRFFETRMNEAFGD  179 (189)
T ss_dssp             -----------------CSCHHHHHHHHHHHHHHHHHHC-CSSCSSHHHHHHHHHHHHHHHHHTTT
T ss_pred             -----------------cCCHHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHhcCc
Confidence                             9999999999999999999999 58889999999999999999988653

>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=99.84  E-value=3.8e-21  Score=186.28  Aligned_cols=104  Identities=28%  Similarity=0.527  Sum_probs=96.0

Q ss_pred             CHHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHH
Q psy15468        456 TAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFD  535 (653)
Q Consensus       456 ~~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~  535 (653)
                      .....+.|+.+++.|.+       +..+++|.+||+...+|+||++|++||||++|++||++|.|.++++|.+||+|||.
T Consensus        70 ~~~~~~~l~~il~~l~~-------~~~~~~F~~pv~~~~~pdY~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~  142 (174)
T 2ri7_A           70 TEKDYEGLKRVLRSLQA-------HKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFD  142 (174)
T ss_dssp             CHHHHHHHHHHHHHHHT-------SGGGTTTSSCCCTTTCHHHHHHCSSCCCHHHHHHHHHTTCCCBHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHh-------hhhhhhhhcCCCcccCCchHHHhCCcCCHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            34566778888888875       56799999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCHHHHHHHHHHHHHHHHHHhhc
Q psy15468        536 NACKYNEPDSHIYKDALSLQRIVLQTKMHLR  566 (653)
Q Consensus       536 Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~  566 (653)
                      ||++||+++|.+|++|..|+++|++.+.++.
T Consensus       143 Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~~  173 (174)
T 2ri7_A          143 NCRYYNPSDSPFYQCAEVLESFFVQKLKGFK  173 (174)
T ss_dssp             HHHHHSCTTSHHHHHHHHHHHHHHHHTTTCC
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHhcc
Confidence            9999999999999999999999998887764

>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=99.84  E-value=9.9e-21  Score=174.88  Aligned_cols=97  Identities=22%  Similarity=0.288  Sum_probs=87.8

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      ...|..+++.|..+..      +++|..||+...+||||++|++||||+||++||++|.|.++++|.+||+|||.||++|
T Consensus        12 ~~~l~~il~~l~~~~~------~~~F~~pv~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~y   85 (130)
T 3dai_A           12 RIFLRNVTHRLAIDKR------FRVFTKPVDPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEY   85 (130)
T ss_dssp             HHHHHHHHHHHHTSGG------GGGGSSCCCTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCc------cHhhcCCCChhhcCCHHHHcCCCCCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            4567777777776654      9999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHH----HHHHHHHHHHHHHHHH
Q psy15468        355 NEPGSQI----YKDAKALKKLVQTKKM  377 (653)
Q Consensus       355 N~~~S~i----~~~A~~L~~~~~~~~~  377 (653)
                      |+++|++    +.+|..|++.+...+.
T Consensus        86 N~~~s~~~~~i~~~A~~L~~~~~~~i~  112 (130)
T 3dai_A           86 NPDRDPGDRLIRHRACALRDTAYAIIK  112 (130)
T ss_dssp             CCSSSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCChhHHHHHHHHHHHHHHHHHHHH
Confidence            9999866    7888999988887775

>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=99.83  E-value=9.6e-21  Score=175.00  Aligned_cols=96  Identities=18%  Similarity=0.287  Sum_probs=85.7

Q ss_pred             HHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchH
Q psy15468        102 DAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDF  181 (653)
Q Consensus       102 ~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~  181 (653)
                      .+|..+++.|..++.      ++||..||+...+||||+||++||||+||++||++|.                      
T Consensus        13 ~~l~~il~~l~~~~~------~~~F~~pv~~~~~pdY~~iI~~PmdL~tI~~kl~~~~----------------------   64 (130)
T 3dai_A           13 IFLRNVTHRLAIDKR------FRVFTKPVDPDEVPDYVTVIKQPMDLSSVISKIDLHK----------------------   64 (130)
T ss_dssp             HHHHHHHHHHHTSGG------GGGGSSCCCTTTCTTHHHHCSSCCCHHHHHHHHHTTC----------------------
T ss_pred             HHHHHHHHHHHcCCc------cHhhcCCCChhhcCCHHHHcCCCCCHHHHHHHHhCCC----------------------
Confidence            455666666666553      9999999999999999999999999999999999999                      


Q ss_pred             HHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHH----HHHHHHHHHHHHHHhh
Q psy15468        182 IKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQE----HRDAQELMELFHSTRN  236 (653)
Q Consensus       182 ~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~----~~~a~~l~~~~~~~~~  236 (653)
                                 |.++++|..|++|||+||..||+++|++    +.+|..|.+.+...+.
T Consensus        65 -----------Y~~~~~f~~D~~li~~Na~~yN~~~s~~~~~i~~~A~~L~~~~~~~i~  112 (130)
T 3dai_A           65 -----------YLTVKDYLRDIDLICSNALEYNPDRDPGDRLIRHRACALRDTAYAIIK  112 (130)
T ss_dssp             -----------CSSHHHHHHHHHHHHHHHHHHCCSSSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -----------CCCHHHHHHHHHHHHHHHHHHCCCCChhHHHHHHHHHHHHHHHHHHHH
Confidence                       9999999999999999999999999977    6788888888887765

>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=99.83  E-value=2.6e-20  Score=182.02  Aligned_cols=104  Identities=27%  Similarity=0.437  Sum_probs=96.4

Q ss_pred             CChHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhC--CCCCCHHHHHHHHHHH
Q psy15468        270 CTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQD--GKYASLGDMEKDLILM  347 (653)
Q Consensus       270 ~~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~--~~Y~s~~ef~~Dv~Lm  347 (653)
                      ....+.+.|+.||..|+.+..      +++|..|++. .+|+||++|++||||+||++||++  +.|.++++|.+||+||
T Consensus        78 l~~~~~~~c~~il~~l~~~~~------s~~F~~Pv~~-~~pdY~~iIk~PmdL~tI~~kl~~~~~~Y~s~~ef~~Dv~li  150 (184)
T 3o36_A           78 LTPIDKRKCERLLLFLYCHEM------SLAFQDPVPL-TVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLI  150 (184)
T ss_dssp             CCHHHHHHHHHHHHHHHHSTT------CHHHHSCCCT-TSTTHHHHCSSCCCHHHHHHHHHSTTCSCCSHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHhchh------hhhhcccccc-CCCchhhhcCCCCCHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence            345668899999999999865      9999999885 599999999999999999999998  7999999999999999


Q ss_pred             HHhhhhhCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        348 TKNACTFNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       348 f~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      |.||++||+++|.|+.+|..|+++|++.++++.
T Consensus       151 ~~Na~~yN~~~s~v~~~a~~L~~~f~~~~~~~~  183 (184)
T 3o36_A          151 FQNCAEFNEPDSEVANAGIKLENYFEELLKNLY  183 (184)
T ss_dssp             HHHHHHHSCTTCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999999999999999999998764

>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.81  E-value=1e-19  Score=168.15  Aligned_cols=94  Identities=24%  Similarity=0.342  Sum_probs=86.1

Q ss_pred             HHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhh
Q psy15468        274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT  353 (653)
Q Consensus       274 ~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~  353 (653)
                      ....|..+++.|..+..      +++|..|     +||||++|++||||+||++||.+|.|.++++|..||+|||.||.+
T Consensus        13 L~~~~~~il~~l~~~~~------~~~F~~P-----~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~~f~~D~~Li~~Na~~   81 (131)
T 2dkw_A           13 LRLFLRDVTKRLATDKR------FNIFSKP-----VSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALE   81 (131)
T ss_dssp             HHHHHHHHHHHHHHSGG------GCTTSSC-----CSSCTTSCSSCCCHHHHHHHHHTTCCCSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcc------chhhcCc-----CccHHhHcCCCcCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH
Confidence            35678899999988754      8999997     899999999999999999999999999999999999999999999


Q ss_pred             hCCCCCH----HHHHHHHHHHHHHHHHHh
Q psy15468        354 FNEPGSQ----IYKDAKALKKLVQTKKME  378 (653)
Q Consensus       354 yN~~~S~----i~~~A~~L~~~~~~~~~~  378 (653)
                      ||+++|+    |+.+|..|++.+...++.
T Consensus        82 yN~~~s~~~~~i~~~A~~L~~~~~~~l~~  110 (131)
T 2dkw_A           82 YNPDKDPGDKIIRHRACTLKDTAHAIIAA  110 (131)
T ss_dssp             SCCCSSTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCCChhHHHHHHHHHHHHHHHHHHHHH
Confidence            9999995    679999999999888753

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=99.81  E-value=8.3e-20  Score=179.09  Aligned_cols=103  Identities=17%  Similarity=0.247  Sum_probs=95.0

Q ss_pred             CChHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccC--CcCCHHHHHHHhhCC---CCCCHHHHHHHH
Q psy15468        270 CTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVID--VPIDLRTIARRIQDG---KYASLGDMEKDL  344 (653)
Q Consensus       270 ~~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk--~PmDL~tI~~kl~~~---~Y~s~~ef~~Dv  344 (653)
                      ....+.+.|+.||..|+.+..      ++||++||+    |+||++|+  +||||+||++||+++   .|.++++|.+||
T Consensus        73 m~~~~~~~c~~iL~~l~~~~~------s~pF~~pV~----~~Yy~iIk~~~PMDL~tIk~kL~~~~~~~Y~s~~eF~~Dv  142 (189)
T 2ro1_A           73 LSPANQRKCERVLLALFCHEP------CRPLHQLAT----DSTFSLDQPGGTLDLTLIRARLQEKLSPPYSSPQEFAQDV  142 (189)
T ss_dssp             SCHHHHHHHHHHHHHHHHSTT------HHHHHSCSC----CTTCSSSCSSCCCCHHHHHHHHHTSSSSCCSCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhhcccCcc------chhhcCCCC----hhhhccccCCCcccHHHHHHHHhcCCCcccCCHHHHHHHH
Confidence            445678899999999998754      999999998    78999998  899999999999999   999999999999


Q ss_pred             HHHHHhhhhhCCCCCHHHHHHHHHHHHHHHHHHhhhcCC
Q psy15468        345 ILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQGK  383 (653)
Q Consensus       345 ~Lmf~Na~~yN~~~S~i~~~A~~L~~~~~~~~~~i~~~~  383 (653)
                      +|||+||++|| ++|.+|.+|..|+++|+++++++....
T Consensus       143 ~Lif~N~~~yN-~~s~~~~~a~~L~~~Fe~~~~~~~~~~  180 (189)
T 2ro1_A          143 GRMFKQFNKLT-EDKADVQSIIGLQRFFETRMNEAFGDT  180 (189)
T ss_dssp             HHHHHHHHHHC-CSSCSSHHHHHHHHHHHHHHHHHTTTS
T ss_pred             HHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHhcCcc
Confidence            99999999999 589999999999999999999987654

>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=99.80  E-value=1.4e-19  Score=180.06  Aligned_cols=106  Identities=28%  Similarity=0.418  Sum_probs=98.3

Q ss_pred             CChHHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhC---CCCCCHHHHHHHHHH
Q psy15468        270 CTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQD---GKYASLGDMEKDLIL  346 (653)
Q Consensus       270 ~~~~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~---~~Y~s~~ef~~Dv~L  346 (653)
                      ....+.+.|+.||..|+++..      +++|+.|++. .+|+||++|++||||+||++||++   +.|.++++|.+||+|
T Consensus        78 ls~~~~~~c~~il~~l~~~~~------s~~F~~Pv~~-~~pdY~~iIk~PmdL~tI~~kl~~~~~~~Y~s~~~f~~Dv~l  150 (207)
T 3u5n_A           78 LSPVDQRKCERLLLYLYCHEL------SIEFQEPVPA-SIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRL  150 (207)
T ss_dssp             SCHHHHHHHHHHHHHHHTSTT------CGGGSSCCCT-TSTTHHHHCSSCCCHHHHHHHHSTTSTTCCSSHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccc------hhhhhccCCh-hhccHhHHhCCccCHHHHHHHHhcccCCCcCCHHHHHHHHHH
Confidence            445668899999999998754      9999999876 899999999999999999999997   799999999999999


Q ss_pred             HHHhhhhhCC-----------------CCCHHHHHHHHHHHHHHHHHHhhhcC
Q psy15468        347 MTKNACTFNE-----------------PGSQIYKDAKALKKLVQTKKMEIEQG  382 (653)
Q Consensus       347 mf~Na~~yN~-----------------~~S~i~~~A~~L~~~~~~~~~~i~~~  382 (653)
                      ||.||++||+                 ++|.|+++|..|+.+|+.++.++.++
T Consensus       151 i~~Na~~yN~~~s~v~~~A~~l~~~~~~~s~i~~~a~~L~~~fe~~~~~~~p~  203 (207)
T 3u5n_A          151 IFKNCERFNEMMKVVQVYADTQEINLKADSEVAQAGKAVALYFEDKLTEIYSD  203 (207)
T ss_dssp             HHHHHHHHHHHHHHHC----------CCCCHHHHHHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHCCCcchHHHHHHHHHhcccccCHHHHHHHHHHHHHHHHHHHhCCC
Confidence            9999999999                 99999999999999999999998765

>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.79  E-value=2.8e-19  Score=165.13  Aligned_cols=99  Identities=21%  Similarity=0.318  Sum_probs=87.2

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy15468        457 AASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDN  536 (653)
Q Consensus       457 ~~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~N  536 (653)
                      ..|...|..+++.|..       +..+++|..|     +||||++|++||||++|++||.++.|.++++|.+||+|||.|
T Consensus        11 ~~L~~~~~~il~~l~~-------~~~~~~F~~P-----~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~~f~~D~~Li~~N   78 (131)
T 2dkw_A           11 RELRLFLRDVTKRLAT-------DKRFNIFSKP-----VSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSN   78 (131)
T ss_dssp             HHHHHHHHHHHHHHHH-------SGGGCTTSSC-----CSSCTTSCSSCCCHHHHHHHHHTTCCCSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHh-------CccchhhcCc-----CccHHhHcCCCcCHHHHHHHHcCCCCCCHHHHHHHHHHHHHH
Confidence            3567778888888876       4568999996     899999999999999999999999999999999999999999


Q ss_pred             HhhhcCCCCH----HHHHHHHHHHHHHHHHH-hhcC
Q psy15468        537 ACKYNEPDSH----IYKDALSLQRIVLQTKM-HLRE  567 (653)
Q Consensus       537 a~~YN~~~S~----iy~dA~~L~~~~~~~~~-eL~~  567 (653)
                      |++||+++|.    |+.+|..|+..+..... +|..
T Consensus        79 a~~yN~~~s~~~~~i~~~A~~L~~~~~~~l~~~l~~  114 (131)
T 2dkw_A           79 ALEYNPDKDPGDKIIRHRACTLKDTAHAIIAAELDP  114 (131)
T ss_dssp             HHHSCCCSSTTHHHHHHHHHHHHHHHHHHHHHHSCT
T ss_pred             HHHHCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999995    67999999999987764 5543

>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=99.26  E-value=1.2e-11  Score=120.06  Aligned_cols=91  Identities=18%  Similarity=0.299  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      ...++.||..|..++-      ++||+.         |  .++.||||.+|++||++|.|.++.+|..||.+||.||..|
T Consensus        77 ~~~l~~vl~~L~~~~~------s~~~~~---------y--~~k~PmDL~~i~kKl~~~~Y~s~~eF~~Dv~lIf~n~~~~  139 (183)
T 3lqh_A           77 QISLKQVLTALLNSRT------TSHLLR---------Y--RQQQPLDLEGVKRKMDQGNYTSVLEFSDDIVKIIQAAINS  139 (183)
T ss_dssp             HHHHHHHHHHHHTCHH------HHHHHT---------C--CC--CCSHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccc------cHhhhh---------h--hhcCCccHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhc
Confidence            4567888888887754      889876         2  2599999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhhhcC
Q psy15468        355 NEPGSQIYKDAKALKKLVQTKKMEIEQG  382 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~~~~i~~~  382 (653)
                      |++.+.+.+++..|+.+|.+.++++-+.
T Consensus       140 ~~~~~e~~~ag~~l~~~f~~~l~~vfpw  167 (183)
T 3lqh_A          140 DGGQPEIKKANSMVKSFFIRQMERVFPW  167 (183)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             cCCChhhhhhhhHHHHHHHHHHHHHCCC
Confidence            9999999999999999999999987654

>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=99.22  E-value=3.1e-11  Score=117.06  Aligned_cols=92  Identities=13%  Similarity=0.231  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy15468        459 SLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNAC  538 (653)
Q Consensus       459 ~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~  538 (653)
                      ++..+..++..|..       +..+++|++         |  .++.||||.+|++||++|.|.|+++|++||.+||.||.
T Consensus        76 l~~~l~~vl~~L~~-------~~~s~~~~~---------y--~~k~PmDL~~i~kKl~~~~Y~s~~eF~~Dv~lIf~n~~  137 (183)
T 3lqh_A           76 LQISLKQVLTALLN-------SRTTSHLLR---------Y--RQQQPLDLEGVKRKMDQGNYTSVLEFSDDIVKIIQAAI  137 (183)
T ss_dssp             HHHHHHHHHHHHHT-------CHHHHHHHT---------C--CC--CCSHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh-------ccccHhhhh---------h--hhcCCccHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Confidence            34445666666664       446888876         2  25999999999999999999999999999999999999


Q ss_pred             hhcCCCCHHHHHHHHHHHHHHHHHHhhcCC
Q psy15468        539 KYNEPDSHIYKDALSLQRIVLQTKMHLRED  568 (653)
Q Consensus       539 ~YN~~~S~iy~dA~~L~~~~~~~~~eL~~~  568 (653)
                      +||.+++.+.+.+..|+.+|++.++++.+.
T Consensus       138 ~~~~~~~e~~~ag~~l~~~f~~~l~~vfpw  167 (183)
T 3lqh_A          138 NSDGGQPEIKKANSMVKSFFIRQMERVFPW  167 (183)
T ss_dssp             HHSCCCHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             hccCCChhhhhhhhHHHHHHHHHHHHHCCC
Confidence            999999999999999999999999988764

---

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	653
d3d7ca1	102	a.29.2.1 (A:731-832) GCN5 {Human (Homo sapiens) [T	1e-21
d3d7ca1	102	a.29.2.1 (A:731-832) GCN5 {Human (Homo sapiens) [T	2e-18
d3d7ca1	102	a.29.2.1 (A:731-832) GCN5 {Human (Homo sapiens) [T	7e-10
d1eqfa2	128	a.29.2.1 (A:1498-1625) TAFII250 double bromodomain	7e-21
d1eqfa2	128	a.29.2.1 (A:1498-1625) TAFII250 double bromodomain	7e-19
d1eqfa2	128	a.29.2.1 (A:1498-1625) TAFII250 double bromodomain	7e-10
d1wuma1	118	a.29.2.1 (A:715-832) P300/CAF histone acetyltransf	2e-20
d1wuma1	118	a.29.2.1 (A:715-832) P300/CAF histone acetyltransf	2e-17
d1wuma1	118	a.29.2.1 (A:715-832) P300/CAF histone acetyltransf	8e-10
d1e6ia_	111	a.29.2.1 (A:) GCN5 {Baker's yeast (Saccharomyces c	3e-20
d1e6ia_	111	a.29.2.1 (A:) GCN5 {Baker's yeast (Saccharomyces c	1e-17
d1e6ia_	111	a.29.2.1 (A:) GCN5 {Baker's yeast (Saccharomyces c	2e-09
d1eqfa1	139	a.29.2.1 (A:1359-1497) TAFII250 double bromodomain	6e-20
d1eqfa1	139	a.29.2.1 (A:1359-1497) TAFII250 double bromodomain	6e-20
d1eqfa1	139	a.29.2.1 (A:1359-1497) TAFII250 double bromodomain	6e-13
d3dwya1	114	a.29.2.1 (A:1084-1197) CREB-binding protein, CBP {	6e-19
d3dwya1	114	a.29.2.1 (A:1084-1197) CREB-binding protein, CBP {	2e-18
d3dwya1	114	a.29.2.1 (A:1084-1197) CREB-binding protein, CBP {	2e-11

>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 = 87.7 bits (217), Expect = 1e-21
 Identities = 29/95 (30%), Positives = 45/95 (47%)

Query: 466 LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDE 525
           LY T+K           +  F     + + PDYYEVIR P+D++ +  +LR   Y     
Sbjct: 3   LYTTLKNLLAQIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKL 62

Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQ 560
            VAD  ++  N  +YN PDS   + A +L++    
Sbjct: 63  FVADLQRVIANCREYNPPDSEYCRCASALEKFFYF 97

>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 = 78.5 bits (193), Expect = 2e-18
 Identities = 29/107 (27%), Positives = 45/107 (42%), Gaps = 6/107 (5%)

Query: 272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQD 331
           +      ++L   +       S P    F     K   P+YY+VI  PIDL+T+  R++ 
Sbjct: 1   DQLYTTLKNLLAQIK------SHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRS 54

Query: 332 GKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKME 378
             Y +      DL  +  N   +N P S+  + A AL+K    K  E
Sbjct: 55  RYYVTRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFKLKE 101

>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 = 54.2 bits (130), Expect = 7e-10
 Identities = 15/60 (25%), Positives = 31/60 (51%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           V+  PID   + ++L++  Y     F AD++ ++ N + +   +S+  R A  L + F+ 
Sbjct: 38  VIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYF 97

>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 = 86.6 bits (214), Expect = 7e-21
 Identities = 25/96 (26%), Positives = 43/96 (44%)

Query: 486 FQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDS 545
           F    ++   PDYY+VI  P+D+E I   +  ++Y+  +  + D   +  N+ KYN P+S
Sbjct: 31  FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 90

Query: 546 HIYKDALSLQRIVLQTKMHLREDEDSVPDVPAAVQE 581
              K A  +  +  QT     E    +       +E
Sbjct: 91  QYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTAKE 126

>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 = 80.8 bits (199), Expect = 7e-19
 Identities = 31/111 (27%), Positives = 51/111 (45%), Gaps = 1/111 (0%)

Query: 271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQ 330
            +D+Q     + + ++T     + P    F    +KK  P+YY VI  P+DL TI + I 
Sbjct: 3   DDDDQVAFSFILDNIVT-QKMMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNIS 61

Query: 331 DGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
             KY S      D+ L+  N+  +N P SQ  K A+ +  +      E ++
Sbjct: 62  KHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDE 112

>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 = 55.0 bits (132), Expect = 7e-10
 Identities = 16/65 (24%), Positives = 33/65 (50%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           V+ NP+D   I++ +   +Y     F  D+ L++ N+  +    SQ  + AQE++ + + 
Sbjct: 46  VIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQ 105

Query: 234 TRNKL 238
           T  + 
Sbjct: 106 TLTEY 110

>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 = 30/95 (31%), Positives = 49/95 (51%)

Query: 466 LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDE 525
           LY+T+K   +     Q +  F     R + P YYEVIR P+D++ ++ +L+   Y     
Sbjct: 14  LYSTLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKL 73

Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQ 560
            +AD  ++F N  +YN P+S  YK A  L++    
Sbjct: 74  FMADLQRVFTNCKEYNPPESEYYKCANILEKFFFS 108

>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 = 76.2 bits (187), Expect = 2e-17
 Identities = 28/110 (25%), Positives = 47/110 (42%), Gaps = 6/110 (5%)

Query: 271 TEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQ 330
            +   +  + +   V +   A        F     +   P YY+VI  P+DL+T++ R++
Sbjct: 11  PDQLYSTLKSILQQVKSHQSA------WPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLK 64

Query: 331 DGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIE 380
           +  Y S      DL  +  N   +N P S+ YK A  L+K   +K  E  
Sbjct: 65  NRYYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIKEAG 114

>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 = 54.7 bits (131), Expect = 8e-10
 Identities = 26/148 (17%), Positives = 51/148 (34%), Gaps = 36/148 (24%)

Query: 91  TRPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIK 150
           +   ++  DP      +  +++  K    A    PF+   K+ + P Y+EV+  P+D   
Sbjct: 2   SHMSKEPRDPDQLYSTLKSILQQVKSHQSA---WPFMEPVKRTEAPGYYEVIRFPMDLKT 58

Query: 151 IQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNA 210
           + ++LK   Y     F AD++ +                                   N 
Sbjct: 59  MSERLKNRYYVSKKLFMADLQRVF---------------------------------TNC 85

Query: 211 KTFYKRNSQEHRDAQELMELFHSTRNKL 238
           K +    S+ ++ A  L + F S   + 
Sbjct: 86  KEYNPPESEYYKCANILEKFFFSKIKEA 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 = 84.2 bits (208), Expect = 3e-20
 Identities = 22/93 (23%), Positives = 47/93 (50%)

Query: 480 RQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACK 539
              +  F +  ++ + PDYY+ I++P+D+  +  KL  N+Y+ +++ + D   +F+N   
Sbjct: 18  HAAAWPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRM 77

Query: 540 YNEPDSHIYKDALSLQRIVLQTKMHLREDEDSV 572
           YN  ++  YK A  L++        + E    +
Sbjct: 78  YNGENTSYYKYANRLEKFFNNKVKEIPEYSHLI 110

>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 = 76.9 bits (189), Expect = 1e-17
 Identities = 27/108 (25%), Positives = 45/108 (41%), Gaps = 6/108 (5%)

Query: 274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGK 333
                +++   +     A        F    +K+  P+YYD I  P+DL T+  +++  K
Sbjct: 4   HDAAIQNILTELQNHAAA------WPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNK 57

Query: 334 YASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
           Y  + D   D  L+  N   +N   +  YK A  L+K    K  EI +
Sbjct: 58  YQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEIPE 105

>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 = 53.0 bits (127), Expect = 2e-09
 Identities = 14/65 (21%), Positives = 34/65 (52%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
            +  P+D   ++ KL++++Y  + DF  D  L+  N + +   N+  ++ A  L + F++
Sbjct: 39  FIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNN 98

Query: 234 TRNKL 238
              ++
Sbjct: 99  KVKEI 103

>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 = 84.3 bits (208), Expect = 6e-20
 Identities = 19/93 (20%), Positives = 42/93 (45%), Gaps = 3/93 (3%)

Query: 483 SHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNE 542
           ++ F    +     DYY++I +P+D++ +   +R   Y   +E       +  N+  YN 
Sbjct: 44  TYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNG 103

Query: 543 PDSHIYKDALSLQRIVLQTKMHLREDEDSVPDV 575
           P   + + + S+  +  +    L+E ED +  +
Sbjct: 104 PKHSLTQISQSMLDLCDE---KLKEKEDKLARL 133

>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 = 84.3 bits (208), Expect = 6e-20
 Identities = 24/107 (22%), Positives = 47/107 (43%), Gaps = 6/107 (5%)

Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKY 334
            +  E + N +    +         F    + K   +YY +I  P+DL+T+   ++   Y
Sbjct: 28  SSILESIINDMRDLPNT------YPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLY 81

Query: 335 ASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
            S  +  + L L+ KN+ T+N P   + + ++++  L   K  E E 
Sbjct: 82  PSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKED 128

>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 = 64.2 bits (156), Expect = 6e-13
 Identities = 22/161 (13%), Positives = 53/161 (32%), Gaps = 37/161 (22%)

Query: 79  SSSHTSETPTMQTRPKRKKIDPSDAMQQIY-DVIRNFKKEDGALLCDPFIRIPKKRQEPS 137
           ++ H            R++ DP   +  I   +I + +         PF      +    
Sbjct: 2   TTVHCDYLNRPHKSIHRRRTDPMVTLSSILESIINDMRDLPNT---YPFHTPVNAKVVKD 58

Query: 138 YHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLS 197
           Y++++T P+D   +++ ++   Y    +F+  +EL+V                       
Sbjct: 59  YYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIV----------------------- 95

Query: 198 DFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL 238
                     KN+ T+        + +Q +++L      + 
Sbjct: 96  ----------KNSATYNGPKHSLTQISQSMLDLCDEKLKEK 126

>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 = 80.8 bits (199), Expect = 6e-19
 Identities = 24/71 (33%), Positives = 36/71 (50%)

Query: 490 PSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYK 549
           P     PDY+++++ P+D+  I  KL   QY+   + V D   MF+NA  YN   S +YK
Sbjct: 34  PQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYK 93

Query: 550 DALSLQRIVLQ 560
               L  +  Q
Sbjct: 94  FCSKLAEVFEQ 104

>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 = 78.8 bits (194), Expect = 2e-18
 Identities = 28/110 (25%), Positives = 50/110 (45%), Gaps = 3/110 (2%)

Query: 272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQD 331
           E+ +        A+    D +S P  +     P     P+Y+D++  P+DL TI R++  
Sbjct: 5   EELRQALMPTLEALY-RQDPESLPFRQPVD--PQLLGIPDYFDIVKNPMDLSTIKRKLDT 61

Query: 332 GKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
           G+Y        D+ LM  NA  +N   S++YK    L ++ + +   + Q
Sbjct: 62  GQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQ 111

>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 = 59.2 bits (143), Expect = 2e-11
 Identities = 17/66 (25%), Positives = 37/66 (56%)

Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
           +V NP+D   I++KL T +Y +   +  D+ L+  NA  + ++ S+ ++   +L E+F  
Sbjct: 45  IVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQ 104

Query: 234 TRNKLL 239
             + ++
Sbjct: 105 EIDPVM 110

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	653
d3d7ca1	102	GCN5 {Human (Homo sapiens) [TaxId: 9606]}	99.9
d1eqfa1	139	TAFII250 double bromodomain module {Human (Homo sa	99.89
d1e6ia_	111	GCN5 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.89
d3d7ca1	102	GCN5 {Human (Homo sapiens) [TaxId: 9606]}	99.89
d1eqfa2	128	TAFII250 double bromodomain module {Human (Homo sa	99.89
d1wuma1	118	P300/CAF histone acetyltransferase bromodomain {Hu	99.89
d1e6ia_	111	GCN5 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.88
d1wuma1	118	P300/CAF histone acetyltransferase bromodomain {Hu	99.87
d1eqfa2	128	TAFII250 double bromodomain module {Human (Homo sa	99.87
d1eqfa1	139	TAFII250 double bromodomain module {Human (Homo sa	99.87
d3dwya1	114	CREB-binding protein, CBP {Human (Homo sapiens) [T	99.86
d3dwya1	114	CREB-binding protein, CBP {Human (Homo sapiens) [T	99.85

>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=99.90  E-value=4.9e-24  Score=186.78  Aligned_cols=99  Identities=27%  Similarity=0.384  Sum_probs=94.1

Q ss_pred             HHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhh
Q psy15468        274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACT  353 (653)
Q Consensus       274 ~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~  353 (653)
                      ....|+.|+..|.++.+      +++|+.||++..+|+||++|++||||+||++||++|.|.++++|.+||+|||.||..
T Consensus         3 L~~~l~~il~~l~~~~~------s~~F~~pv~~~~~pdY~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~   76 (102)
T d3d7ca1           3 LYTTLKNLLAQIKSHPS------AWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCRE   76 (102)
T ss_dssp             HHHHHHHHHHHHHHSGG------GGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC------CCccCCCCChhhCcCHHHHcCCccCHHHHHHHhccCccCCHHHHHHHHHHHHHHHHH
Confidence            35789999999998866      999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHHh
Q psy15468        354 FNEPGSQIYKDAKALKKLVQTKKME  378 (653)
Q Consensus       354 yN~~~S~i~~~A~~L~~~~~~~~~~  378 (653)
                      ||+++|.+|.+|..|+++|.+++++
T Consensus        77 yN~~~s~~~~~A~~l~~~f~~~~ke  101 (102)
T d3d7ca1          77 YNPPDSEYCRCASALEKFFYFKLKE  101 (102)
T ss_dssp             HSCTTSHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999988764

>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=99.89  E-value=2e-23  Score=192.92  Aligned_cols=113  Identities=19%  Similarity=0.374  Sum_probs=98.0

Q ss_pred             CCCCCCCCCChHHHHHHHHHHHHh-hhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHH
Q psy15468         90 QTRPKRKKIDPSDAMQQIYDVIRN-FKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQA  168 (653)
Q Consensus        90 ~~~~~~~~~~~~~~~~~l~~~i~~-~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~  168 (653)
                      .+..+|++.+|...++.++..|.+ +++.   ..++||..||+...+||||+||++||||+||++||++|.         
T Consensus        13 ~~~~~rrr~~~~~~l~~~l~~il~~l~~~---~~s~pF~~Pvd~~~~pdY~~iI~~PmdL~tI~~kl~~~~---------   80 (139)
T d1eqfa1          13 HKSIHRRRTDPMVTLSSILESIINDMRDL---PNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRL---------   80 (139)
T ss_dssp             CTTCCCCTTCHHHHHHHHHHHHHHHHHTS---TTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTC---------
T ss_pred             CCCccccccCHHHHHHHHHHHHHHHHHcC---CCchhhhCCCChhhccCHHHHcCChhhHHHHHHHHHcCC---------
Confidence            456667778887666665555432 2332   339999999999999999999999999999999999999         


Q ss_pred             HHHHHhhcCCchHHHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhc
Q psy15468        169 DIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL  238 (653)
Q Consensus       169 d~~l~~~~~P~d~~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~  238 (653)
                                              |.++++|..|+.|||+||..||+++|++++.|..|.+.|...++++
T Consensus        81 ------------------------Y~s~~~f~~D~~li~~Na~~yN~~~s~i~~~A~~L~~~~~~~~~~~  126 (139)
T d1eqfa1          81 ------------------------YPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEK  126 (139)
T ss_dssp             ------------------------CSSHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHT
T ss_pred             ------------------------cCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence                                    9999999999999999999999999999999999999999988775

>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=99.89  E-value=1e-23  Score=187.48  Aligned_cols=101  Identities=26%  Similarity=0.435  Sum_probs=96.9

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      .+.|+.||+.|+++++      |+||+.||+...+|+||++|++||||+||++||++|.|.++++|..||+|||.||..|
T Consensus         5 ~~~l~~il~~l~~~~~------a~pF~~pvd~~~~pdY~~vI~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na~~y   78 (111)
T d1e6ia_           5 DAAIQNILTELQNHAA------AWPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMY   78 (111)
T ss_dssp             HHHHHHHHHHHHHSTT------CGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC------ChhhcCCCCchhCcCHHHHcCCchhHHHHHHHHHccccchHHHHHHHHHHHHHHHHHH
Confidence            4789999999999876      9999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhhhc
Q psy15468        355 NEPGSQIYKDAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~~~~i~~  381 (653)
                      |+++|.++.+|..|++.|++.+.+++.
T Consensus        79 N~~~s~i~~~A~~l~~~f~~~~~~ipe  105 (111)
T d1e6ia_          79 NGENTSYYKYANRLEKFFNNKVKEIPE  105 (111)
T ss_dssp             SCTTSHHHHHHHHHHHHHHHHHHTSGG
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHhhc
Confidence            999999999999999999999988754

>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=99.89  E-value=2.5e-23  Score=182.29  Aligned_cols=99  Identities=28%  Similarity=0.451  Sum_probs=92.5

Q ss_pred             HHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy15468        459 SLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNAC  538 (653)
Q Consensus       459 ~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na~  538 (653)
                      +.+.|+.|+..|++       ++.+++|..||+...+|+||++|++||||++|++||++|.|.|+++|.+||+|||.||+
T Consensus         3 L~~~l~~il~~l~~-------~~~s~~F~~pv~~~~~pdY~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~   75 (102)
T d3d7ca1           3 LYTTLKNLLAQIKS-------HPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCR   75 (102)
T ss_dssp             HHHHHHHHHHHHHH-------SGGGGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh-------CCCCCccCCCCChhhCcCHHHHcCCccCHHHHHHHhccCccCCHHHHHHHHHHHHHHHH
Confidence            56778888888886       55689999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCHHHHHHHHHHHHHHHHHHh
Q psy15468        539 KYNEPDSHIYKDALSLQRIVLQTKMH  564 (653)
Q Consensus       539 ~YN~~~S~iy~dA~~L~~~~~~~~~e  564 (653)
                      +||+++|.+|++|..|+++|.+++++
T Consensus        76 ~yN~~~s~~~~~A~~l~~~f~~~~ke  101 (102)
T d3d7ca1          76 EYNPPDSEYCRCASALEKFFYFKLKE  101 (102)
T ss_dssp             HHSCTTSHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999887754

>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=99.89  E-value=1.8e-23  Score=190.48  Aligned_cols=107  Identities=29%  Similarity=0.391  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhh
Q psy15468        273 DEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC  352 (653)
Q Consensus       273 ~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~  352 (653)
                      ++...+..||+.|...+- ..++.||||+.||++..+|+||++|++||||+||++||++|.|.++++|..||+|||.||.
T Consensus         5 ~~~~~~~~il~~l~~~~~-~~~p~a~pF~~pVd~~~~PdY~~vIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~   83 (128)
T d1eqfa2           5 DDQVAFSFILDNIVTQKM-MAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSV   83 (128)
T ss_dssp             HHHHHHHHHHHHHHHHTT-TTSTTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHH-HcCCCCChhcCCCCcccCcCHHHHcCCcccHHHHHHHHHhhccccHHHHHHHHHHHHHHHH
Confidence            345678899998875433 4567899999999999999999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        353 TFNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       353 ~yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      .||+++|.++.+|..|.+.|.+.+.++.
T Consensus        84 ~yN~~~s~i~~~A~~L~~~~~~~l~~~~  111 (128)
T d1eqfa2          84 KYNGPESQYTKTAQEIVNVCYQTLTEYD  111 (128)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHHHHHHHTH
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHhH
Confidence            9999999999999999999999888765

>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=99.89  E-value=2.8e-23  Score=186.68  Aligned_cols=102  Identities=26%  Similarity=0.379  Sum_probs=96.5

Q ss_pred             HHHHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhh
Q psy15468        273 DEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNAC  352 (653)
Q Consensus       273 ~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~  352 (653)
                      .....|..|++.|+++..      +++|+.||+...+|+||++|++||||++|++||++|.|.++++|.+||+|||.||.
T Consensus        13 ~l~~~l~~il~~l~~~~~------a~~F~~pv~~~~~pdY~~iI~~PmdL~~I~~kl~~~~Y~s~~ef~~Dv~li~~Na~   86 (118)
T d1wuma1          13 QLYSTLKSILQQVKSHQS------AWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCK   86 (118)
T ss_dssp             HHHHHHHHHHHHHHHSSS------CHHHHSCCCSSSSSSCTTTCSSCCCHHHHHHHHTTTCCCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCC------cCcccCCCChhhCcCHHHHcCChhhHHHHHHHhcccccCchHHHHHHHHHHHHHHH
Confidence            346889999999998865      99999999999999999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        353 TFNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       353 ~yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      .||+++|.++.+|..|+++|.+.+++..
T Consensus        87 ~yn~~~s~~~~~A~~l~~~f~~~~~e~~  114 (118)
T d1wuma1          87 EYNPPESEYYKCANILEKFFFSKIKEAG  114 (118)
T ss_dssp             HHSCTTSSHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHcc
Confidence            9999999999999999999999988753

>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=99.88  E-value=3.2e-23  Score=184.29  Aligned_cols=103  Identities=21%  Similarity=0.449  Sum_probs=96.7

Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q psy15468        458 ASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA  537 (653)
Q Consensus       458 ~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na  537 (653)
                      |+.+.|+.|++.|++       +..+++|..+|+...+|+||++|++||||++|++||++|.|.|+++|.+||.|||.||
T Consensus         3 p~~~~l~~il~~l~~-------~~~a~pF~~pvd~~~~pdY~~vI~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na   75 (111)
T d1e6ia_           3 PHDAAIQNILTELQN-------HAAAWPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNC   75 (111)
T ss_dssp             TTHHHHHHHHHHHHH-------STTCGGGSSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHh-------CCCChhhcCCCCchhCcCHHHHcCCchhHHHHHHHHHccccchHHHHHHHHHHHHHHH
Confidence            456778899999987       4568999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcCCCCHHHHHHHHHHHHHHHHHHhhcC
Q psy15468        538 CKYNEPDSHIYKDALSLQRIVLQTKMHLRE  567 (653)
Q Consensus       538 ~~YN~~~S~iy~dA~~L~~~~~~~~~eL~~  567 (653)
                      ++||+++|.++.+|..|+++|.+.+.+++.
T Consensus        76 ~~yN~~~s~i~~~A~~l~~~f~~~~~~ipe  105 (111)
T d1e6ia_          76 RMYNGENTSYYKYANRLEKFFNNKVKEIPE  105 (111)
T ss_dssp             HHHSCTTSHHHHHHHHHHHHHHHHHHTSGG
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHHHhhc
Confidence            999999999999999999999999988864

>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=99.87  E-value=9.7e-23  Score=183.08  Aligned_cols=102  Identities=26%  Similarity=0.462  Sum_probs=95.5

Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCCCCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q psy15468        458 ASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA  537 (653)
Q Consensus       458 ~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~Na  537 (653)
                      .+...|+.+++.|++       +..+++|.++|+...+|+||++|++||||++|++||++|.|.|+++|.+||.|||.||
T Consensus        13 ~l~~~l~~il~~l~~-------~~~a~~F~~pv~~~~~pdY~~iI~~PmdL~~I~~kl~~~~Y~s~~ef~~Dv~li~~Na   85 (118)
T d1wuma1          13 QLYSTLKSILQQVKS-------HQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNC   85 (118)
T ss_dssp             HHHHHHHHHHHHHHH-------SSSCHHHHSCCCSSSSSSCTTTCSSCCCHHHHHHHHTTTCCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh-------CCCcCcccCCCChhhCcCHHHHcCChhhHHHHHHHhcccccCchHHHHHHHHHHHHHH
Confidence            467788889998887       4568999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcCCCCHHHHHHHHHHHHHHHHHHhhc
Q psy15468        538 CKYNEPDSHIYKDALSLQRIVLQTKMHLR  566 (653)
Q Consensus       538 ~~YN~~~S~iy~dA~~L~~~~~~~~~eL~  566 (653)
                      .+||+++|.+|.+|..|+++|.+.++++.
T Consensus        86 ~~yn~~~s~~~~~A~~l~~~f~~~~~e~~  114 (118)
T d1wuma1          86 KEYNPPESEYYKCANILEKFFFSKIKEAG  114 (118)
T ss_dssp             HHHSCTTSSHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHHHcc
Confidence            99999999999999999999999988764

>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=99.87  E-value=1.1e-22  Score=185.28  Aligned_cols=103  Identities=25%  Similarity=0.358  Sum_probs=91.8

Q ss_pred             HHHHHHHHHHHhhhhhcCCccccccccCCCCCCCCccccccCCccchHHHHHHHhcCCCCChhhHHHHHHHHhhcCCchH
Q psy15468        102 DAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDF  181 (653)
Q Consensus       102 ~~~~~l~~~i~~~k~~~~~~~~~~F~~~v~~~~~PdYy~iI~~PmDL~tI~~kl~~~~y~~~~~~~~d~~l~~~~~P~d~  181 (653)
                      ..++.||+.|...+ -...+.|+||+.||+...+||||++|++||||+||++||++|.                      
T Consensus         8 ~~~~~il~~l~~~~-~~~~p~a~pF~~pVd~~~~PdY~~vIk~PmDL~tI~~kl~~~~----------------------   64 (128)
T d1eqfa2           8 VAFSFILDNIVTQK-MMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHK----------------------   64 (128)
T ss_dssp             HHHHHHHHHHHHHT-TTTSTTCGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTC----------------------
T ss_pred             HHHHHHHHHHHHHH-HHcCCCCChhcCCCCcccCcCHHHHcCCcccHHHHHHHHHhhc----------------------
Confidence            44677888765321 2234569999999999999999999999999999999999999                      


Q ss_pred             HHHhhhcccCcCCCHHHHHHHHHHHHHhhhccccCCCHHHHHHHHHHHHHHHHhhhc
Q psy15468        182 IKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL  238 (653)
Q Consensus       182 ~~~~~~~~~~~Y~~~~~f~~D~~li~~Na~~yn~~~s~~~~~a~~l~~~~~~~~~~~  238 (653)
                                 |.++++|..|++|||.||..||+++|++++.|..|.+.|...+.++
T Consensus        65 -----------Y~s~~ef~~Dv~li~~Na~~yN~~~s~i~~~A~~L~~~~~~~l~~~  110 (128)
T d1eqfa2          65 -----------YQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEY  110 (128)
T ss_dssp             -----------CSSHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHT
T ss_pred             -----------cccHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence                       9999999999999999999999999999999999999999888765

>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=99.87  E-value=1.9e-22  Score=186.23  Aligned_cols=101  Identities=24%  Similarity=0.397  Sum_probs=94.7

Q ss_pred             HHHHHHHHHHHHhccCCCCcccccccccccccCCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHhhhhh
Q psy15468        275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTF  354 (653)
Q Consensus       275 ~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~Na~~y  354 (653)
                      ...|..|++.|..+.+      +++|+.||+...+|+||++|++||||++|++||++|.|.++++|..||+|||.||.+|
T Consensus        28 ~~~l~~il~~l~~~~~------s~pF~~Pvd~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~y  101 (139)
T d1eqfa1          28 SSILESIINDMRDLPN------TYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY  101 (139)
T ss_dssp             HHHHHHHHHHHHTSTT------CGGGTSCCCTTTSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCC------chhhhCCCChhhccCHHHHcCChhhHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHH
Confidence            5678888888887765      9999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhhhc
Q psy15468        355 NEPGSQIYKDAKALKKLVQTKKMEIEQ  381 (653)
Q Consensus       355 N~~~S~i~~~A~~L~~~~~~~~~~i~~  381 (653)
                      |+++|.++.+|..|.+.|++.++++..
T Consensus       102 N~~~s~i~~~A~~L~~~~~~~~~~~~~  128 (139)
T d1eqfa1         102 NGPKHSLTQISQSMLDLCDEKLKEKED  128 (139)
T ss_dssp             TCTTSHHHHHHHHHHHHHHHHHHHTHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999987653

>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=99.86  E-value=2.9e-22  Score=178.89  Aligned_cols=103  Identities=23%  Similarity=0.393  Sum_probs=94.2

Q ss_pred             HHHHHHHHHHHHHHhccCCCCccccccccccccc--CCCCCcccccCCcCCHHHHHHHhhCCCCCCHHHHHHHHHHHHHh
Q psy15468        273 DEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSK--KRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN  350 (653)
Q Consensus       273 ~~~~~~~~ll~~l~~~~d~~g~~~a~~F~~~p~~--~~~PdYy~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lmf~N  350 (653)
                      +..+.|..+++.|+++.     +.|++|..|++.  .++||||++|++||||++|++||++|.|.++++|.+||+|||.|
T Consensus         6 el~~~l~~~l~~l~~~~-----p~a~pF~~pvd~~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~N   80 (114)
T d3dwya1           6 ELRQALMPTLEALYRQD-----PESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNN   80 (114)
T ss_dssp             HHHHHHHHHHHHHHTCT-----TTTGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcC-----cCCCccCCCCChhhccCCCHHHHcCCCCCHHHHHHHHHcCccccHHHHHHHHHHHHHH
Confidence            44678899999998652     459999999875  48999999999999999999999999999999999999999999


Q ss_pred             hhhhCCCCCHHHHHHHHHHHHHHHHHHhhh
Q psy15468        351 ACTFNEPGSQIYKDAKALKKLVQTKKMEIE  380 (653)
Q Consensus       351 a~~yN~~~S~i~~~A~~L~~~~~~~~~~i~  380 (653)
                      |+.||+++|.++.+|..|++.|++.+..+.
T Consensus        81 a~~yN~~~s~~~~~A~~L~~~f~~~~~~i~  110 (114)
T d3dwya1          81 AWLYNRKTSRVYKFCSKLAEVFEQEIDPVM  110 (114)
T ss_dssp             HHHHSCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999988764

>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=99.85  E-value=9.1e-22  Score=175.62  Aligned_cols=103  Identities=25%  Similarity=0.364  Sum_probs=92.7

Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCcccccccccCcCCC--CCCcccccccCccchHHHHHHHhcCCCCCHHHHHHHHHHHHH
Q psy15468        458 ASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRH--DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFD  535 (653)
Q Consensus       458 ~~~~~lk~l~~~l~~~~d~~g~~~ls~~F~~lP~~~--~~PdYy~iIk~PmdL~~I~~kl~~~~Y~s~~ef~~D~~Lmf~  535 (653)
                      .+++.|..+++.|++.      .+.|++|..+++..  ++||||++|++||||++|++||++|.|.|+++|.+||+|||.
T Consensus         6 el~~~l~~~l~~l~~~------~p~a~pF~~pvd~~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~   79 (114)
T d3dwya1           6 ELRQALMPTLEALYRQ------DPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFN   79 (114)
T ss_dssp             HHHHHHHHHHHHHHTC------TTTTGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhc------CcCCCccCCCCChhhccCCCHHHHcCCCCCHHHHHHHHHcCccccHHHHHHHHHHHHH
Confidence            4677788888888752      34688999998754  799999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCHHHHHHHHHHHHHHHHHHhhc
Q psy15468        536 NACKYNEPDSHIYKDALSLQRIVLQTKMHLR  566 (653)
Q Consensus       536 Na~~YN~~~S~iy~dA~~L~~~~~~~~~eL~  566 (653)
                      ||++||+++|.+|..|..|++.|++.+.++.
T Consensus        80 Na~~yN~~~s~~~~~A~~L~~~f~~~~~~i~  110 (114)
T d3dwya1          80 NAWLYNRKTSRVYKFCSKLAEVFEQEIDPVM  110 (114)
T ss_dssp             HHHHHSCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999887764