Psyllid ID: psy14234

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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-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------78
Protein Sequence
MSAAETETATDPVVNQNGTGDPDPVKAEQDVKVNNNNTSDSTSSSSPPPSSTEVTPVKKSPAPPSSSSSAPAPSHHNESNSGNSTKAASVEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATSTPKPRPPNPVLGSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQRISEEGGGGSGLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASRAAASVSSDDDSEDERQNQLKYLQEQLKSLTDQIRLLVEDSTKPKKKKKKNRDQPKSKMPMGQNSAMMNDHVNKMNKAPAPLNNGQKPKSLNNVRKPQASNPQQAKKPKPNNANTVAAKKQVRTFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKRTYKKTPKPKDEKFAEKKHELEKRLQDVTSQIDSTNKKLKKPKPTTSAAGPTGASRLSASSSSSSDSDSSGQSTSSSSSESSDSEGEKGPH
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHcccccHHHHHHHHHccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccccccHHcccccccHHHHcccccHHHHHHHHHccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccHHHHHHHHHHHcccccccHHHHHHHHHHccccccccccccEEEEcccccHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHccccccccccccHHHcccccHHHHccccccHHHHHHHHHccccccHHHHHHHHHHHHHccEEEcccccHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccccHHHcccccccccccHHHHccccccHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHccHHHHHHcccccccccccccccHccccHHHHHHHHcccHHHHHHHHcccHHHHHHHHHHHHHHHHHccHHHHHHHHccHHHccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccHcccccccHHHHHHccccccccccHHHccEEEEEEcccccccccccccEEEEHHcccHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
msaaetetatdpvvnqngtgdpdpvkaeqdvkvnnnntsdstsssspppsstevtpvkkspappsssssapapshhnesnsgnstkaasveppprdeprlepvdgivqppvvppkhrpgrntnQLQYIVKNVMKAVwkhphawpfhepvdainlnlpdyhkvitqpmdlgTIKKRlennyywsgkEAIQDFTTMFTNcyvynkpgEDVVLMAQNLEQLFLTKitgmpseevvldapqprsskkkppvsaspslnpviktpviplnklpsatstpkprppnpvlgstattttapkvnhlnsmnapdtpdMKKAIKRkadgsidhtpsslhptpvksakqlntrresgsitkkpqriseeggggsglggsktplWYKYCSEIIAELFHKkhqnyawpfytpvdveklgltdyFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSncykynppdhnvVTMARQLSAVFEDrfakmpdesnlasraaasvssdddseDERQNQLKYLQEQLKSLTDQIRLLVedstkpkkkkkknrdqpkskmpmgqnsammndhvnkmnkapaplnngqkpkslnnvrkpqasnpqqakkpkpnnantvAAKKQVrtfdsededvakpmsydekrQLSLDinklpgdklgkVVHIIQsrepslrepnpdeieidfetlkpstLRELEQYVSSCLrkrtykktpkpkdekFAEKKHELEKRLQDVTSQIDstnkklkkpkpttsaagptgasrlsassssssdsdssgqstsssssessdsegekgph
Flexible Loop (DISEMBL)
msaaetetatdpvvnqngtgdpdPVKAEQDVKVNNnntsdstsssspppsstEVTPVKKSPAPPSSSSSAPAPShhnesnsgnstkAASVEPPPRDEPRLEPVDGIVQppvvppkhrpgrntNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDapqprsskkkppvsaspslnpviktpviPLNKLpsatstpkprppnpvlgstattttapkvnhlnsmnapdtpDMKKAIKRKADGSidhtpsslhptpvksakqlntrresgsitkkpqriseeggggsglggskTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDiikkpmdlgtvrkkmrnrtyktakefaddvrLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASRAaasvssdddseDERQNQLKYLQEQLKSLTDQIRllvedstkpkkkkkknrdqpkskmpmgqnsAMMNDHVNKMNKAPAPLNNGQKPKSLNNVRKPQAsnpqqakkpkpnnantvaakkqvrtfdsededvakpmsydekrqlsldinklpgdklgKVVHIIqsrepslrepnpdeIEIDfetlkpstlreLEQYVssclrkrtykktpkpkdekfaekkhelekrlqdvtsqidstnkklkkpkpttsaagptgasrlsassssssdsdssgqstsssssessdsegekgph
Low Complexity Region (SEG)
MSAAETETATDPVVNQNGTGDPDPVKAEQDvkvnnnntsdstsssspppsstevtpvKKspappsssssapapsHHNESNSGNSTKAASveppprdeprlepvdGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDApqprsskkkppvsaspsLNPVIKTPVIPLNKLPSATSTPKPRPPNPVLGSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQRIseeggggsglggsKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLasraaasvssdddsederQNQLKYLQEQLKSLTDQIRLLVEDSTkpkkkkkkNRDQPKSKMPMGQNSAMMNDHVNKMNKAPAPLNNGQKPKSLNNVRKPQASNPQQAKKPKPNNANTVAAKKQVRTFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLrkrtykktpkpkDEKFAEKKHELEKRLQDVTSQIDSTNkklkkpkpttSAAGPTGAsrlsassssssdsdssgqstsssssessdsEGEKGPH
Disordered region (IsUnstruct)
***************************************************************************************************************************QLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGM*************************************************************************************************************************************************LWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFE*************************************************************************************************************************************************************************LGKVVHII***********************************************************************************************************************************
Disordered Region (DISOPRED)
******************************************************************************************************************************YIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATSTPKPRPPNP***********************DTPDMKKAIKRK*********************************************************YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAK**************************************************************************************APA*********************************************************************KLPGDKLGKVVH*****************EIDFETLKPSTLRELEQYV*************************************************************************************************
Disordered Region (DISEMBL)
***********PVVNQNGTGDPDPVKAEQDVKVNN**************************************************************PRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVV*******************SLNPVIKTPVIPLNKLPS***********PVLGSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSS************************************GLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE**********************NQLKYLQEQLKSLTDQIRLLVEDS********************GQNSAMMNDHVNKMNKAPAPLNNGQKPKSLNNV*********************VAAKKQVR**********KPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKRTYKKTPKPKDEKFAEKKHELEKRLQDVTS*************************************************************
Disordered Region (DISPRO)
**********************************************************************************************************************GRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP********************************************************************************************************************************************SKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDES****************************************************************************************************************************************AKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKR******************************************************************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSAAETETATDPVVNQNGTGDPDPVKAEQDVKVNNNNTSDSTSSSSPPPSSTEVTPVKKSPAPPSSSSSAPAPSHHNESNSGNSTKAASVEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATSTPKPRPPNPVLGSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQRISEEGGGGSGLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASRAAASVSSDDDSxxxxxxxxxxxxxxxxxxxxxxxxxxxxSTKPKKKKKKNRDQPKSKMPMGQNSAMMNDHVNKMNKAPAPLNNGQKPKSLNNVRKPQASNPQQAKKPKPNNANTVAAKKQVRTFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKRTYKKTPKPKDEKFAEKxxxxxxxxxxxxxxxxxxxxxLKKPKPTTSAAGPTGASRLSASSSSSSDSDSSGQSTSSSSSESSDSEGEKGPH
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	779	2.2.26 [Sep-21-2011]
Q6MGA9	798	Bromodomain-containing pr	yes	N/A	0.803	0.784	0.446	1e-143
Q15059	726	Bromodomain-containing pr	yes	N/A	0.792	0.849	0.457	1e-140
Q58F21	947	Bromodomain testis-specif	no	N/A	0.744	0.612	0.436	1e-136
Q4R8Y1	947	Bromodomain testis-specif	N/A	N/A	0.747	0.614	0.432	1e-134
Q91Y44	956	Bromodomain testis-specif	yes	N/A	0.725	0.591	0.424	1e-134
F1QW93	918	Bromodomain testis-specif	no	N/A	0.645	0.547	0.426	1e-122
F7DRV9	933	Bromodomain testis-specif	no	N/A	0.740	0.618	0.417	1e-115
P25440	801	Bromodomain-containing pr	no	N/A	0.463	0.450	0.493	1e-99
Q7JJ13	798	Bromodomain-containing pr	no	N/A	0.463	0.452	0.491	2e-99
Q32S26	803	Bromodomain-containing pr	no	N/A	0.463	0.449	0.488	4e-99

>sp|Q6MGA9|BRD2_RAT Bromodomain-containing protein 2 OS=Rattus norvegicus GN=Brd2 PE=2 SV=1

 Score =  508 bits (1308), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 322/721 (44%), Positives = 412/721 (57%), Gaps = 95/721 (13%)

Query: 109 PPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMD 168
           PP V    +PGR TNQLQY+ K VMKA+WKH  AWPF +PVDA+ L LPDYHK+I QPMD
Sbjct: 62  PPEVSNPKKPGRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMD 121

Query: 169 LGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
           +GTIK+RLENNYYW+  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP 
Sbjct: 122 MGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQ 181

Query: 229 EEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATS-------TPKPRPPNP 281
           EE  L    P++S KK    A+      ++  +   +++P+ +S       TP P  P  
Sbjct: 182 EEQELVVTIPKNSHKKGAKLAA------LQGSITSAHQVPAVSSVSHTALYTPPPEIPTT 235

Query: 282 VLGS-TATTTTAPKVNHLNSMNAPDTP----------DMKKAIKRKAD------------ 318
           VL     +  ++P +  L+S   P               KK +KRKAD            
Sbjct: 236 VLNIPHPSVISSPLLKSLHSAGPPLLAVSAAPPAQPLAKKKGVKRKADTTTPTPTAILAP 295

Query: 319 GSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQR---ISEEGGGGSGLGGSKTPLWYK 375
           GS    P SL P   K+A+    RRESG   K P++    S++    S  G     L  K
Sbjct: 296 GSPASPPGSLEP---KAARLPPMRRESGRPIKPPRKDLPDSQQQHQSSKKGKLSEQL--K 350

Query: 376 YCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTA 435
           +C+ I+ EL  KKH  YAWPFY PVD   LGL DY DIIK PMDL TV++KM NR Y+ A
Sbjct: 351 HCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDA 410

Query: 436 KEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE--------------S 481
           +EFA DVRL+FSNCYKYNPPDH+VV MAR+L  VFE R+AKMPDE               
Sbjct: 411 QEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKMPDEPLEPGPLPVSTALPP 470

Query: 482 NLA------------------------SRAAASVSSDDDSEDERQNQLKYLQEQLKSLTD 517
            LA                               S   DSE+ER ++L  LQEQL+++ +
Sbjct: 471 GLAKSSSESSSEESSSESSSEEEEEEDEEDEEEESESSDSEEERAHRLAELQEQLRAVHE 530

Query: 518 QIRLLVEDSTKPKKKKKKNRDQPKSKMPMGQNSAMMNDHVNKMNKAPAPLN------NGQ 571
           Q+  L +      K+K++ +++ K +        +  D  +K  +AP PL        G 
Sbjct: 531 QLAALSQGPISKPKRKREKKEKKKKRKAEKHRGRIGIDEDDKGPRAPRPLQPKKSKKAGG 590

Query: 572 KPKSLNNVRKPQASNPQQAKKPKPNNANTVAAKKQVRTFDSEDEDVAKPMSYDEKRQLSL 631
              +   +  P       +    P  A   A       +DSE+E+ ++PMSYDEKRQLSL
Sbjct: 591 GGSNATTLSHPGFGTSAGSSNKLPKKAQKTAPPVLPTGYDSEEEEESRPMSYDEKRQLSL 650

Query: 632 DINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKR-- 689
           DINKLPG+KLG+VVHIIQ+REPSLR+ NP+EIEIDFETLKPSTLRELE+YV SCLRK+  
Sbjct: 651 DINKLPGEKLGRVVHIIQAREPSLRDSNPEEIEIDFETLKPSTLRELERYVLSCLRKKPR 710

Query: 690 ----TYKKTPKPKDEKFAEKKHELEKRLQDVTSQIDSTNKKLKKP-KPTTSAAGPTGASR 744
                 K   K K+E   EKK ELEKRLQDV+ Q++ST K  KK  + T S+A     SR
Sbjct: 711 KPYTIRKPVGKTKEELALEKKRELEKRLQDVSGQLNSTKKPPKKASEKTESSAQQVAVSR 770

Query: 745 L 745
           L
Sbjct: 771 L 771

May play a role in spermatogenesis or folliculogenesis.
Rattus norvegicus (taxid: 10116)

>sp|Q15059|BRD3_HUMAN Bromodomain-containing protein 3 OS=Homo sapiens GN=BRD3 PE=1 SV=1

 Score =  499 bits (1285), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 313/684 (45%), Positives = 394/684 (57%), Gaps = 67/684 (9%)

Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRL 176
           +PGR TNQLQY+   V+K +WKH  AWPF++PVDAI LNLPDYHK+I  PMD+GTIKKRL
Sbjct: 31  KPGRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRL 90

Query: 177 ENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAP 236
           ENNYYWS  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP EEV L  P
Sbjct: 91  ENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALEKIFLQKVAQMPQEEVELLPP 150

Query: 237 QPRSSKKKPP----------VSASPSLNP----------VIKTPVIPLNKLPSATSTPKP 276
            P+   +KP           V+A  S++P          V +TPVI    +P+ T+    
Sbjct: 151 APKGKGRKPAAGAQSAGTQQVAAVSSVSPATPFQSVPPTVSQTPVIAATPVPTITANVTS 210

Query: 277 RPPNPVLGSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSA 336
            P  P        T    V              +KA       S      S  P P+   
Sbjct: 211 VPVPPAAAPPPPATPIVPVVPPTPPVVKKKGVKRKADTTTPTTSAITASRSESPPPLSDP 270

Query: 337 KQ--LNTRRESGSITKKPQRISEEGGGGSGLGGSKTPL--WYKYCSEIIAELFHKKHQNY 392
           KQ  +  RRESG    KP +   E G      G K  L    +YC  I+ E+  KKH  Y
Sbjct: 271 KQAKVVARRESGGRPIKPPKKDLEDGEVPQHAGKKGKLSEHLRYCDSILREMLSKKHAAY 330

Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           AWPFY PVD E L L DY DIIK PMDL TV++KM  R Y  A+ FA DVRL+FSNCYKY
Sbjct: 331 AWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKY 390

Query: 453 NPPDHNVVTMARQLSAVFEDRFAKMPDE-----------SNLASRAAASVSSDDDSEDER 501
           NPPDH VV MAR+L  VFE RFAKMPDE           + + S+ A S  S ++S  + 
Sbjct: 391 NPPDHEVVAMARKLQDVFEMRFAKMPDEPVEAPALPAPAAPMVSKGAESSRSSEESSSDS 450

Query: 502 Q---------NQLKYLQEQLKSLTDQIRLLVE---DSTKPKKKKKKNRDQPKSKMPMGQN 549
                      +L  LQEQLK++ +Q+  L +   +  K KK+KK+   + K K    + 
Sbjct: 451 GSSDSEEERATRLAELQEQLKAVHEQLAALSQAPVNKPKKKKEKKEKEKKKKDKEKEKEK 510

Query: 550 SAMMNDHVNKMNKAPAPLNNGQKPKSLNNVRKPQASNPQQAKKPKPNNANTVAAKKQVRT 609
             +  +   K   AP P    Q+ K+         +  +Q KK           K+   +
Sbjct: 511 HKVKAEEEKKAKVAP-PAKQAQQKKAPAKKANSTTTAGRQLKK---------GGKQASAS 560

Query: 610 FDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFET 669
           +DSE+E+   PMSYDEKRQLSLDIN+LPG+KLG+VVHIIQSREPSLR+ NPDEIEIDFET
Sbjct: 561 YDSEEEEEGLPMSYDEKRQLSLDINRLPGEKLGRVVHIIQSREPSLRDSNPDEIEIDFET 620

Query: 670 LKPSTLRELEQYVSSCLRKRTY--------KKTPKPKDEKFAEKKHELEKRLQDVTSQID 721
           LKP+TLRELE+YV SCL+K+          K+  K K+E   EKK ELEKRLQDV+ Q+ 
Sbjct: 621 LKPTTLRELERYVKSCLQKKQRKPFSASGKKQAAKSKEELAQEKKKELEKRLQDVSGQLS 680

Query: 722 STNKKLKKPKPTTSAAGPTGASRL 745
           S+ K  +K KP ++ +G  G SRL
Sbjct: 681 SSKKPARKEKPGSAPSG--GPSRL 702

Homo sapiens (taxid: 9606)

>sp|Q58F21|BRDT_HUMAN Bromodomain testis-specific protein OS=Homo sapiens GN=BRDT PE=1 SV=4

 Score =  486 bits (1252), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 293/672 (43%), Positives = 390/672 (58%), Gaps = 92/672 (13%)

Query: 106 IVQPPVVPPKH----RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHK 161
           IV PP  PP++    + GR TNQLQY+ K V+K +WKH  +WPF  PVDA+ L LPDY+ 
Sbjct: 11  IVNPP--PPEYINTKKNGRLTNQLQYLQKVVLKDLWKHSFSWPFQRPVDAVKLQLPDYYT 68

Query: 162 VITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLT 221
           +I  PMDL TIKKRLEN YY    E I+DF TMF+NCY+YNKPG+D+VLMAQ LE+LF+ 
Sbjct: 69  IIKNPMDLNTIKKRLENKYYAKASECIEDFNTMFSNCYLYNKPGDDIVLMAQALEKLFMQ 128

Query: 222 KITGMPSEEVVLDAPQ--PRSSKKKPPVS-ASPSLNPVIKTPVIPLNKLPSATSTPKPRP 278
           K++ MP EE V+   +   + +++   VS A    +P     V    ++PS        P
Sbjct: 129 KLSQMPQEEQVVGVKERIKKGTQQNIAVSSAKEKSSPSATEKVFKQQEIPSVFPKTSISP 188

Query: 279 PNPVLGSTATTT--TAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSA 336
            N V G++  ++  TA +V               K +KRKAD +   TP++   + VK++
Sbjct: 189 LNVVQGASVNSSSQTAAQVT--------------KGVKRKADTT---TPAT---SAVKAS 228

Query: 337 KQLNTRRESGSITKKPQR-------ISEEGGGGSGLGGSKTPLWYKYCSEIIAELFHKKH 389
            + +      S+   P +       + +     + +   K     ++CSEI+ E+  KKH
Sbjct: 229 SEFSPTFTEKSVALPPIKENMPKNVLPDSQQQYNVVKTVKVTEQLRHCSEILKEMLAKKH 288

Query: 390 QNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNC 449
            +YAWPFY PVDV  LGL +Y+D++K PMDLGT+++KM N+ YK A +FA DVRL+F NC
Sbjct: 289 FSYAWPFYNPVDVNALGLHNYYDVVKNPMDLGTIKEKMDNQEYKDAYKFAADVRLMFMNC 348

Query: 450 YKYNPPDHNVVTMARQLSAVFEDRFAKMP--------------DESNLASR-----AAAS 490
           YKYNPPDH VVTMAR L  VFE  F+K+P              D +    R     A++ 
Sbjct: 349 YKYNPPDHEVVTMARMLQDVFETHFSKIPIEPVESMPLCYIKTDITETTGRENTNEASSE 408

Query: 491 VSSDDDSEDERQNQLKYLQEQLKSLTDQIRLLVEDSTKPKKKKKKNRDQPKSKMPMGQNS 550
            +S DDSEDER  +L  LQEQLK++  Q+++L                   S++P     
Sbjct: 409 GNSSDDSEDERVKRLAKLQEQLKAVHQQLQVL-------------------SQVPF---- 445

Query: 551 AMMNDHVNKMNKAPAPLNNGQKPKSLNNVRK-PQASNPQQAKKPKPNNANTVAAKKQVRT 609
                   K+NK        +K + +NN  + P+    Q   K K         K+Q   
Sbjct: 446 -------RKLNKKKEKSKKEKKKEKVNNSNENPRKMCEQMRLKEKSKRNQPKKRKQQFIG 498

Query: 610 FDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFET 669
             SEDED AKPM+YDEKRQLSL+INKLPGDKLG+VVHIIQSREPSL   NPDEIEIDFET
Sbjct: 499 LKSEDEDNAKPMNYDEKRQLSLNINKLPGDKLGRVVHIIQSREPSLSNSNPDEIEIDFET 558

Query: 670 LKPSTLRELEQYVSSCLRKRTY----KKTPKPKDEKFAEKKHELEKRLQDVTSQIDSTNK 725
           LK STLRELE+YVS+CLRKR      KK    K+E  ++KK ELEKRL DV +Q++S  +
Sbjct: 559 LKASTLRELEKYVSACLRKRPLKPPAKKIMMSKEELHSQKKQELEKRLLDVNNQLNSRKR 618

Query: 726 KLKKPKPTTSAA 737
           + K  K   S A
Sbjct: 619 QTKSDKTQPSKA 630

May play a role in the transcriptional regulation of spermatogenesis. Seems to have a structural ATP-independent role in the reorganization of acetylated chromatin.

Homo sapiens (taxid: 9606)

>sp|Q4R8Y1|BRDT_MACFA Bromodomain testis-specific protein OS=Macaca fascicularis GN=BRDT PE=2 SV=3

 Score =  481 bits (1237), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 290/670 (43%), Positives = 386/670 (57%), Gaps = 88/670 (13%)

Query: 106 IVQPPVVPPKH----RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHK 161
           IV PP  PP++    + GR TNQLQY+ K V+K +WKH  +WPF  PVDA+ L LPDY+ 
Sbjct: 11  IVNPP--PPEYINTKKNGRLTNQLQYLQKVVLKDLWKHSFSWPFQRPVDAVKLKLPDYYT 68

Query: 162 VITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLT 221
           +I  PMDL TIKKRLEN YY    E I+DF TMF+NCY+YNKPG+D+VLMAQ LE+LF+ 
Sbjct: 69  IIKNPMDLNTIKKRLENKYYVKASECIEDFNTMFSNCYLYNKPGDDIVLMAQALEKLFVQ 128

Query: 222 KITGMPSEEVVLDAPQ--PRSSKKKPPV-SASPSLNPVIKTPVIPLNKLPSATSTPKPRP 278
           K++ MP EE V+   +   + +++   V SA    +P     V     +PS        P
Sbjct: 129 KLSQMPQEEQVVGGKERIKKGTQQNIAVFSAKEKSSPNATEKVFKQQAIPSVFPKTSVSP 188

Query: 279 PNPVLGSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAKQ 338
            N   G++  +++                 + K +KRKAD +   TP++   + VK++ +
Sbjct: 189 LNVAQGASVNSSSQ------------SVAQVTKGVKRKADTT---TPAT---SVVKASSE 230

Query: 339 LNTRRESGSITKKPQR-------ISEEGGGGSGLGGSKTPLWYKYCSEIIAELFHKKHQN 391
            +      S+T  P +       + +     + +   K     ++CSEI+ E+  KKH +
Sbjct: 231 FSPTFTEKSVTLPPIKENMPKNVLPDSQQQYNVVKSVKVTEQLRHCSEILKEMLAKKHFS 290

Query: 392 YAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYK 451
           YAWPFY PVDV  LGL +Y+DI+K PMDLGT+++KM N+ YK A +FA DVRL+F NCYK
Sbjct: 291 YAWPFYNPVDVNALGLHNYYDIVKNPMDLGTIKEKMDNQEYKDAYKFAADVRLMFMNCYK 350

Query: 452 YNPPDHNVVTMARQLSAVFEDRFAKMP--------------DESNLASR-----AAASVS 492
           YNPPDH VVTMAR L  VFE  F+K+P              D +    R     A++  +
Sbjct: 351 YNPPDHEVVTMARMLQDVFETHFSKIPVEPVESMPLCYIKTDITETTGRENTNEASSEGN 410

Query: 493 SDDDSEDERQNQLKYLQEQLKSLTDQIRLLVEDSTKPKKKKKKNRDQPKSKMPMGQNSAM 552
           S  DSEDER  +L  LQEQLK++  Q+++L                   S++P       
Sbjct: 411 SSGDSEDERVQRLAKLQEQLKAVHQQLQVL-------------------SQVPF------ 445

Query: 553 MNDHVNKMNKAPAPLNNGQKPKSLNNVRK-PQASNPQQAKKPKPNNANTVAAKKQVRTFD 611
                 K+NK        +K + +NN  + P+    Q   K K         K+Q     
Sbjct: 446 -----RKLNKKKEKSKKEKKKEKVNNSNENPRKMCEQMRLKEKSKRNQPKKRKQQYIGQK 500

Query: 612 SEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLK 671
           SEDED AKPM+YDEKRQLSL+INKLPGDKLG+VVHIIQSREPSL   NPDEIEIDFETLK
Sbjct: 501 SEDEDNAKPMNYDEKRQLSLNINKLPGDKLGRVVHIIQSREPSLSNSNPDEIEIDFETLK 560

Query: 672 PSTLRELEQYVSSCLRKRTY----KKTPKPKDEKFAEKKHELEKRLQDVTSQIDSTNKKL 727
            STLRELE+YVS+CLRKR      KK    K+E  ++KK ELEKRL DV +Q++S  ++ 
Sbjct: 561 ASTLRELEKYVSACLRKRPLKPPAKKIMMSKEELHSQKKQELEKRLLDVNNQLNSRKRQT 620

Query: 728 KKPKPTTSAA 737
           K  K   S A
Sbjct: 621 KSEKTQPSKA 630

May play a role in the transcriptional regulation of spermatogenesis. Seems to have a structural ATP-independent role in the reorganization of acetylated chromatin.

Macaca fascicularis (taxid: 9541)

>sp|Q91Y44|BRDT_MOUSE Bromodomain testis-specific protein OS=Mus musculus GN=Brdt PE=1 SV=3

 Score =  479 bits (1232), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 285/672 (42%), Positives = 382/672 (56%), Gaps = 107/672 (15%)

Query: 105 GIVQPPVVPPKH----RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYH 160
            IV PP  PP++    + GR TNQLQ++ + V+KA+WKH  +WPF +PVDA+ L LPDY+
Sbjct: 9   AIVNPP--PPEYINTKKSGRLTNQLQFLQRVVLKALWKHGFSWPFQQPVDAVKLKLPDYY 66

Query: 161 KVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFL 220
            +I  PMDL TIKKRLEN YY    E I+DF TMF+NCY+YNK G+D+V+MAQ LE+LF+
Sbjct: 67  TIIKTPMDLNTIKKRLENKYYEKASECIEDFNTMFSNCYLYNKTGDDIVVMAQALEKLFM 126

Query: 221 TKITGMPSEEVVLDAPQ--PRSSKKKPPVSASPSLNPVIKTP-VIPLNKLPSATSTPKPR 277
            K++ MP EE V+   +   +  ++K  VS++    P      V    ++PS        
Sbjct: 127 QKLSQMPQEEQVVGGKERIKKDIQQKIAVSSAKEQIPSKAAENVFKRQEIPSGL------ 180

Query: 278 PPNPVLGSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHT----PSSLHPTPV 333
            P+  L        AP +    S+       + K +KR+AD +   T     SS  P  +
Sbjct: 181 -PDISLSPLNMAQEAPPICDSQSL-----VQITKGVKRRADTTTPTTSIAKASSESPPTL 234

Query: 334 KSAKQLNTRRESGSITKKPQRISEEGGGGSGLGGSKTPLWYKYCSEIIAELFHKKHQNYA 393
           +  K +N   +  ++      + +       L   K     K+CSEI+ E+  KKH  YA
Sbjct: 235 RETKPVNMPVKENTVKN---VLPDSQQQHKVLKTVKVTEQLKHCSEILKEMLAKKHLPYA 291

Query: 394 WPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYN 453
           WPFY PVD + LGL +Y+D++K PMDLGT++ KM N+ YK A EFA DVRL+F NCYKYN
Sbjct: 292 WPFYNPVDADALGLHNYYDVVKNPMDLGTIKGKMDNQEYKDAYEFAADVRLMFMNCYKYN 351

Query: 454 PPDHNVVTMARQLSAVFEDRFAKMPDE-------SNLASRAAASV------------SSD 494
           PPDH VV MAR L  VFE  FAK+PDE        +L + +A ++            +S 
Sbjct: 352 PPDHEVVAMARTLQDVFELHFAKIPDEPIESMHACHLTTNSAQALSRESSSEASSGDASS 411

Query: 495 DDSEDERQNQLKYLQEQLKSLTDQIRLLVE------------DSTKPKKKKKKNRDQPKS 542
           +DSEDER   L  LQEQL ++  Q+++L +                PK+KK  NRD+   
Sbjct: 412 EDSEDERVQHLAKLQEQLNAVHQQLQVLSQVPLRKLKKKNEKSKRAPKRKKVNNRDE--- 468

Query: 543 KMPMGQNSAMMNDHVNKMNKAPAPLNNGQKPKSLNNVRKPQASNPQQAKKPKPNNANTVA 602
                                    N  +KPK +           +Q +K K N      
Sbjct: 469 -------------------------NPRKKPKQM-----------KQKEKAKINQPKKKK 492

Query: 603 AKKQVRTFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDE 662
              +     SE+ED AKPM+YDEKRQLSLDINKLPGDKLG++VHIIQSREPSLR  NPDE
Sbjct: 493 PLLK-----SEEEDNAKPMNYDEKRQLSLDINKLPGDKLGRIVHIIQSREPSLRNSNPDE 547

Query: 663 IEIDFETLKPSTLRELEQYVSSCLRKRTY----KKTPKPKDEKFAEKKHELEKRLQDVTS 718
           IEIDFETLK STLRELE+YV +CLRKR+     KK  + K+E  +EKK ELE+RL DV +
Sbjct: 548 IEIDFETLKASTLRELEKYVLACLRKRSLKPQAKKVVRSKEELHSEKKLELERRLLDVNN 607

Query: 719 QIDSTNKKLKKP 730
           Q++   ++ K+P
Sbjct: 608 QLNCRKRQTKRP 619

May play a role in the transcriptional regulation of spermatogenesis. Seems to have a structural ATP-independent role in the reorganization of acetylated chromatin.

Mus musculus (taxid: 10090)

>sp|F1QW93|BRDT_DANRE Bromodomain testis-specific protein OS=Danio rerio GN=brdt PE=2 SV=2

 Score =  441 bits (1134), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 262/615 (42%), Positives = 343/615 (55%), Gaps = 112/615 (18%)

Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRL 176
           +PGR TN LQYI K V++A+WKH  +WPF +PVDA+ LNLPDY+ +I  PMDL TI+KRL
Sbjct: 26  KPGRLTNHLQYIEKVVIRALWKHHFSWPFRQPVDAVRLNLPDYYTIIKNPMDLTTIRKRL 85

Query: 177 ENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAP 236
           ENNYYW   E ++DF TMFTNCYVYN+PG+D+VLMAQ LE+LFL K+  MP EE  + A 
Sbjct: 86  ENNYYWKAMECVEDFNTMFTNCYVYNRPGDDIVLMAQVLEKLFLEKVAEMPEEEYEISA- 144

Query: 237 QPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATSTPKPRPPNPVLGSTATTTTAPKVN 296
                  K PV  +       +   I L K P       P P + V+     T   P   
Sbjct: 145 ----LTTKGPVKGA-------RKSTIGLKKRP-------PSPMSEVVFQQTVTVIPPDAL 186

Query: 297 HL---NSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAK--------QLNTRRES 345
           H      ++A  T  +K  +KRKAD +   TPS+      +S+         +L +RR S
Sbjct: 187 HTIPSAPLSAQLTAKLKNGVKRKADTT---TPSASSIPSCESSSCVTEPKVLKLFSRRGS 243

Query: 346 GSITKKPQRISEEGGGGSGLGG-SKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEK 404
           G   K P +   E      +G  +K     KYC+ I+ E+F KKH  YAWPFY PVD E 
Sbjct: 244 GRPIKPPCKDLPESPPQHQVGRRTKLSERLKYCNAILKEMFSKKHSAYAWPFYKPVDAET 303

Query: 405 LGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMAR 464
           LGL DY +II +PMD+ T++KKM  R Y  A +FA D+RL+FSNCYKYNPP H VV+MAR
Sbjct: 304 LGLLDYHEIIHQPMDMSTIKKKMEAREYTDALQFAADMRLMFSNCYKYNPPGHEVVSMAR 363

Query: 465 QLSAVFEDRFAKMPDESNLASRAAASVSSDDDSEDERQ---------------------- 502
           +L  VFE RF+K+PDE     + A  VSS +  + ER                       
Sbjct: 364 KLQDVFEFRFSKIPDEP----KNANPVSSHNRVKKERARSPSSSESSDSESSSPENSSDT 419

Query: 503 ---------NQLKYLQEQ-LKSLTDQIRLLVEDSTKPKKKKKKNRDQPKSKMPMGQNSAM 552
                    ++L  L+EQ LK++ +Q++LL                   ++ P+ +    
Sbjct: 420 EEEDEEERAHRLASLEEQQLKAVREQLQLL-------------------TQTPLSKILKR 460

Query: 553 MNDHVNKMNKAPAPLNNGQKPKSLNNVRKPQASNPQQAKKPKPNNANTVAAKKQVRTFDS 612
            +   +   K    +N+ +KPK                        N+V  +K+ R  DS
Sbjct: 461 SSSSKSSGCKVCTMMNSLKKPK-----------------------FNSVLRRKESRACDS 497

Query: 613 EDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKP 672
           E+E    PMSY+EKRQLSLDINKLPGDKLGKVV+II++REP LR+ +P+EIEIDFETLKP
Sbjct: 498 EEEMNTLPMSYEEKRQLSLDINKLPGDKLGKVVNIIKAREPLLRDTDPEEIEIDFETLKP 557

Query: 673 STLRELEQYVSSCLR 687
           STLR LE YV  CLR
Sbjct: 558 STLRALECYVVGCLR 572

Testis-specific chromatin protein that specifically binds histone H4 acetylated at 'Lys-5' and 'Lys-8' (H4K5ac and H4K8ac, respectively) and plays a key role in spermatogenesis. Required in late pachytene spermatocytes: plays a role in meiotic and post-meiotic cells by binding to acetylated histones at the promoter of specific meiotic and post-meiotic genes, facilitating their activation at the appropriate time. In the post-meiotic phase of spermatogenesis, binds to hyperacetylated histones and participates in their general removal from DNA.

Danio rerio (taxid: 7955)

>sp|F7DRV9|BRDT_XENTR Bromodomain testis-specific protein OS=Xenopus tropicalis GN=brdt PE=3 SV=1

 Score =  416 bits (1070), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 282/675 (41%), Positives = 370/675 (54%), Gaps = 98/675 (14%)

Query: 106 IVQPPVVPPKH----RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHK 161
           IV PP  PP++    + GR TNQLQY+ K V+KA+W+H  +WPF +PVDA  LNLPDY++
Sbjct: 12  IVNPP--PPEYINRKKTGRLTNQLQYLEKVVLKALWRHHFSWPFQQPVDAAKLNLPDYYQ 69

Query: 162 VITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLT 221
           +I  PMDL TI+KRLE NYY    + IQDF TMFTNCY+YNKPG+D+V+M+Q LE++F+ 
Sbjct: 70  IIKNPMDLSTIRKRLEYNYYSKALDCIQDFNTMFTNCYIYNKPGDDIVVMSQELEKVFME 129

Query: 222 KITGMPSEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATSTPKPRPPNP 281
           KI  MP EE+ L     R  K +  +SA  +   V K  ++   K+   T       P P
Sbjct: 130 KIAEMPHEEIELSVVGNRGVKSRIKISAVAA--EVCKKKMVS-QKMHRRTF------PCP 180

Query: 282 VLGSTATTTTAPKVNHLN----SMNAPDTPDMKKAIKRKADG---SIDHTPSSLHPTPVK 334
           V+      TT   ++ +     S +A     + K IKRKAD    ++    +S   +P  
Sbjct: 181 VIAMMPKRTTLVPLSVIRSSTSSHSASSVSKVNKGIKRKADTTTPAVSLIATSCESSPTL 240

Query: 335 SA----KQLNTRRESGSITKKPQRISEEGGGGSGLGGSKTPLWYKYCSEIIAELFHKKHQ 390
           S     K L+   ++ S       + +       +  ++     K+C+ I+ E+  KKH 
Sbjct: 241 SEPKPNKILSGTEKTRSAETSAVDLPDSQHHIHFIKSNQICEQLKHCNNILNEMMSKKHA 300

Query: 391 NYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY 450
            YAWPFY  V      L D  D IK PMDL T+R KM N  YK  ++FA DVRL+F N Y
Sbjct: 301 EYAWPFYKTVI--PTSLLDCSDAIKHPMDLATIRDKMENGLYKDTQDFASDVRLMFMNSY 358

Query: 451 KYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASRAAA----------------SVSSD 494
           KYNPPD+ VV MAR++  VFE  FAK+PD+  LA+++                    SS 
Sbjct: 359 KYNPPDNEVVNMARKMQDVFEGMFAKIPDDP-LATQSMVERYKTSTEESSSSSSSEQSSS 417

Query: 495 DDSEDERQNQLKYLQEQLKSLTDQIRLLVEDSTKPKKKKKKNRDQPKSKMPMGQNSAMMN 554
            DSEDER   L  LQEQL+++ +Q++ L E     K        QPKS       +  + 
Sbjct: 418 SDSEDERAQHLALLQEQLRAVQEQLKALTETPIFSK-------IQPKS-------AVGVY 463

Query: 555 DHVNKMNKAPAPLNNGQKPKSLNNVRKPQASNPQQAKKPKPNNANTVAAKKQVRTFDSED 614
           D   +  K   P+    K                              AKK+      E+
Sbjct: 464 DKYKQWVKCIEPMGKLLK------------------------RKKNYDAKKKKLHVSDEE 499

Query: 615 EDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPST 674
           EDV KPMSYDEKRQLSLDINKLPG+KLG++VHIIQSREPSL++ NP+EIEIDFETLK ST
Sbjct: 500 EDV-KPMSYDEKRQLSLDINKLPGEKLGRIVHIIQSREPSLKDSNPNEIEIDFETLKQST 558

Query: 675 LRELEQYVSSCLRKRTYK----KTPKPKDEKFAEKKHELEKRLQDVTSQIDSTNKKLKKP 730
           LR LE+YV  CLRKR  K    K+ K K++   EKK ELEKRL+DV+ Q+ S     KKP
Sbjct: 559 LRHLEKYVMVCLRKRPKKPSSIKSLKSKEQLNKEKKQELEKRLRDVSGQLSSA----KKP 614

Query: 731 K------PTTSAAGP 739
           K      P  S  GP
Sbjct: 615 KIQGFLYPMQSIGGP 629

Testis-specific chromatin protein that specifically binds histone H4 acetylated at 'Lys-5' and 'Lys-8' (H4K5ac and H4K8ac, respectively) and plays a key role in spermatogenesis. Required in late pachytene spermatocytes: plays a role in meiotic and post-meiotic cells by binding to acetylated histones at the promoter of specific meiotic and post-meiotic genes, facilitating their activation at the appropriate time. In the post-meiotic phase of spermatogenesis, binds to hyperacetylated histones and participates in their general removal from DNA.

Xenopus tropicalis (taxid: 8364)

>sp|P25440|BRD2_HUMAN Bromodomain-containing protein 2 OS=Homo sapiens GN=BRD2 PE=1 SV=2

 Score =  365 bits (936), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 200/405 (49%), Positives = 249/405 (61%), Gaps = 44/405 (10%)

Query: 109 PPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMD 168
           PP V    +PGR TNQLQY+ K VMKA+WKH  AWPF +PVDA+ L LPDYHK+I QPMD
Sbjct: 63  PPEVSNPKKPGRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMD 122

Query: 169 LGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
           +GTIK+RLENNYYW+  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP 
Sbjct: 123 MGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQ 182

Query: 229 EEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATS-------TPKPRPPNP 281
           EE  L    P++S KK    A+      ++  V   +++P+ +S       TP P  P  
Sbjct: 183 EEQELVVTIPKNSHKKGAKLAA------LQGSVTSAHQVPAVSSVSHTALYTPPPEIPTT 236

Query: 282 VLGS-TATTTTAPKVNHLNSMNAPDTP----------DMKKAIKRKAD------------ 318
           VL     +  ++P +  L+S   P               KK +KRKAD            
Sbjct: 237 VLNIPHPSVISSPLLKSLHSAGPPLLAVTAAPPAQPLAKKKGVKRKADTTTPTPTAILAP 296

Query: 319 GSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQR---ISEEGGGGSGLGGSKTPLWYK 375
           GS    P SL P   K+A+    RRESG   K P++    S++    S  G     L  K
Sbjct: 297 GSPASPPGSLEP---KAARLPPMRRESGRPIKPPRKDLPDSQQQHQSSKKGKLSEQL--K 351

Query: 376 YCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTA 435
           +C+ I+ EL  KKH  YAWPFY PVD   LGL DY DIIK PMDL TV++KM NR Y+ A
Sbjct: 352 HCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDA 411

Query: 436 KEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           +EFA DVRL+FSNCYKYNPPDH+VV MAR+L  VFE R+AKMPDE
Sbjct: 412 QEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKMPDE 456

May play a role in spermatogenesis or folliculogenesis.

Homo sapiens (taxid: 9606)

>sp|Q7JJ13|BRD2_MOUSE Bromodomain-containing protein 2 OS=Mus musculus GN=Brd2 PE=1 SV=1

 Score =  364 bits (934), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 199/405 (49%), Positives = 249/405 (61%), Gaps = 44/405 (10%)

Query: 109 PPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMD 168
           PP V    +PGR TNQLQY+ K VMKA+WKH  AWPF +PVDA+ L LPDYHK+I QPMD
Sbjct: 62  PPEVSNPKKPGRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMD 121

Query: 169 LGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
           +GTIK+RLENNYYW+  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP 
Sbjct: 122 MGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQ 181

Query: 229 EEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATS-------TPKPRPPNP 281
           EE  L    P++S KK    A+      ++  +   +++P+ +S       TP P  P  
Sbjct: 182 EEQELVVTIPKNSHKKGAKLAA------LQGSITSAHQVPAVSSVSHTALYTPPPEIPTT 235

Query: 282 VLGS-TATTTTAPKVNHLNSMNAPDTP----------DMKKAIKRKAD------------ 318
           VL     +  ++P +  L+S   P               KK +KRKAD            
Sbjct: 236 VLNIPHPSVISSPLLKSLHSAGPPLLAVSAAPPAQPLAKKKGVKRKADTTTPTPTAILAP 295

Query: 319 GSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQR---ISEEGGGGSGLGGSKTPLWYK 375
           GS    P SL P   K+A+    RRESG   K P++    S++    S  G     L  K
Sbjct: 296 GSPASPPGSLEP---KAARLPPMRRESGRPIKPPRKDLPDSQQQHQSSKKGKLSEQL--K 350

Query: 376 YCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTA 435
           +C+ I+ EL  KKH  YAWPFY PVD   LGL DY DIIK PMDL TV++KM NR Y+ A
Sbjct: 351 HCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDA 410

Query: 436 KEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           +EFA DVRL+FSNCYKYNPPDH+VV MAR+L  VFE R+AKMPDE
Sbjct: 411 QEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKMPDE 455

May play a role in spermatogenesis or folliculogenesis.

Mus musculus (taxid: 10090)

>sp|Q32S26|BRD2_BOVIN Bromodomain-containing protein 2 OS=Bos taurus GN=BRD2 PE=3 SV=1

 Score =  363 bits (931), Expect = 4e-99,   Method: Compositional matrix adjust.
 Identities = 198/405 (48%), Positives = 248/405 (61%), Gaps = 44/405 (10%)

Query: 109 PPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMD 168
           PP V    +PGR TNQLQY+ K VMKA+WKH  AWPF +PVDA+ L LPDYHK+I QPMD
Sbjct: 63  PPEVSNPKKPGRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMD 122

Query: 169 LGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
           +GTIK+RLENNYYW+  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP 
Sbjct: 123 MGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQ 182

Query: 229 EEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATS-------TPKPRPPNP 281
           EE  L    P++S KK    A+      ++  +   +++P+ +S       TP P  P  
Sbjct: 183 EEQELVVTIPKNSHKKGAKLAA------LQGSITSAHQVPAVSSVSHTALYTPPPEIPTT 236

Query: 282 VLGS-TATTTTAPKVNHLNSMNAPDTP----------DMKKAIKRKAD------------ 318
           VL     +  ++P +  L+S   P               KK +KRKAD            
Sbjct: 237 VLNIPHPSVISSPLLKSLHSAGPPLLAVSAAPPAQPLAKKKGVKRKADTTTPTPTAILAP 296

Query: 319 GSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQR---ISEEGGGGSGLGGSKTPLWYK 375
           GS    P  L P   K+A+    RRESG   K P++    S++    S  G     L  K
Sbjct: 297 GSPASPPGGLEP---KAARLPPVRRESGRPIKPPRKDLPDSQQQHQSSKKGKLSEQL--K 351

Query: 376 YCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTA 435
           +C+ I+ EL  KKH  YAWPFY PVD   LGL DY DIIK PMDL TV++KM NR Y+ A
Sbjct: 352 HCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDA 411

Query: 436 KEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           +EFA DVRL+FSNCYKYNPPDH+VV MAR+L  VFE R+AKMPDE
Sbjct: 412 QEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKMPDE 456

Bos taurus (taxid: 9913)

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	779
307182453	1541	Homeotic protein female sterile [Campono	0.838	0.423	0.472	1e-172
322801602	877	hypothetical protein SINV_03245 [Solenop	0.835	0.742	0.472	1e-165
242009661	803	Bromodomain-containing protein, putative	0.848	0.823	0.496	1e-161
328703281	1162	PREDICTED: hypothetical protein LOC10016	0.807	0.541	0.483	1e-160
270001347	815	hypothetical protein TcasGA2_TC030708 [T	0.830	0.793	0.475	1e-150
321456065	754	hypothetical protein DAPPUDRAFT_302185 [	0.736	0.761	0.484	1e-149
432094627	881	Bromodomain-containing protein 2 [Myotis	0.808	0.715	0.454	1e-141
47059183	798	bromodomain-containing protein 2 [Rattus	0.803	0.784	0.446	1e-141
327288352	734	PREDICTED: bromodomain-containing protei	0.790	0.839	0.461	1e-141
417404197	725	Putative transcription initiation factor	0.771	0.828	0.456	1e-140

>gi|307182453|gb|EFN69688.1| Homeotic protein female sterile [Camponotus floridanus]

 Score =  612 bits (1578), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 395/836 (47%), Positives = 477/836 (57%), Gaps = 183/836 (21%)

Query: 91  EPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVD 150
           EPPPRDEP LEPV+GIVQPPVVPP +RPGR TNQLQ++ K V+K VWKH  AWPF +PVD
Sbjct: 60  EPPPRDEPPLEPVNGIVQPPVVPPPNRPGRITNQLQFLQKGVLKPVWKHQFAWPFQQPVD 119

Query: 151 AINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVL 210
           A  LNLPDYHK+I +PMDLGTIKKRLEN+YYWSGKE IQDF TMFTNCYVYNKPGEDVV+
Sbjct: 120 AKKLNLPDYHKIIKKPMDLGTIKKRLENSYYWSGKECIQDFNTMFTNCYVYNKPGEDVVV 179

Query: 211 MAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKKK-----------------PPVSASPSL 253
           MAQ LE+LFLTK+  MP EEV LD P P+  K K                       P+ 
Sbjct: 180 MAQALEKLFLTKVAQMPKEEVELDPPVPKGPKGKKAGRVGGPGVGGLAGGTGAGRGRPAS 239

Query: 254 NPVIKTPVIPLNKLPSATST------PKP----RPPNPVLGSTATTTTAP----KVNHLN 299
                T  +P N  PSATS       P P    + P  V GST TTT AP     V  + 
Sbjct: 240 GAAAVTSSVPNNLTPSATSAGTTGVIPMPPLGTQAPVSVPGSTNTTTIAPPSSMGVAPMA 299

Query: 300 SMNA----------------------------------------PDTP-DMKKAIKRKAD 318
           + N+                                        P  P  +KK +KRKAD
Sbjct: 300 THNSLPQQVVPPTTGYHAQPAMDPQAASAVPPPPQVPTTPTVMPPSQPAKLKKGVKRKAD 359

Query: 319 GSIDHTPSSLHP--TPVKSAK-QLNTRRESGSITKKPQRISEEG------------GG-- 361
            +   T ++  P  TP+ S   ++  RRESG   KKP R +E+G            G   
Sbjct: 360 TTTP-TANAYDPMYTPLDSKNAKIPMRRESGRQIKKPTRQAEDGLVPYHQANMPLMGAMA 418

Query: 362 ----GSGL-GGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKK 416
                +G+ G  K     K C++I+ ELF KKH +YAWPFY PVD E LGL DY +IIKK
Sbjct: 419 QQPSHTGVKGKEKLSEALKSCNDILKELFAKKHSSYAWPFYKPVDAELLGLHDYHEIIKK 478

Query: 417 PMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAK 476
           PMDLGTV+ KM NR YKTA EFA DVRLIF+NCYKYNPPDH+VV+MAR+L  +FE R+AK
Sbjct: 479 PMDLGTVKAKMDNRQYKTAHEFASDVRLIFTNCYKYNPPDHDVVSMARKLQDIFEMRYAK 538

Query: 477 MPDESNLASRAA---------------ASVSSDDDSEDERQNQLKYLQEQLKSLTDQIRL 521
           +PDE   +S  A               +S  +DD  E++R  +L  LQ++LK++ +Q+R 
Sbjct: 539 VPDEPMGSSIVAMKGSSSGSATSSGGESSSETDDSVEEQRTQKLLALQQELKAMQEQMRK 598

Query: 522 LVEDSTKPKKKKKKNRDQPKSKMPMGQNSAMMNDHVNKM--------------------- 560
           LVE+S K K KKKK        M   +NS+++  H   M                     
Sbjct: 599 LVEESGKKKNKKKKPDKPKSKPMS-NKNSSLVASHTGAMKELMKPSGGIPSVTDSVGASI 657

Query: 561 -----------------------------NKAPAPLNNGQK-PKSLNNVRKPQASNPQQA 590
                                        NKA A  N G   P + N  +K ++  P +A
Sbjct: 658 ASVAMGAGDLKMPGGMGSDLHHQSTAVGPNKAHAAGNLGHHLPPAANAKQKGKSRGPGKA 717

Query: 591 --------KKPKPNNANTVAAKKQVR------TFDSEDEDVAKPMSYDEKRQLSLDINKL 636
                   K+PK N+ +    KK         TFDSEDED AKPMSYDEKRQLSLDINKL
Sbjct: 718 ATTANPATKRPKANSRSAGNKKKNTGSQPPPITFDSEDEDNAKPMSYDEKRQLSLDINKL 777

Query: 637 PGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKRTYKK-TP 695
           PGDKLG+VVHIIQSREPSLR+ NPDEIEIDFETLKPSTLRELE YV+SCLRK+ +KK + 
Sbjct: 778 PGDKLGRVVHIIQSREPSLRDSNPDEIEIDFETLKPSTLRELESYVASCLRKKPHKKVSG 837

Query: 696 KPKDEKFAEKKHELEKRLQDVTSQIDSTNKKLKKPKPTT------SAAGPTGASRL 745
           K KDE+ AEKK ELEKRLQDVT Q+ + NKK  K + ++         G +G SRL
Sbjct: 838 KSKDEQMAEKKQELEKRLQDVTGQLGNVNKKTAKKEDSSKSVDVVGTGGASGPSRL 893

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322801602|gb|EFZ22243.1| hypothetical protein SINV_03245 [Solenopsis invicta]

 Score =  590 bits (1520), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 394/833 (47%), Positives = 463/833 (55%), Gaps = 182/833 (21%)

Query: 91  EPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVD 150
           EPPPRDEP LEPV+GIVQPPVVPP +RPGR TNQLQ++ K V+K VWKH  AWPF +PVD
Sbjct: 19  EPPPRDEPPLEPVNGIVQPPVVPPPNRPGRITNQLQFLQKGVLKPVWKHQFAWPFQQPVD 78

Query: 151 AINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVL 210
           A  LNLPDYHK+I +PMDLGTIKKRLEN+YYWSGKE IQDF TMFTNCYVYNKPGEDVV+
Sbjct: 79  AKKLNLPDYHKIIKKPMDLGTIKKRLENSYYWSGKECIQDFNTMFTNCYVYNKPGEDVVV 138

Query: 211 MAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKKK-------PPVSA--------SPSLNP 255
           MAQ LE+LFLTK+  MP EEV LD P P+  K K       P V A         PS   
Sbjct: 139 MAQALEKLFLTKVAQMPKEEVELDPPVPKGPKGKKTGRVGGPGVGAVTPGAGRGRPSSGA 198

Query: 256 VIKTPVIPLNKLPSATST------PKP----RPPNPVLGSTATTTTAP----KVNHLNSM 301
              T  +P +  PSATS       P P    + P  V GST TTT AP     V  + + 
Sbjct: 199 AAVTSSVPNSLTPSATSAGTTGVIPMPPLGTQAPVSVPGSTNTTTIAPPSSMGVTPMATH 258

Query: 302 NA----------------------------------------PDTP-DMKKAIKRKADGS 320
           N+                                        P  P  +KK +KRKAD +
Sbjct: 259 NSLPQQVVPPTTGYHAQPAMDPQTAAAVPPPPQVPATPTVMPPSQPAKLKKGVKRKADTT 318

Query: 321 IDHTPSS------LHPTPVKSAKQLNTRRESGSITKKPQRISEEG------------GG- 361
              TP++        P   K+AK + TRRESG   KKP R +E+G            G  
Sbjct: 319 ---TPTANAFDPLYAPMDSKNAK-IPTRRESGRQIKKPTRQAEDGLVPYHQANMPLMGAM 374

Query: 362 -----GSGLGG-SKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIK 415
                 +G+ G  K     K C++I+ ELF KKH  YAWPFY PVD E LGL DY +IIK
Sbjct: 375 AQQPPHAGVKGKEKLSEALKSCNDILKELFAKKHSPYAWPFYKPVDAELLGLHDYHEIIK 434

Query: 416 KPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFA 475
           KPMDLGTV+ KM NR YKTA EFA DVRLIF+NCYKYNPPDH+VV+MAR+L  +FE R+A
Sbjct: 435 KPMDLGTVKTKMDNRQYKTAHEFASDVRLIFTNCYKYNPPDHDVVSMARKLQDIFEMRYA 494

Query: 476 KMPDESNLASRAAASVSSDDDS---------------EDER-------QNQLKYLQEQLK 513
           K+PDE   +S  A   SS                   E ER       Q +LK +QEQ++
Sbjct: 495 KVPDEPMGSSMVAMKGSSSGSGSSSGGDSSSESDDSVEVERTQKLLELQQELKAMQEQMR 554

Query: 514 SLTDQIRL----------------------LVEDSTKPKKKKKKNRDQPKS--------- 542
            L ++                         LV   T   K+  K    P           
Sbjct: 555 KLVEETGKKKNKKKKPDKPKSKPMSNKNSSLVASHTGAMKELMKPSGIPNVSDSVGASIA 614

Query: 543 ---------KMPMGQNSAMMNDHV----NKMNKAPA-----PLNNGQKPKSLNNVRKPQA 584
                    KMP G  S + +       NK + A +     P     KPK      K   
Sbjct: 615 SVAMGAGDLKMPGGIASDLHHQTTAVGPNKTHAAGSLGHHLPTAVNAKPKGKRGPGKAAT 674

Query: 585 SNPQQAKKPKPNNANTVAAKKQVR------TFDSEDEDVAKPMSYDEKRQLSLDINKLPG 638
           +     K+PK N+ +T   KK         TFDSEDED AKPMSYDEKRQLSLDINKLPG
Sbjct: 675 TANTATKRPKANSRSTGNKKKNTGNQPPPITFDSEDEDNAKPMSYDEKRQLSLDINKLPG 734

Query: 639 DKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKRTYKK-TPKP 697
           DKLG+VVHIIQSREPSLR+ NPDEIEIDFETLKPSTLRELE YV+SCLRK+ +KK + K 
Sbjct: 735 DKLGRVVHIIQSREPSLRDSNPDEIEIDFETLKPSTLRELESYVASCLRKKPHKKVSGKS 794

Query: 698 KDEKFAEKKHELEKRLQDVTSQIDSTNKKLKKPKPTTSA-----AGPTGASRL 745
           KDE+ AEKK ELEKRLQDVT Q+ +  K  KK   + S       G +G SRL
Sbjct: 795 KDEQMAEKKQELEKRLQDVTGQLGNVKKTAKKEDSSKSVDVVGTGGASGPSRL 847

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242009661|ref|XP_002425601.1| Bromodomain-containing protein, putative [Pediculus humanus corporis] gi|212509494|gb|EEB12863.1| Bromodomain-containing protein, putative [Pediculus humanus corporis]

 Score =  575 bits (1483), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 386/777 (49%), Positives = 473/777 (60%), Gaps = 116/777 (14%)

Query: 78  ESNSGNSTKAASVE---PPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMK 134
           +    N+T AA+ E   PPPR EP +EPV+GIVQPPVVPP  RPGR TNQL +I KNV+K
Sbjct: 7   QQTEANNTAAATKEVKEPPPRIEPFIEPVNGIVQPPVVPPPDRPGRLTNQLAFIQKNVIK 66

Query: 135 AVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTM 194
           AV  H +AWP  EPVDA  LNLPDYH++I QPMDL TIKKRLENNYYW+ KE IQDF TM
Sbjct: 67  AVCAHKYAWPLLEPVDAKKLNLPDYHRIIKQPMDLTTIKKRLENNYYWNAKECIQDFNTM 126

Query: 195 FTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDA--PQPRSSKKKPP------ 246
           FTNCYVYN+P EDVV+MAQ +E+LFLTKI+ +P EE+ L+   P+ + +KK+P       
Sbjct: 127 FTNCYVYNQPQEDVVVMAQIVEKLFLTKISTLPKEEIELEPVPPKGKGTKKRPGAGGASG 186

Query: 247 ---------------VSASPSLNPV-------IKTPVIPLNKLPSATSTPKPRPPNPVLG 284
                          VS+S    P          T  I  N LP   +TP     +    
Sbjct: 187 TAAANAGNRGRPATIVSSSVPGPPTPITPPGSTATTTITHNSLPKQVATPPASGYHAQPA 246

Query: 285 STATTTTAPKVNHLNSMNAPDTP--DMKKAIKRKADGSIDHTPSSLHP--TPVKS-AKQL 339
            + +T   P V    S   P      +KK +KRKAD +   T S+L P  TPV++ A ++
Sbjct: 247 VSVSTIGEPSVVVSQSPMLPRQAPAKVKKGVKRKAD-TTTPTASALDPLYTPVENKAAKI 305

Query: 340 NTRRESGSITKKPQRISEEGGGGS-----GL-------GGSKTPLW--YKYCSEIIAELF 385
            TRRESG   KKP R S++G G +     GL       G SK  L    K C+EI+ ELF
Sbjct: 306 PTRRESGRQIKKP-RSSDDGLGFAAAVPIGLPPSGPTSGSSKEKLSESLKSCNEILKELF 364

Query: 386 HKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLI 445
            +KH  YAWPFY PVD E LGL DY +IIKKPMDLGTV+ KM NR Y+TA EFA DVRLI
Sbjct: 365 SRKHAGYAWPFYKPVDAELLGLHDYHEIIKKPMDLGTVKTKMDNRQYRTASEFAADVRLI 424

Query: 446 FSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE--SNL----------ASRAAASVSS 493
           F+NCYKYNP  H+VV MAR+L  VFE R+AK+PD+  S+L          +  ++ S   
Sbjct: 425 FTNCYKYNPSTHDVVAMARKLQDVFEMRYAKIPDDPVSSLNLEKHSSSGSSESSSESSCD 484

Query: 494 DDDSEDERQNQLKYLQEQLKSLTDQIRLLVEDSTKPKKKKKKNRD----------QPKSK 543
           ++DS+ ER  +L  LQEQLK++ +Q+R LVE+S   K KK K ++          Q K K
Sbjct: 485 EEDSDRERARKLVLLQEQLKAMQEQMRKLVEESHNKKSKKNKKKEFSDGSRATPLQAKKK 544

Query: 544 MPMGQNSAMMNDHV-------------NKMNKAPAPLNN----GQKPKSLNN-VRKPQAS 585
            P G+   ++ D +             N++   P  + +    G  PK  N    KP+  
Sbjct: 545 KPSGEVKPVLTDSISASISNVVSGAGGNELKPIPGEVKSVPVSGVPPKPKNKPTAKPKTP 604

Query: 586 NPQQA-KKPKPN---------NANTVAAKKQVRTFDSEDEDVAKPMSYDEKRQLSLDINK 635
               A KKPK N         NAN  A+      FDSEDED A+PMSYDEKRQLSLDINK
Sbjct: 605 TGTGAPKKPKTNAKTGPGRKKNANLAASS----AFDSEDEDNARPMSYDEKRQLSLDINK 660

Query: 636 LPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKR-----T 690
           LPGDKLG+VVHIIQSREPSLR+ NPDEIEIDFETLKPSTLRELE YV+SCLRK+     +
Sbjct: 661 LPGDKLGRVVHIIQSREPSLRDSNPDEIEIDFETLKPSTLRELEAYVASCLRKKPRKPYS 720

Query: 691 YKK-TPKPKDEKFAEKKHELEKRLQDVTSQIDSTNKKLKKPKPTTSAAGPTGASRLS 746
           YKK + K KDE+ AEKK ELEKRLQDV+ Q+ S  K  KK      + G  G SRLS
Sbjct: 721 YKKPSGKSKDEQMAEKKLELEKRLQDVSGQLASPRKTAKKVGSKGDSVG--GQSRLS 775

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328703281|ref|XP_001944541.2| PREDICTED: hypothetical protein LOC100164694 [Acyrthosiphon pisum]

 Score =  571 bits (1471), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 362/748 (48%), Positives = 442/748 (59%), Gaps = 119/748 (15%)

Query: 93  PPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAI 152
           PPR+EP +EPV+GIVQPPVVPP +RPGR TN+L ++ K VMKA+WKH HAWPF++PVDA 
Sbjct: 41  PPRNEPYIEPVNGIVQPPVVPPPNRPGRLTNKLNFLQKTVMKALWKHQHAWPFYQPVDAS 100

Query: 153 NLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMA 212
            LNLPDYHKVI  PMDLGT+KKRLENNYYW   E IQD   MF+NCY YNKPGEDVVLMA
Sbjct: 101 KLNLPDYHKVIKTPMDLGTVKKRLENNYYWCADECIQDINAMFSNCYTYNKPGEDVVLMA 160

Query: 213 QNLEQLFLTKITGMPSEEVVLDAPQP----RSSKKKP-----PVSASPSLNPVIKTPVIP 263
           Q LE++FL K+  M  EE VL   +P     S  +KP     P++ +P    +  TP   
Sbjct: 161 QTLEKIFLAKMGQMVKEETVLPQHKPAVKNHSIIQKPPSQNQPIAVAPGSTAMGTTPHSQ 220

Query: 264 LNKLPSATSTPKPRPPNPVLGSTATTTTAPKVNH-LNSMNAPDTPDMKKAIKRKAD---- 318
            N LP             +L  T +   A  VN  L + N+     +KK +KRKAD    
Sbjct: 221 HNSLPPQ-----------ILAPTTSDYVAQPVNIPLGAANSLTGGKLKKGVKRKADPSPI 269

Query: 319 GSIDHTPSSLHPTPVKSAK------QLNTRRESGSITKKPQRISEEG----------GGG 362
            SID   S+++P P+ ++       Q + RRESG   KKP R+ +EG           GG
Sbjct: 270 NSIDS--STIYPGPIATSTTPVQPLQSSIRRESGRQIKKP-RVPDEGILYSQNTTLPTGG 326

Query: 363 SGL---GGSKTPL--WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKP 417
           SG    G +K  L    K C+E++ ELF KKH  YAWPFY PVD   LGL DY DIIKKP
Sbjct: 327 SGSIPDGKTKEKLTEALKGCTEVLKELFTKKHAAYAWPFYKPVDAAWLGLHDYHDIIKKP 386

Query: 418 MDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM 477
           MDLGTV+ K+ NR YK +K+FA DV LIFSNCYKYNP DH+VV MA++L AVFE + +K+
Sbjct: 387 MDLGTVKTKLDNREYKNSKDFAADVNLIFSNCYKYNPKDHDVVAMAKKLQAVFEAKMSKV 446

Query: 478 PDESNLASRAAASVSSDDDSED-------------ERQNQLKYLQEQLKSLTDQIRLLVE 524
           P +  L                             E   +++  QE+L +L DQ++ LVE
Sbjct: 447 PPDPPLIEMKMEPEDESSSEGSSGSFSDSDDSEDLENSRKIQEFQEKLNALQDQMKRLVE 506

Query: 525 DSTKPKKKKKKNRDQPKSK----------------MPMGQNSAMMNDHVN---------- 558
           +S + KK+KK + +  K K                + +  NS  MN   N          
Sbjct: 507 ESARKKKQKKNSMNNSKKKKHSTNDKLVSSASKPPLAVALNSTPMNIMANSTITNDIKML 566

Query: 559 ----KMNKAPA------PLNN--------GQKPKSLNNVRKPQASNPQQAKKPKPNN-AN 599
                MN   A      P+ N        G K KS    R P A  P Q K+P+ N+ AN
Sbjct: 567 PIEPSMNAKSAAQQLRHPMANASAGLTTKGTKGKSA-GTRGP-AKAPAQPKRPRVNSKAN 624

Query: 600 TVAAKKQVR--TFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLRE 657
               K  V    FDSEDED AKPMSYDEKRQLSLDINKLPGDKLG+VVHIIQSREPSLR+
Sbjct: 625 NPKKKNSVSAPAFDSEDEDNAKPMSYDEKRQLSLDINKLPGDKLGRVVHIIQSREPSLRD 684

Query: 658 PNPDEIEIDFETLKPSTLRELEQYVSSCLRKRTYKKT-----PKPKDEKFAEKKHELEKR 712
            NPDEIEIDFETLKPSTLRELE YV+SCLRK+  K T      KPK+E   EKKHE++KR
Sbjct: 685 SNPDEIEIDFETLKPSTLRELESYVASCLRKKPRKITNKKVSGKPKEE-LGEKKHEIDKR 743

Query: 713 LQDVTSQIDSTNKKLKKPKPTTSAAGPT 740
           L DV+ Q+ ST KK KK    T  +GP+
Sbjct: 744 L-DVSGQL-STTKKGKKDAKATEISGPS 769

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270001347|gb|EEZ97794.1| hypothetical protein TcasGA2_TC030708 [Tribolium castaneum]

 Score =  539 bits (1389), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 371/780 (47%), Positives = 462/780 (59%), Gaps = 133/780 (17%)

Query: 91  EPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVD 150
           EPPPR    +EPV+GIVQPPV PP  RPGR TNQLQ++ K V+KAVWKH  AWPF +PVD
Sbjct: 9   EPPPR----VEPVNGIVQPPVHPPPDRPGRITNQLQFLQKTVLKAVWKHQFAWPFRQPVD 64

Query: 151 AINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVL 210
           A  LNLPDYH++I QPMDLGTIKKRL+NNYYWSGKE IQDF TMFTNCYVYNKPGEDVV+
Sbjct: 65  AKKLNLPDYHQIIQQPMDLGTIKKRLDNNYYWSGKECIQDFNTMFTNCYVYNKPGEDVVV 124

Query: 211 MAQNLEQLFLTKITGMPSEEVVL-------------DAPQPRSSKKKPPVSASPSLNPVI 257
           MAQ LE++FLTK+  MP EEVV+                   + + +PP + S ++   +
Sbjct: 125 MAQTLEKVFLTKVADMPKEEVVVAKGAKGKKGRASGVVGGVGAGRGRPPAAVSSTVATPV 184

Query: 258 KTPVIPLNKLPSAT---STPKPRP---PNPVLGSTATTTTAPK----------------- 294
            T     N  P+ T   +   PR    P+    STATTT AP                  
Sbjct: 185 ATSTGITNITPTKTDNRTLKIPRGGLFPSASFFSTATTTIAPASTLPQQPAINPPQTYHV 244

Query: 295 ----VNHLNSMNAPDT------------PDMKKAIKRKADGSIDHTPSSLHPTPVKSAK- 337
               VN L++   P T              +KK +KRKAD +     +  +  P++S+K 
Sbjct: 245 AQPIVNSLDTNLTPSTVLPGNVVPPSQPAKVKKGVKRKADTTTPTATAYDYNPPLESSKS 304

Query: 338 -QLNTRRESGSITKKPQR---ISEEGGGGSGLGGSKTPLW------------YKYCSEII 381
            +++TRRESG   KKP     +       +    + TP               K C+EI+
Sbjct: 305 AKISTRRESGRQIKKPSMDVFVPYHQANITPPIYTSTPQMPAHKPKEKLTEALKSCNEIL 364

Query: 382 AELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADD 441
            ELF KKH +YAWPFY PVD E L L DY DIIKKPMDLGTV++KM NR Y++A+EFA D
Sbjct: 365 KELFSKKHSSYAWPFYKPVDAELLMLHDYHDIIKKPMDLGTVKQKMDNREYRSAQEFAAD 424

Query: 442 VRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE-------------SNLASRAA 488
           VRLIF+NCYKYNP DH+VV MAR+L  VFE +FAK+PDE             S+  S + 
Sbjct: 425 VRLIFTNCYKYNPSDHDVVAMARKLQDVFEVKFAKIPDEPVNRIGIPPKSESSSSGSSSE 484

Query: 489 ASVSSDDDSEDERQNQLKYLQEQLKSLTDQIRLLVEDSTKPKKKKKKNRDQPKSKMPMGQ 548
           +S  ++D  E+ R  QLK L+++L ++ +++R LVE+STK KK+KKK +++ KSK  M  
Sbjct: 485 SSSETEDSEEESRNKQLKLLEKELIAMQEKMRKLVEESTKRKKEKKKQKEKDKSKKVMAN 544

Query: 549 NSAM--MNDHVN---------------------------KMNKAP--APLNNGQKPKSLN 577
           +S+M  + D +                             M+  P     N   KP    
Sbjct: 545 SSSMDSVEDSIASVVSGADMKMTTDTSQHGVGAGGGKSLNMHHIPPGGAANQSIKPPKSK 604

Query: 578 NVRKPQASNPQQ--AKKPKPNNANTVAAKKQV-----RTFDSEDEDVAKPMSYDEKRQLS 630
           +VR P+ + P    AK+ K NN      KK         FDSEDED AKPMSYDEKRQLS
Sbjct: 605 SVRGPKPAVPLNTPAKRGKNNNKAGGGRKKSTSQASNMGFDSEDEDNAKPMSYDEKRQLS 664

Query: 631 LDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKRT 690
           LDINKLPGDKLG+VVHIIQSREPSLR+ NPDEIEIDFETLKPSTLRELE YV+SCLRK+ 
Sbjct: 665 LDINKLPGDKLGRVVHIIQSREPSLRDSNPDEIEIDFETLKPSTLRELESYVASCLRKKP 724

Query: 691 YKKTP-----KPKDEKFAEKKHELEKRLQDVTSQIDSTNKKLKKPKPT----TSAAGPTG 741
            K        K KDE+ AEKK ELEKRL DV  +I ++ K  KK +      T A GP+G
Sbjct: 725 RKPYYKKMPGKSKDEQMAEKKQELEKRLLDVNDKIGNSKKAPKKEEANRVDPTGAGGPSG 784

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321456065|gb|EFX67182.1| hypothetical protein DAPPUDRAFT_302185 [Daphnia pulex]

 Score =  536 bits (1382), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 340/702 (48%), Positives = 414/702 (58%), Gaps = 128/702 (18%)

Query: 103 VDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKV 162
           ++GIVQPPVVPP +RPGR TNQLQYI K VMKAVWKH  AWPFH+PVDA  L LPDY K+
Sbjct: 59  INGIVQPPVVPPPNRPGRCTNQLQYIQKFVMKAVWKHSFAWPFHQPVDAKKLGLPDYFKI 118

Query: 163 ITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTK 222
           I  PMDLGT+KKRLENNYYWS KE IQDF TMFTNCYVYNKPGEDVVLMAQ LE+LFLTK
Sbjct: 119 IKYPMDLGTVKKRLENNYYWSAKECIQDFNTMFTNCYVYNKPGEDVVLMAQTLEKLFLTK 178

Query: 223 ITGMPSEEVVLDAPQPRSSK-KKPPVSAS---------PSLNPVI--KTPVIPLNKLPSA 270
           +  MP +E+ +++   ++SK KK P+            P LN +   K  V+ ++ LP+ 
Sbjct: 179 VAQMPKDEIEIESTPGKASKFKKAPIRGRPPGSTKIILPGLNQIAAGKDFVVVVSILPAP 238

Query: 271 TSTPKPRPPNPVLGSTATTTTAPKVN--HLNSMNAPDTP---DMKKAIKRKADGSIDHTP 325
           T  P          +       P VN  H +S   P      ++KK +KRKAD +   TP
Sbjct: 239 TLPPVQPTLPTPPPAPTMPVRGP-VNPVHPSSAAHPSAAPMREIKKGVKRKADTT---TP 294

Query: 326 SS-----------LHPTPVKSAKQLNTRRESGSITKK---------PQRISEEGGGGSGL 365
           +S           LH +  K AK +++RRESG   KK         PQ  S+        
Sbjct: 295 TSNTPYDSPGGMVLH-SAGKVAK-ISSRRESGRQIKKVVKDLPDTLPQHHSKP------- 345

Query: 366 GGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRK 425
              K     K C+EI+ ELF KKH  YAWPFY PVD   LGL DY DIIKKPMDLGTV+ 
Sbjct: 346 -RDKLRESTKACNEILKELFSKKHSGYAWPFYKPVDAGLLGLHDYHDIIKKPMDLGTVKA 404

Query: 426 KMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLAS 485
           KM  R Y++A EFA DVR+IF+NCYKYNPPDH+VV MAR+L  VFE R+AK+PD+     
Sbjct: 405 KMDGREYRSAAEFASDVRMIFTNCYKYNPPDHDVVAMARKLQDVFEMRYAKIPDDG--PD 462

Query: 486 RAAASVSSDDDS----------------------EDERQNQLKYLQEQLKSLTDQIRLLV 523
               S+  DD S                       DER  +L   QEQL+ + +Q+R L+
Sbjct: 463 VEGESIGGDDKSSGSDMESGSESDSDGSDSDDSAHDERDRKLMQFQEQLRIMQEQLRSLM 522

Query: 524 EDSTKPKKKKKKNRDQPKSKMPMGQNSAMMNDHVNKMNKAPAPLNNGQKPKSLNNVRKPQ 583
           EDS + ++K++K +   K                                    +V K +
Sbjct: 523 EDSARRRRKREKTKKDLK-----------------------------------RDVIKDK 547

Query: 584 ASNPQQAKKPKPNNANTVAA-----------KKQVRTFDSEDEDVAKPMSYDEKRQLSLD 632
           A  P  A KP+ N+A+T +A                 FDSEDED AKPMSYDEKRQLSLD
Sbjct: 548 A-GPTTASKPR-NSASTKSAVTAPPGKKKPAPPPAGAFDSEDEDNAKPMSYDEKRQLSLD 605

Query: 633 INKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCL-----R 687
           INKLPGDKLG+VVHIIQSREPSLR+ NPDEIEIDFETLKPSTLRELE YV+SCL     +
Sbjct: 606 INKLPGDKLGRVVHIIQSREPSLRDSNPDEIEIDFETLKPSTLRELESYVASCLRKKPRK 665

Query: 688 KRTYKKTPKPKDEKFAEKKHELEKRLQDVTSQIDSTNKKLKK 729
               K+  K KDE   EK+ EL +RLQDVT ++ S  K  +K
Sbjct: 666 PYYKKQAGKTKDEAMREKERELNERLQDVTGKLGSAKKVHRK 707

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|432094627|gb|ELK26133.1| Bromodomain-containing protein 2 [Myotis davidii]

 Score =  510 bits (1313), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 325/715 (45%), Positives = 417/715 (58%), Gaps = 85/715 (11%)

Query: 109 PPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMD 168
           PP V    +PGR TNQLQY+ K VMKA+WKH  AWPF +PVDA+ L LPDYHK+I QPMD
Sbjct: 147 PPEVSNPKKPGRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMD 206

Query: 169 LGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
           +GTIK+RLENNYYW+  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP 
Sbjct: 207 MGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQ 266

Query: 229 EEVVLDAPQPRSSKKKPPVSAS--PSLNPVIKTPVIPLNKLPSATSTPKPRPPNPVLGS- 285
           EE  L    P++S KK    A+   S+    + P I  +   +A  TP P  P  VL   
Sbjct: 267 EEQELVVTIPKNSHKKGAKLAALQGSITSAHQVPAIS-SVSHTALYTPPPEIPTTVLNIP 325

Query: 286 TATTTTAPKVNHLNSMNAPDTP----------DMKKAIKRKAD------------GSIDH 323
            ++  ++P +  L+S   P               KK +KRKAD            GS   
Sbjct: 326 HSSVISSPLLKSLHSAGPPLLAVSAAPPAQPLAKKKGVKRKADTTTPTPTAILAPGSPAS 385

Query: 324 TPSSLHPTPVKSAKQLNTRRESGSITKKPQR---ISEEGGGGSGLGGSKTPLWYKYCSEI 380
            P  L P   K+A+    RRESG   K P++    S++    S  G     L  K+C+ I
Sbjct: 386 PPGGLEP---KAARLPPMRRESGRPIKPPRKDLPDSQQQHQSSKKGKLSEQL--KHCNGI 440

Query: 381 IAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFAD 440
           + EL  KKH  YAWPFY PVD   LGL DY DIIK PMDL TV++KM NR Y+ A+EFA 
Sbjct: 441 LKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAA 500

Query: 441 DVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE--------------SNLA-- 484
           DVRL+FSNCYKYNPPDH+VV MAR+L  VFE R+AKMPDE              + LA  
Sbjct: 501 DVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKMPDEPLEPGPLPISAALPAGLAKS 560

Query: 485 ------------------SRAAASVSSDDDSEDERQNQLKYLQEQLKSLTDQIRLLVEDS 526
                                    S   DSE+ER ++L  LQEQL+++ +Q+  L +  
Sbjct: 561 SSESSSEESSSESSSEEEEEEEEEESESSDSEEERAHRLAELQEQLRAVHEQLAALSQGP 620

Query: 527 TKPKKKKKKNRDQPKSKMPMGQNSAMMNDHVNKMNKAPAPLNNGQKPKSLNNVRKPQASN 586
               K+K++ +++ K +           D  ++ ++AP  L+  +K K  +      A+ 
Sbjct: 621 ISKPKRKREKKEKKKKRKAEKHRVRAGVDEDDRGSRAPR-LSQPKKSKKASGSGVGSAAT 679

Query: 587 PQQAKKPKPNNANTVAAKKQVRT--------FDSEDEDVAKPMSYDEKRQLSLDINKLPG 638
                      + T   KK  +T        +DSE+E+ ++PMSYDEKRQLSLDINKLPG
Sbjct: 680 LGPPGFGPSGGSGTKLPKKATKTAPPTLPTGYDSEEEEESRPMSYDEKRQLSLDINKLPG 739

Query: 639 DKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKR-----TYKK 693
           +KLG+VVHIIQ+REPSLR+ NP+EIEIDFETLKPSTLRELE+YV SCLRK+     T KK
Sbjct: 740 EKLGRVVHIIQAREPSLRDSNPEEIEIDFETLKPSTLRELERYVLSCLRKKPRKPYTIKK 799

Query: 694 -TPKPKDEKFAEKKHELEKRLQDVTSQIDSTNKKLKKP--KPTTSAAGPTGASRL 745
              K K+E   EKK ELEKRLQDV+ Q++ST K  KK   K  +S+A     SRL
Sbjct: 800 PVGKTKEELALEKKRELEKRLQDVSGQLNSTKKPPKKASEKTESSSAQQVAVSRL 854

Source: Myotis davidii

Species: Myotis davidii

Genus: Myotis

Family: Vespertilionidae

Order: Chiroptera

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|47059183|ref|NP_997660.1| bromodomain-containing protein 2 [Rattus norvegicus] gi|392355205|ref|XP_003751971.1| PREDICTED: bromodomain-containing protein 2-like [Rattus norvegicus] gi|81872356|sp|Q6MGA9.1|BRD2_RAT RecName: Full=Bromodomain-containing protein 2; AltName: Full=Protein RING3 gi|46237556|emb|CAE83937.1| bromodomain-containing 2 [Rattus norvegicus] gi|149043366|gb|EDL96817.1| bromodomain containing 2, isoform CRA_b [Rattus norvegicus]

 Score =  508 bits (1308), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 322/721 (44%), Positives = 412/721 (57%), Gaps = 95/721 (13%)

Query: 109 PPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMD 168
           PP V    +PGR TNQLQY+ K VMKA+WKH  AWPF +PVDA+ L LPDYHK+I QPMD
Sbjct: 62  PPEVSNPKKPGRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMD 121

Query: 169 LGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
           +GTIK+RLENNYYW+  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP 
Sbjct: 122 MGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQ 181

Query: 229 EEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATS-------TPKPRPPNP 281
           EE  L    P++S KK    A+      ++  +   +++P+ +S       TP P  P  
Sbjct: 182 EEQELVVTIPKNSHKKGAKLAA------LQGSITSAHQVPAVSSVSHTALYTPPPEIPTT 235

Query: 282 VLGS-TATTTTAPKVNHLNSMNAPDTP----------DMKKAIKRKAD------------ 318
           VL     +  ++P +  L+S   P               KK +KRKAD            
Sbjct: 236 VLNIPHPSVISSPLLKSLHSAGPPLLAVSAAPPAQPLAKKKGVKRKADTTTPTPTAILAP 295

Query: 319 GSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQR---ISEEGGGGSGLGGSKTPLWYK 375
           GS    P SL P   K+A+    RRESG   K P++    S++    S  G     L  K
Sbjct: 296 GSPASPPGSLEP---KAARLPPMRRESGRPIKPPRKDLPDSQQQHQSSKKGKLSEQL--K 350

Query: 376 YCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTA 435
           +C+ I+ EL  KKH  YAWPFY PVD   LGL DY DIIK PMDL TV++KM NR Y+ A
Sbjct: 351 HCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDA 410

Query: 436 KEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE--------------S 481
           +EFA DVRL+FSNCYKYNPPDH+VV MAR+L  VFE R+AKMPDE               
Sbjct: 411 QEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKMPDEPLEPGPLPVSTALPP 470

Query: 482 NLA------------------------SRAAASVSSDDDSEDERQNQLKYLQEQLKSLTD 517
            LA                               S   DSE+ER ++L  LQEQL+++ +
Sbjct: 471 GLAKSSSESSSEESSSESSSEEEEEEDEEDEEEESESSDSEEERAHRLAELQEQLRAVHE 530

Query: 518 QIRLLVEDSTKPKKKKKKNRDQPKSKMPMGQNSAMMNDHVNKMNKAPAPLN------NGQ 571
           Q+  L +      K+K++ +++ K +        +  D  +K  +AP PL        G 
Sbjct: 531 QLAALSQGPISKPKRKREKKEKKKKRKAEKHRGRIGIDEDDKGPRAPRPLQPKKSKKAGG 590

Query: 572 KPKSLNNVRKPQASNPQQAKKPKPNNANTVAAKKQVRTFDSEDEDVAKPMSYDEKRQLSL 631
              +   +  P       +    P  A   A       +DSE+E+ ++PMSYDEKRQLSL
Sbjct: 591 GGSNATTLSHPGFGTSAGSSNKLPKKAQKTAPPVLPTGYDSEEEEESRPMSYDEKRQLSL 650

Query: 632 DINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKR-- 689
           DINKLPG+KLG+VVHIIQ+REPSLR+ NP+EIEIDFETLKPSTLRELE+YV SCLRK+  
Sbjct: 651 DINKLPGEKLGRVVHIIQAREPSLRDSNPEEIEIDFETLKPSTLRELERYVLSCLRKKPR 710

Query: 690 ----TYKKTPKPKDEKFAEKKHELEKRLQDVTSQIDSTNKKLKKP-KPTTSAAGPTGASR 744
                 K   K K+E   EKK ELEKRLQDV+ Q++ST K  KK  + T S+A     SR
Sbjct: 711 KPYTIRKPVGKTKEELALEKKRELEKRLQDVSGQLNSTKKPPKKASEKTESSAQQVAVSR 770

Query: 745 L 745
           L
Sbjct: 771 L 771

Source: Rattus norvegicus

Species: Rattus norvegicus

Genus: Rattus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|327288352|ref|XP_003228892.1| PREDICTED: bromodomain-containing protein 3-like [Anolis carolinensis]

 Score =  507 bits (1306), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 322/697 (46%), Positives = 407/697 (58%), Gaps = 81/697 (11%)

Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRL 176
           +PGR TNQLQY+   V+K +WKH  AWPF++PVDAI LNLPDYHK+I  PMD+GTIKKRL
Sbjct: 27  KPGRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRL 86

Query: 177 ENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAP 236
           E+NYYWS  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP EEV L  P
Sbjct: 87  EHNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALEKIFLQKVAQMPQEEVELLPP 146

Query: 237 QPRSSKKK------------PPVSASPSLNP----------VIKTPVIPLNKLPSATSTP 274
            P+   +K            P  +A  S++P          V +TPVI +  +P+ T T 
Sbjct: 147 VPKGKARKAATTAHNAGAQHPATTAVSSVSPPAPFQNVPPSVSQTPVIAVTPMPTITPTI 206

Query: 275 KP-RPPNPVLGSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKAD-----GSIDHTPSSL 328
            P   P   +         P    +  +        KK +KRKAD      S      S 
Sbjct: 207 APIATPPATVPPPPPPPPPPAAPIMPVVPPTPPIVKKKGVKRKADTTTPTTSAITASRSE 266

Query: 329 HPTPVKSAKQ--LNTRRESGSITKKPQRISEEGGGGSGLGGSKTPL--WYKYCSEIIAEL 384
            PTP+  AKQ  +  RRESG    KP +   E G      G K  L    KYC  I+ E+
Sbjct: 267 SPTPLLDAKQAKVVARRESGGRPIKPPKKDLEDGEIPQHAGKKGKLSEHLKYCDSILKEM 326

Query: 385 FHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRL 444
             KKH  YAWPFY PVD E L L DY DIIK PMDL TV+KKM +R Y+ A+ FA D+RL
Sbjct: 327 LSKKHAAYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKKKMDSREYQDAQGFAADIRL 386

Query: 445 IFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPD--------------------ESNLA 484
           +FSNCYKYNPPDH VV MAR+L  VFE RFAKMPD                    ES+ +
Sbjct: 387 MFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDEPAEPPPPPPPAAPVVSKSMESSHS 446

Query: 485 SRAAASVSSDDDSEDERQNQLKYLQEQLKSLTDQIRLLVEDSTKPKKKKKKNRDQPKSKM 544
           S  ++S S   DSE+ER  +L  LQEQLK++ +Q+  L +      KKKK+ +++ K   
Sbjct: 447 SEESSSDSDSSDSEEERATRLAELQEQLKAVHEQLAALSQAPVNKPKKKKEKKEKEKK-- 504

Query: 545 PMGQNSAMMNDHVNKMNKAPAPLNNGQKPKSLNNVRKPQASNPQQAKKPKPNNANTVAAK 604
                     +   + +K  A +   +K K       P A   QQ K P     +T  A 
Sbjct: 505 ----KKDKEKEKEKEKHKVKAAVEEEKKAKV-----APPAKQAQQKKAPAKKANSTTTAN 555

Query: 605 KQVR--------TFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLR 656
           +Q +        T+DS +E+   PM+YDEKRQLSLDIN+LPG+KLG+VVHIIQSREPSLR
Sbjct: 556 RQPKKGGKQPPATYDSNEEEEGLPMTYDEKRQLSLDINRLPGEKLGRVVHIIQSREPSLR 615

Query: 657 EPNPDEIEIDFETLKPSTLRELEQYVSSCLRKRTY--------KKTPKPKDEKFAEKKHE 708
           + NPDEIEIDFETLKP+TLRELE+YV SCL+K+          K+  K K+E   EKK E
Sbjct: 616 DSNPDEIEIDFETLKPTTLRELERYVKSCLQKKQRKPFSASGKKQAAKSKEEMAQEKKKE 675

Query: 709 LEKRLQDVTSQIDSTNKKLKKPKPTTSAAGPTGASRL 745
           LEKRLQDV+ Q+++  K  KK K  ++ +G  G SRL
Sbjct: 676 LEKRLQDVSGQLNNNKKPAKKEKSGSAPSG--GPSRL 710

Source: Anolis carolinensis

Species: Anolis carolinensis

Genus: Anolis

Family: Iguanidae

Order: Squamata

Phylum: Chordata

Superkingdom: Eukaryota

>gi|417404197|gb|JAA48868.1| Putative transcription initiation factor tfiid subunit bdf1 [Desmodus rotundus]

 Score =  504 bits (1298), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 319/699 (45%), Positives = 392/699 (56%), Gaps = 98/699 (14%)

Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRL 176
           +PGR TNQLQY+   V+K +WKH  AWPF++PVDAI LNLPDYHK+I  PMD+GTIKKRL
Sbjct: 31  KPGRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRL 90

Query: 177 ENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAP 236
           EN+YYWS  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP EEV L  P
Sbjct: 91  ENSYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALEKIFLQKVAQMPQEEVELLPP 150

Query: 237 QPRSSKKKPP----------VSASPSLNPVIKTPVIPLNKLPSATSTPKPRPPNPVLGST 286
            P+   +KP           V+A PS+     +P  P   +P A S        PV+ +T
Sbjct: 151 APKGKGRKPAAGAQSAGTQQVAAMPSV-----SPATPFQNVPPAVSQ------TPVIAAT 199

Query: 287 ATTTTAPKVNHLNSMNAPDTPDM----------------KKAIKRKAD-----GSIDHTP 325
              T    V  +    A   P                  KK +KRKAD      S     
Sbjct: 200 PVPTITANVTSVPVPPAAAPPPPVTPVIPVVPPTPPVIKKKGVKRKADTTTPTTSAITAS 259

Query: 326 SSLHPTPVKSAKQ--LNTRRESGSITKKPQRISEEGGGGSGLGGSKTPL--WYKYCSEII 381
            S  P P+   KQ  +  RRESG    KP +   E G      G K  L    ++C  I+
Sbjct: 260 RSESPLPLSDPKQAKVVARRESGGRPIKPPKKDLEDGEVPQHAGKKGKLSEHLRHCDSIL 319

Query: 382 AELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADD 441
            EL  KKH  YAWPFY PVD E L L DY DIIK PMDL TV+KKM +R Y  A+ FA D
Sbjct: 320 KELLSKKHAAYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKKKMDSREYPDAQGFAAD 379

Query: 442 VRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASRAAASVSSDDD----- 496
           +RL+FSNCYKYNPPDH VV MAR+L  VFE RFAKMPDE        A  +         
Sbjct: 380 IRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDEPAEVPAVPAPAAPAVSKGPES 439

Query: 497 ---------------SEDERQNQLKYLQEQLKSLTDQIRLLVEDSTKPKKKKKKNRDQPK 541
                          SE+ER  +L  LQEQLK++ +Q+  L +             ++PK
Sbjct: 440 SRSSEESSSDSGSSDSEEERATRLAELQEQLKAVHEQLAALSQAPV----------NKPK 489

Query: 542 SKMPMGQNSAMMNDHVNKMNKAPAPLNNGQKPKSLNNVRKPQASNPQQAKKPKPNNANTV 601
            K    +      D      +  A   + +K K+      P    PQ+    K  N+ T 
Sbjct: 490 RKKEKKEKEKRKKDKDKDKERHKARSEDEKKAKAA----PPTKQAPQKKAPTKKANSTTA 545

Query: 602 AA-------KKQVRTFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPS 654
           A+       K+ V  +DSE+E+   PMSYDEKRQLSLDIN+LPG+KLG+VVHIIQSREPS
Sbjct: 546 ASRQPKKGGKQAVAPYDSEEEEEGLPMSYDEKRQLSLDINRLPGEKLGRVVHIIQSREPS 605

Query: 655 LREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKRTY--------KKTPKPKDEKFAEKK 706
           LR+ NPDEIEIDFETLKP+TLRELE+YV SCL+K+          K+  K K+E   EKK
Sbjct: 606 LRDSNPDEIEIDFETLKPTTLRELERYVKSCLQKKQRKPFSTSGKKQAAKSKEELAQEKK 665

Query: 707 HELEKRLQDVTSQIDSTNKKLKKPKPTTSAAGPTGASRL 745
            ELEKRLQDV+ Q+ S  K  KK K  + AA P G SRL
Sbjct: 666 KELEKRLQDVSGQL-SNRKPAKKEK--SGAAPPGGPSRL 701

Source: Desmodus rotundus

Species: Desmodus rotundus

Genus: Desmodus

Family: Phyllostomidae

Order: Chiroptera

Class: Mammalia

Phylum: Chordata

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	779
FB|FBgn0004656	2038	fs(1)h "female sterile (1) hom	0.166	0.063	0.746	3.6e-145
UNIPROTKB|H9L2H3	859	LOC100859056 "Uncharacterized	0.540	0.490	0.446	5.5e-128
UNIPROTKB|O60885	1362	BRD4 "Bromodomain-containing p	0.541	0.309	0.438	7.4e-128
UNIPROTKB|I3L6E5	1372	BRD4 "Uncharacterized protein"	0.541	0.307	0.435	4.3e-126
UNIPROTKB|E1BNS3	1367	BRD4 "Uncharacterized protein"	0.540	0.307	0.437	8.8e-126
MGI|MGI:1888520	1400	Brd4 "bromodomain containing 4	0.541	0.301	0.438	1.1e-125
ZFIN|ZDB-GENE-990415-248	838	brd2a "bromodomain-containing	0.273	0.254	0.459	1.6e-121
UNIPROTKB|Q58F21	947	BRDT "Bromodomain testis-speci	0.462	0.380	0.437	1.4e-118
ZFIN|ZDB-GENE-030131-267	1444	brd4 "bromodomain containing 4	0.157	0.085	0.650	6.3e-117
UNIPROTKB|Q4R8Y1	947	BRDT "Bromodomain testis-speci	0.455	0.374	0.434	6.8e-117

FB|FBgn0004656 fs(1)h "female sterile (1) homeotic" [Drosophila melanogaster (taxid:7227)]

 Score = 558 (201.5 bits), Expect = 3.6e-145, Sum P(6) = 3.6e-145
 Identities = 97/130 (74%), Positives = 110/130 (84%)

Query:   105 GIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVIT 164
             GIVQPPV+PP  RPGRNTNQLQY++K VMK +WKH  +WPF +PVDA  LNLPDYHK+I 
Sbjct:    19 GIVQPPVIPPAERPGRNTNQLQYLIKTVMKVIWKHHFSWPFQQPVDAKKLNLPDYHKIIK 78

Query:   165 QPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKIT 224
             QPMD+GTIKKRLENNYYWS KE IQDF TMF NCYVYNKPGEDVV+MAQ LE++FL KI 
Sbjct:    79 QPMDMGTIKKRLENNYYWSAKETIQDFNTMFNNCYVYNKPGEDVVVMAQTLEKVFLQKIE 138

Query:   225 GMPSEEVVLD 234
              MP EE+ L+
Sbjct:   139 SMPKEELELE 148

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=NAS

GO:0003677 "DNA binding" evidence=NAS

GO:0004672 "protein kinase activity" evidence=NAS

GO:0007362 "terminal region determination" evidence=IMP

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IMP

GO:0007476 "imaginal disc-derived wing morphogenesis" evidence=IMP

UNIPROTKB|H9L2H3 LOC100859056 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 811 (290.5 bits), Expect = 5.5e-128, Sum P(2) = 5.5e-128
 Identities = 202/452 (44%), Positives = 246/452 (54%)

Query:   256 VIKTPVIPLNKLPSATSTPKPRPPNPVLGSTATTTTAPKVNHLNSMNAPDTP-DMKKAIK 314
             ++ TPV+ +  +P     P P PP P   +    T  P   H   +  P  P   KK +K
Sbjct:   232 IVPTPVMTM--VPP--QPPVPPPPAPQAPAPPAPTPQPIQPHPPVIPTPAQPVKTKKGVK 287

Query:   315 RKADGS----ID--HTPSSLHPTPVKSAKQLNTRRESGSITKKPQRIXXXXXXXXXXXXX 368
             RKAD +    ID  H  SSL PT  KS K L  RRES    K P++              
Sbjct:   288 RKADTTTPTTIDPIHESSSL-PTEPKSTK-LGPRRESSRPVKPPKKDVPDSQQHMVEKSS 345

Query:   369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
             K     KYCS II E+F KKH  YAWPFY PVDVE LGL DY DIIK PMDL T++ K+ 
Sbjct:   346 KVSEQLKYCSGIIKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDLSTIKSKLE 405

Query:   429 NRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLXXXXX 488
             NR Y+ A+EFA DVRL+FSNCYKYNP DH VV MAR+L  VFE RFAKMPDE        
Sbjct:   406 NREYRDAQEFAADVRLMFSNCYKYNPADHEVVAMARKLQDVFEMRFAKMPDEPEEPVIPA 465

Query:   489 XXXXXXXXXXXXXQNQLKYLQEQLKSLTDQIRLLVEDSTXXXXXXXXNRDQPKSKMPMGQ 548
                                      S +D      +DS            Q + K    Q
Sbjct:   466 SSPVVVPPPTKVVPPSSSDSSSDSSSDSDSSS---DDSEEERAQRLAEL-QEQLKAVHEQ 521

Query:   549 NSAMMNDHVNKMNKAPAPLNNGQKPK-----SLNNVRKPQASNPQQAKKPKPNNANTVAA 603
              +A+     NK  K        +K K      L + +K +A  P   K  K N+ ++ ++
Sbjct:   522 LAALSQPQQNKPKKKEKDKKEKKKEKHKKKEELEDSKKSKAKEPLSKKAKKSNSNSSTSS 581

Query:   604 KKQVRT---------FDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPS 654
             KK+  T         ++SE+E+  KPMSY+EKRQLSLDINKLPG+KLG+VVHIIQSREPS
Sbjct:   582 KKEPVTVKNSKPPPAYESEEEEKCKPMSYEEKRQLSLDINKLPGEKLGRVVHIIQSREPS 641

Query:   655 LREPNPDEIEIDFETLKPSTLRELEQYVSSCL 686
             L+  NPDEIEIDFETLKPSTLRELE+YV+SCL
Sbjct:   642 LKNSNPDEIEIDFETLKPSTLRELERYVTSCL 673

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

GO:0000790 "nuclear chromatin" evidence=IEA

GO:0000794 "condensed nuclear chromosome" evidence=IEA

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

GO:0003677 "DNA binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0007059 "chromosome segregation" evidence=IEA

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

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

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

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

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

UNIPROTKB|O60885 BRD4 "Bromodomain-containing protein 4" [Homo sapiens (taxid:9606)]

 Score = 804 (288.1 bits), Expect = 7.4e-128, Sum P(2) = 7.4e-128
 Identities = 198/452 (43%), Positives = 244/452 (53%)

Query:   256 VIKTPVIPLNKLPSATSTPKPRPPNPVLGSTATTTTAPKVNHLNSMNAPDTP-DMKKAIK 314
             +++TPV+ +   P    TP P PP P           P  +H   + A   P   KK +K
Sbjct:   233 IVQTPVMTVVP-PQPLQTPPPVPPQPQ--PPPAPAPQPVQSHPPIIAATPQPVKTKKGVK 289

Query:   315 RKADGS----ID--HTPSSLHPTPVKSAKQLNTRRESGSITKKPQR-IXXXXXXXXXXXX 367
             RKAD +    ID  H P SL P P K+ K L  RRES    K P++ +            
Sbjct:   290 RKADTTTPTTIDPIHEPPSLPPEP-KTTK-LGQRRESSRPVKPPKKDVPDSQQHPAPEKS 347

Query:   368 XKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKM 427
              K     K CS I+ E+F KKH  YAWPFY PVDVE LGL DY DIIK PMD+ T++ K+
Sbjct:   348 SKVSEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKL 407

Query:   428 RNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLXXXX 487
               R Y+ A+EF  DVRL+FSNCYKYNPPDH VV MAR+L  VFE RFAKMPDE       
Sbjct:   408 EAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDEPEEPVVA 467

Query:   488 XXXXXXXXXXXXXXQNQLKYLQEQLKSLTDQIRLLVEDSTXXXXXXXXNRDQPKSKMPMG 547
                                       S +D      +DS            Q + K    
Sbjct:   468 VSSPAVPPPTKVVAPPSSSDSSSDSSSDSDSS---TDDSEEERAQRLAEL-QEQLKAVHE 523

Query:   548 QNSAMMNDHVNKMNKAPAPLNNGQKPK-----SLNNVRKPQASNPQQAKKPKPNNANTVA 602
             Q +A+     NK  K        +K K      +   +K +A  P   K  K N++N+  
Sbjct:   524 QLAALSQPQQNKPKKKEKDKKEKKKEKHKRKEEVEENKKSKAKEPPPKKTKKNNSSNSNV 583

Query:   603 AKKQVR--------TFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPS 654
             +KK+          T++SE+ED  KPMSY+EKRQLSLDINKLPG+KLG+VVHIIQSREPS
Sbjct:   584 SKKEPAPMKSKPPPTYESEEEDKCKPMSYEEKRQLSLDINKLPGEKLGRVVHIIQSREPS 643

Query:   655 LREPNPDEIEIDFETLKPSTLRELEQYVSSCL 686
             L+  NPDEIEIDFETLKPSTLRELE+YV+SCL
Sbjct:   644 LKNSNPDEIEIDFETLKPSTLRELERYVTSCL 675

GO:0019048 "virus-host interaction" evidence=IEA

GO:0000790 "nuclear chromatin" evidence=IEA

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

GO:0003677 "DNA binding" evidence=IEA

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0007059 "chromosome segregation" evidence=IEA

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

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

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

GO:0005515 "protein binding" evidence=IPI

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

GO:0000794 "condensed nuclear chromosome" evidence=IDA

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

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

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|I3L6E5 BRD4 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 792 (283.9 bits), Expect = 4.3e-126, Sum P(2) = 4.3e-126
 Identities = 197/452 (43%), Positives = 243/452 (53%)

Query:   256 VIKTPVIPLNKLPSATSTPKPRPPNPVLGSTATTTTAPKVNHLNSMNAPDTP-DMKKAIK 314
             +++TPV+ +   P    TP P PP P           P  +H   + A   P   KK +K
Sbjct:   233 IVQTPVMTVVP-PQPLQTPPPVPPQPP--PPPAPAPQPVQSHPPIIAATPQPVKTKKGVK 289

Query:   315 RKADGS----ID--HTPSSLHPTPVKSAKQLNTRRESGSITKKPQR-IXXXXXXXXXXXX 367
             RKAD +    ID  H P SL P P K+ K L  RRES    K P++ +            
Sbjct:   290 RKADTTTPTTIDPIHEPPSLPPEP-KTTK-LGPRRESSRPVKPPKKDVPDSQQHPAPDKS 347

Query:   368 XKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKM 427
              K     K CS I+ E+F KKH  YAWPFY PVDVE LGL DY DIIK PMD+ T++ K+
Sbjct:   348 SKVSEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKL 407

Query:   428 RNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLXXXX 487
               R Y+ A+EF  DVRL+FSNCYKYNPPDH VV MAR+L  VFE RFAKMPDE       
Sbjct:   408 EAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDEPEEPVVA 467

Query:   488 XXXXXXXXXXXXXXQNQLKYLQEQLKSLTDQIRLLVEDSTXXXXXXXXNRDQPKSKMPMG 547
                                       S +D      +DS            Q + K    
Sbjct:   468 VSSPAVPPPTKVVAPPSSSDSSSDSSSDSDSS---TDDSEEERAQRLAEL-QEQLKAVHE 523

Query:   548 QNSAMMNDHVNKMNKAPAPLNNGQKPK-----SLNNVRKPQASN--PQQAKKPKPNNANT 600
             Q +A+     NK  K        +K K      +   +K +A    P++ KK   +N+NT
Sbjct:   524 QLAALSQPQQNKPKKKEKDKKEKKKEKHKKKEEVEENKKSKAKELPPKKTKKNNSSNSNT 583

Query:   601 VAAK------KQVRTFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPS 654
                +      K    ++SE+ED  KPMSY+EKRQLSLDINKLPG+KLG+VVHIIQSREPS
Sbjct:   584 SKKEPAPLKNKPPPAYESEEEDKCKPMSYEEKRQLSLDINKLPGEKLGRVVHIIQSREPS 643

Query:   655 LREPNPDEIEIDFETLKPSTLRELEQYVSSCL 686
             L+  NPDEIEIDFETLKPSTLRELE+YV+SCL
Sbjct:   644 LKNSNPDEIEIDFETLKPSTLRELERYVTSCL 675

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

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

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

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

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

GO:0007059 "chromosome segregation" evidence=IEA

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

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

GO:0000794 "condensed nuclear chromosome" evidence=IEA

GO:0000790 "nuclear chromatin" evidence=IEA

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

UNIPROTKB|E1BNS3 BRD4 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 791 (283.5 bits), Expect = 8.8e-126, Sum P(2) = 8.8e-126
 Identities = 198/453 (43%), Positives = 248/453 (54%)

Query:   256 VIKTPVIPLNKLPSAT-STPKPRPPNPVLGSTATTTTAPKVNHLNSMNAPDTP-DMKKAI 313
             +++TPV+ +  +P+    TP P PP P+          P  +H   + A   P   KK +
Sbjct:   233 IVQTPVMTV--VPAQPLQTPPPVPPQPL--PPPAPAPQPVQSHPPIIAATPQPVKTKKGV 288

Query:   314 KRKADGS----ID--HTPSSLHPTPVKSAKQLNTRRESGSITKKPQR-IXXXXXXXXXXX 366
             KRKAD +    ID  H P SL P P K+AK L  RRES    K P++ +           
Sbjct:   289 KRKADTTTPTTIDPIHEPPSLPPEP-KTAK-LGPRRESSRPVKPPKKDVPDSQQHPAPDK 346

Query:   367 XXKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKK 426
               K     K C+ I+ E+F KKH  YAWPFY PVDVE LGL DY DIIK PMD+ T++ K
Sbjct:   347 SSKVSEQLKCCNGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSK 406

Query:   427 MRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLXXX 486
             +  R Y+ A+EF  DVRL+FSNCYKYNPPDH VV MAR+L  VFE RFAKMPDE      
Sbjct:   407 LEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDEPEEPAV 466

Query:   487 XXXXXXXXXXXXXXXQNQLKYLQEQLKSLTDQIRLLVEDSTXXXXXXXXNRDQPKSKMPM 546
                                        S +D      +DS            Q + K   
Sbjct:   467 AVSSPVVPPPTKVAAPPSSSDSSSDSSSDSDSS---TDDSEEERAQRLAEL-QEQLKAVH 522

Query:   547 GQNSAMMNDHVNKMNKAPAPLNNGQKPK--SLNNVRKPQASNPQQA--KKPKPNNA-NTV 601
              Q +A+     NK  K        +K K      V + + S  ++   KK K NN+ N+ 
Sbjct:   523 EQLAALSQPQQNKPKKKEKDKKEKKKEKHKKKEEVEENKKSKAKELPPKKTKKNNSSNSS 582

Query:   602 AAKKQVR--------TFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREP 653
              +KK+           ++SE+ED  KPMSY+EKRQLSLDINKLPG+KLG+VVHIIQSREP
Sbjct:   583 TSKKEPAPLKSKPPPAYESEEEDKCKPMSYEEKRQLSLDINKLPGEKLGRVVHIIQSREP 642

Query:   654 SLREPNPDEIEIDFETLKPSTLRELEQYVSSCL 686
             SL+  NPDEIEIDFETLKPSTLRELE+YV+SCL
Sbjct:   643 SLKNSNPDEIEIDFETLKPSTLRELERYVTSCL 675

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

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

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

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

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

GO:0007059 "chromosome segregation" evidence=IEA

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

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

GO:0000794 "condensed nuclear chromosome" evidence=IEA

GO:0000790 "nuclear chromatin" evidence=IEA

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

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

 Score = 789 (282.8 bits), Expect = 1.1e-125, Sum P(2) = 1.1e-125
 Identities = 198/452 (43%), Positives = 241/452 (53%)

Query:   256 VIKTPVIPLNKLPSATSTPKPRPPNPVLGSTATTTTAPKVNHLNSM-NAPDTPDMKKAIK 314
             + + PV+ +   P    TP P PP P           P  +H   +   P     KK +K
Sbjct:   234 IAQPPVMTMVP-PQPLQTPSPVPPQPP--PPPAPVPQPVQSHPPIIATTPQPVKTKKGVK 290

Query:   315 RKADGS----ID--HTPSSLHPTPVKSAKQLNTRRESGSITKKPQR-IXXXXXXXXXXXX 367
             RKAD +    ID  H P SL P P K+AK L  RRES    K P++ +            
Sbjct:   291 RKADTTTPTTIDPIHEPPSLAPEP-KTAK-LGPRRESSRPVKPPKKDVPDSQQHPGPEKS 348

Query:   368 XKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKM 427
              K     K CS I+ E+F KKH  YAWPFY PVDVE LGL DY DIIK PMD+ T++ K+
Sbjct:   349 SKISEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKL 408

Query:   428 RNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLXXXX 487
              +R Y+ A+EF  DVRL+FSNCYKYNPPDH VV MAR+L  VFE RFAKMPDE       
Sbjct:   409 ESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDEPEEPVVT 468

Query:   488 XXXXXXXXXXXXXXQNQLKYLQEQLKSLTDQIRLLVEDSTXXXXXXXXNRDQPKSKMPMG 547
                                       S +D      +DS            Q + K    
Sbjct:   469 VSSPAVPPPTKVVAPPSSSDSSSDSSSDSDSS---TDDSEEERAQRLAEL-QEQLKAVHE 524

Query:   548 QNSAMMNDHVNKMNKAPAPLNNGQKPKSL-------NNVRKPQASNPQQAKKPKPNNANT 600
             Q +A+     NK  K        +K K         N   K +   P++ KK   +N+N 
Sbjct:   525 QLAALSQPQQNKPKKKEKDKKEKKKEKHKKKEEVEENKKSKTKELPPKKTKKNNSSNSNV 584

Query:   601 -----VAAK-KQVRTFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPS 654
                  V  K K   T++SE+ED  KPMSY+EKRQLSLDINKLPG+KLG+VVHIIQSREPS
Sbjct:   585 SKKEPVPTKTKPPPTYESEEEDKCKPMSYEEKRQLSLDINKLPGEKLGRVVHIIQSREPS 644

Query:   655 LREPNPDEIEIDFETLKPSTLRELEQYVSSCL 686
             L+  NPDEIEIDFETLKPSTLRELE+YV+SCL
Sbjct:   645 LKNSNPDEIEIDFETLKPSTLRELERYVTSCL 676

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

GO:0000790 "nuclear chromatin" evidence=IDA

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

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

GO:0003677 "DNA binding" evidence=IDA

GO:0003682 "chromatin binding" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0006468 "protein phosphorylation" evidence=IPI

GO:0007059 "chromosome segregation" evidence=IMP

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

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

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

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

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

ZFIN|ZDB-GENE-990415-248 brd2a "bromodomain-containing 2a" [Danio rerio (taxid:7955)]

 Score = 460 (167.0 bits), Expect = 1.6e-121, Sum P(3) = 1.6e-121
 Identities = 103/224 (45%), Positives = 128/224 (57%)

Query:   105 GIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVIT 164
             G  QP V  P  R GR TNQLQ++ K ++K +W+H  AWPFHEPVDA  LNLPDY+ +I 
Sbjct:    58 GPPQPAVRDPS-RQGRMTNQLQFLQKALVKTLWRHHFAWPFHEPVDAAKLNLPDYYNIIK 116

Query:   165 QPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKIT 224
             QPMD+GTIKKRLENNYY S  E +QDF TMFTNCY+YNKP +D+VLMAQ+LE+ FL K+ 
Sbjct:   117 QPMDMGTIKKRLENNYYRSASECMQDFNTMFTNCYIYNKPTDDIVLMAQSLEKAFLQKVA 176

Query:   225 GMPSEEVVLDAXXXXXXXXXXXXXXXXXLNPVIKTPVIP-LNKLPS-ATSTPKPRPPNPV 282
              MP  E  + A                    +     +P ++ L   A S P P  P+ V
Sbjct:   177 QMPEVEEEIPAPVPRGKQSKPKKGQKLFSGGITTAHQVPAISSLSQLAYSPPTPDTPDSV 236

Query:   283 LGSTATTTTA----PKVNHLNS--MNAPDT-PDMKK-AIKRKAD 318
             L +   T       P   H     +  P T P  KK  +KRKAD
Sbjct:   237 LSTPPQTLITKNFPPPPLHSTPALLGLPPTQPTAKKKGVKRKAD 280

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

UNIPROTKB|Q58F21 BRDT "Bromodomain testis-specific protein" [Homo sapiens (taxid:9606)]

 Score = 789 (282.8 bits), Expect = 1.4e-118, Sum P(2) = 1.4e-118
 Identities = 168/384 (43%), Positives = 223/384 (58%)

Query:   106 IVQPPVVPPKH----RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHK 161
             IV PP  PP++    + GR TNQLQY+ K V+K +WKH  +WPF  PVDA+ L LPDY+ 
Sbjct:    11 IVNPP--PPEYINTKKNGRLTNQLQYLQKVVLKDLWKHSFSWPFQRPVDAVKLQLPDYYT 68

Query:   162 VITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLT 221
             +I  PMDL TIKKRLEN YY    E I+DF TMF+NCY+YNKPG+D+VLMAQ LE+LF+ 
Sbjct:    69 IIKNPMDLNTIKKRLENKYYAKASECIEDFNTMFSNCYLYNKPGDDIVLMAQALEKLFMQ 128

Query:   222 KITGMPSEEVVL---DAXXXXXXXXXXXXXXXXXLNPVIKTPVIPLNKLPSATSTPKPRP 278
             K++ MP EE V+   +                   +P     V    ++PS        P
Sbjct:   129 KLSQMPQEEQVVGVKERIKKGTQQNIAVSSAKEKSSPSATEKVFKQQEIPSVFPKTSISP 188

Query:   279 PNPVLGSTATTT--TAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSA 336
              N V G++  ++  TA +V       A  T     A+K  ++ S   T  S+   P+K  
Sbjct:   189 LNVVQGASVNSSSQTAAQVTKGVKRKADTTTPATSAVKASSEFSPTFTEKSVALPPIKEN 248

Query:   337 KQLNTRRESGSITKKPQRIXXXXXXXXXXXXXKTPLWYKYCSEIIAELFHKKHQNYAWPF 396
                N   +S    ++   +             K     ++CSEI+ E+  KKH +YAWPF
Sbjct:   249 MPKNVLPDS----QQQYNVVKTV---------KVTEQLRHCSEILKEMLAKKHFSYAWPF 295

Query:   397 YTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPD 456
             Y PVDV  LGL +Y+D++K PMDLGT+++KM N+ YK A +FA DVRL+F NCYKYNPPD
Sbjct:   296 YNPVDVNALGLHNYYDVVKNPMDLGTIKEKMDNQEYKDAYKFAADVRLMFMNCYKYNPPD 355

Query:   457 HNVVTMARQLSAVFEDRFAKMPDE 480
             H VVTMAR L  VFE  F+K+P E
Sbjct:   356 HEVVTMARMLQDVFETHFSKIPIE 379

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

GO:0006397 "mRNA processing" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0030154 "cell differentiation" evidence=IEA

GO:0001207 "histone displacement" evidence=ISS

GO:0007140 "male meiosis" evidence=ISS

GO:0007141 "male meiosis I" evidence=ISS

GO:0007283 "spermatogenesis" evidence=ISS

GO:0043484 "regulation of RNA splicing" evidence=ISS

GO:0051039 "positive regulation of transcription during meiosis" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISS

GO:0042393 "histone binding" evidence=IDA

GO:0006338 "chromatin remodeling" evidence=ISS

GO:0003713 "transcription coactivator activity" evidence=TAS

ZFIN|ZDB-GENE-030131-267 brd4 "bromodomain containing 4" [Danio rerio (taxid:7955)]

 Score = 458 (166.3 bits), Expect = 6.3e-117, Sum P(3) = 6.3e-117
 Identities = 80/123 (65%), Positives = 100/123 (81%)

Query:   109 PPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMD 168
             PP      RP R TNQLQY++K V+K++WKH  AWPFH PVDA+ LNLPDY+K+I  PMD
Sbjct:    32 PPETSNPTRPKRQTNQLQYLLKVVLKSLWKHQFAWPFHAPVDAVKLNLPDYYKIIKNPMD 91

Query:   169 LGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
             +GTIKKRLE+ +Y S +E IQDF TMFTNCY+YNKPG+D+VLMA+ LE++FLTKI+ MP 
Sbjct:    92 MGTIKKRLESAFYTSAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKVFLTKISEMPQ 151

Query:   229 EEV 231
             +EV
Sbjct:   152 QEV 154

GO:0000793 "condensed chromosome" evidence=IDA

GO:0042393 "histone binding" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

UNIPROTKB|Q4R8Y1 BRDT "Bromodomain testis-specific protein" [Macaca fascicularis (taxid:9541)]

 Score = 776 (278.2 bits), Expect = 6.8e-117, Sum P(2) = 6.8e-117
 Identities = 169/389 (43%), Positives = 226/389 (58%)

Query:   106 IVQPPVVPPKH----RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHK 161
             IV PP  PP++    + GR TNQLQY+ K V+K +WKH  +WPF  PVDA+ L LPDY+ 
Sbjct:    11 IVNPP--PPEYINTKKNGRLTNQLQYLQKVVLKDLWKHSFSWPFQRPVDAVKLKLPDYYT 68

Query:   162 VITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLT 221
             +I  PMDL TIKKRLEN YY    E I+DF TMF+NCY+YNKPG+D+VLMAQ LE+LF+ 
Sbjct:    69 IIKNPMDLNTIKKRLENKYYVKASECIEDFNTMFSNCYLYNKPGDDIVLMAQALEKLFVQ 128

Query:   222 KITGMPSEEVVL---DAXXXXXXXXXXXXXXXXXLNPVIKTPVIPLNKLPSATSTPKPRP 278
             K++ MP EE V+   +                   +P     V     +PS        P
Sbjct:   129 KLSQMPQEEQVVGGKERIKKGTQQNIAVFSAKEKSSPNATEKVFKQQAIPSVFPKTSVSP 188

Query:   279 PNPVLGSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAKQ 338
              N   G++           +NS ++     + K +KRKAD +   TP++   + VK++ +
Sbjct:   189 LNVAQGAS-----------VNS-SSQSVAQVTKGVKRKADTT---TPAT---SVVKASSE 230

Query:   339 LNTRRESGSITKKPQR-------IXXXXXXXXXXXXXKTPLWYKYCSEIIAELFHKKHQN 391
              +      S+T  P +       +             K     ++CSEI+ E+  KKH +
Sbjct:   231 FSPTFTEKSVTLPPIKENMPKNVLPDSQQQYNVVKSVKVTEQLRHCSEILKEMLAKKHFS 290

Query:   392 YAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYK 451
             YAWPFY PVDV  LGL +Y+DI+K PMDLGT+++KM N+ YK A +FA DVRL+F NCYK
Sbjct:   291 YAWPFYNPVDVNALGLHNYYDIVKNPMDLGTIKEKMDNQEYKDAYKFAADVRLMFMNCYK 350

Query:   452 YNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
             YNPPDH VVTMAR L  VFE  F+K+P E
Sbjct:   351 YNPPDHEVVTMARMLQDVFETHFSKIPVE 379

GO:0001207 "histone displacement" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0006338 "chromatin remodeling" evidence=ISS

GO:0007140 "male meiosis" evidence=ISS

GO:0007141 "male meiosis I" evidence=ISS

GO:0007283 "spermatogenesis" evidence=ISS

GO:0042393 "histone binding" evidence=ISS

GO:0043484 "regulation of RNA splicing" evidence=ISS

GO:0051039 "positive regulation of transcription during meiosis" evidence=ISS

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q6MGA9	BRD2_RAT	No assigned EC number	0.4466	0.8035	0.7844	yes	N/A
Q15059	BRD3_HUMAN	No assigned EC number	0.4576	0.7920	0.8498	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

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	779
cd05497	107	cd05497, Bromo_Brdt_I_like, Bromodomain, Brdt_like	2e-65
cd05498	102	cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_lik	3e-56
cd05499	102	cd05499, Bromo_BDF1_2_II, Bromodomain	3e-41
cd05506	99	cd05506, Bromo_plant1, Bromodomain, uncharacterize	1e-37
smart00297	107	smart00297, BROMO, bromo domain	4e-33
smart00297	107	smart00297, BROMO, bromo domain	6e-32
cd04369	99	cd04369, Bromodomain, Bromodomain	7e-32
cd05509	101	cd05509, Bromo_gcn5_like, Bromodomain; Gcn5_like s	3e-30
cd05498	102	cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_lik	3e-29
cd05497	107	cd05497, Bromo_Brdt_I_like, Bromodomain, Brdt_like	5e-29
cd05506	99	cd05506, Bromo_plant1, Bromodomain, uncharacterize	8e-29
cd04369	99	cd04369, Bromodomain, Bromodomain	2e-28
cd05509	101	cd05509, Bromo_gcn5_like, Bromodomain; Gcn5_like s	5e-27
cd05499	102	cd05499, Bromo_BDF1_2_II, Bromodomain	9e-26
cd05500	103	cd05500, Bromo_BDF1_2_I, Bromodomain	2e-25
cd05504	115	cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like o	1e-23
cd05500	103	cd05500, Bromo_BDF1_2_I, Bromodomain	2e-22
cd05495	108	cd05495, Bromo_cbp_like, Bromodomain, cbp_like sub	8e-22
pfam00439	84	pfam00439, Bromodomain, Bromodomain	1e-21
cd05510	112	cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like s	2e-21
cd05511	112	cd05511, Bromo_TFIID, Bromodomain, TFIID-like subf	3e-21
cd05502	109	cd05502, Bromo_tif1_like, Bromodomain; tif1_like s	3e-20
pfam00439	84	pfam00439, Bromodomain, Bromodomain	8e-20
cd05503	97	cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BA	2e-19
cd05504	115	cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like o	1e-18
cd05496	119	cd05496, Bromo_WDR9_II, Bromodomain; WDR9 repeat I	1e-17
cd05502	109	cd05502, Bromo_tif1_like, Bromodomain; tif1_like s	7e-17
cd05511	112	cd05511, Bromo_TFIID, Bromodomain, TFIID-like subf	1e-16
cd05495	108	cd05495, Bromo_cbp_like, Bromodomain, cbp_like sub	2e-16
cd05503	97	cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BA	8e-16
cd05519	103	cd05519, Bromo_SNF2, Bromodomain, SNF2-like subfam	8e-16
cd05505	97	cd05505, Bromo_WSTF_like, Bromodomain; Williams sy	1e-14
COG5076	371	COG5076, COG5076, Transcription factor involved in	2e-14
COG5076	371	COG5076, COG5076, Transcription factor involved in	4e-14
cd05507	104	cd05507, Bromo_brd8_like, Bromodomain, brd8_like s	9e-14
cd05528	112	cd05528, Bromo_AAA, Bromodomain; sub-family co-occ	1e-13
cd05512	98	cd05512, Bromo_brd1_like, Bromodomain; brd1_like s	5e-13
cd05529	128	cd05529, Bromo_WDR9_I_like, Bromodomain; WDR9 repe	1e-12
cd05529	128	cd05529, Bromo_WDR9_I_like, Bromodomain; WDR9 repe	3e-12
cd05510	112	cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like s	1e-11
cd05505	97	cd05505, Bromo_WSTF_like, Bromodomain; Williams sy	1e-11
cd05507	104	cd05507, Bromo_brd8_like, Bromodomain, brd8_like s	1e-11
cd05513	98	cd05513, Bromo_brd7_like, Bromodomain, brd7_like s	1e-11
cd05515	105	cd05515, Bromo_polybromo_V, Bromodomain, polybromo	2e-11
cd05515	105	cd05515, Bromo_polybromo_V, Bromodomain, polybromo	3e-11
cd05513	98	cd05513, Bromo_brd7_like, Bromodomain, brd7_like s	5e-11
cd05518	103	cd05518, Bromo_polybromo_IV, Bromodomain, polybrom	5e-11
cd05508	99	cd05508, Bromo_RACK7, Bromodomain, RACK7_like subf	9e-11
cd05512	98	cd05512, Bromo_brd1_like, Bromodomain; brd1_like s	3e-10
cd05501	102	cd05501, Bromo_SP100C_like, Bromodomain, SP100C_li	5e-10
cd05496	119	cd05496, Bromo_WDR9_II, Bromodomain; WDR9 repeat I	2e-09
cd05518	103	cd05518, Bromo_polybromo_IV, Bromodomain, polybrom	3e-09
cd05520	103	cd05520, Bromo_polybromo_III, Bromodomain, polybro	3e-09
cd05519	103	cd05519, Bromo_SNF2, Bromodomain, SNF2-like subfam	6e-09
cd05528	112	cd05528, Bromo_AAA, Bromodomain; sub-family co-occ	9e-09
cd05522	104	cd05522, Bromo_Rsc1_2_II, Bromodomain, repeat II i	1e-08
cd05522	104	cd05522, Bromo_Rsc1_2_II, Bromodomain, repeat II i	1e-08
cd05516	107	cd05516, Bromo_SNF2L2, Bromodomain, SNF2L2-like su	4e-08
cd05521	106	cd05521, Bromo_Rsc1_2_I, Bromodomain, repeat I in	2e-07
cd05520	103	cd05520, Bromo_polybromo_III, Bromodomain, polybro	2e-06
cd05521	106	cd05521, Bromo_Rsc1_2_I, Bromodomain, repeat I in	2e-06
cd05516	107	cd05516, Bromo_SNF2L2, Bromodomain, SNF2L2-like su	3e-06
cd05524	113	cd05524, Bromo_polybromo_I, Bromodomain, polybromo	3e-06
cd05517	103	cd05517, Bromo_polybromo_II, Bromodomain, polybrom	4e-06
cd05494	114	cd05494, Bromodomain_1, Bromodomain; uncharacteriz	9e-06
cd05508	99	cd05508, Bromo_RACK7, Bromodomain, RACK7_like subf	1e-05
cd05494	114	cd05494, Bromodomain_1, Bromodomain; uncharacteriz	2e-05
cd05525	106	cd05525, Bromo_ASH1, Bromodomain; ASH1_like sub-fa	2e-05
cd05501	102	cd05501, Bromo_SP100C_like, Bromodomain, SP100C_li	4e-05
PTZ00108	1388	PTZ00108, PTZ00108, DNA topoisomerase 2-like prote	4e-05
cd05524	113	cd05524, Bromo_polybromo_I, Bromodomain, polybromo	1e-04
cd05517	103	cd05517, Bromo_polybromo_II, Bromodomain, polybrom	1e-04
pfam05110	1154	pfam05110, AF-4, AF-4 proto-oncoprotein	0.002

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

 Score =  212 bits (541), Expect = 2e-65
 Identities = 80/107 (74%), Positives = 92/107 (85%)

Query: 120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENN 179
           R+TNQLQY++K V+KA+WKH  AWPF +PVDA+ LNLPDYHK+I  PMDLGTIKKRLENN
Sbjct: 1   RHTNQLQYLLKVVLKALWKHKFAWPFQQPVDAVKLNLPDYHKIIKTPMDLGTIKKRLENN 60

Query: 180 YYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGM 226
           YYWS  E IQDF TMFTNCY+YNKPG+DVVLMAQ LE+LFL K+  M
Sbjct: 61  YYWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLEKLFLQKLAQM 107

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

 Score =  187 bits (476), Expect = 3e-56
 Identities = 69/102 (67%), Positives = 79/102 (77%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
             K+CS I+ ELF KKH+ YAWPFY PVD E LGL DY DIIK PMDL T++KK+ NR Y
Sbjct: 1   QLKFCSGILKELFSKKHKAYAWPFYKPVDPEALGLHDYHDIIKHPMDLSTIKKKLDNREY 60

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRF 474
             A+EFA DVRL+FSNCYKYNPPDH V  MAR+L  VFEDR+
Sbjct: 61  ADAQEFAADVRLMFSNCYKYNPPDHPVHAMARKLQDVFEDRW 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 = 102

>gnl|CDD|99931 cd05499, Bromo_BDF1_2_II, Bromodomain

 Score =  145 bits (368), Expect = 3e-41
 Identities = 53/99 (53%), Positives = 65/99 (65%)

Query: 374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYK 433
            K+C E++ EL   KH  Y WPF  PVD   L + +YF IIKKPMDLGT+ KK++N  Y+
Sbjct: 2   LKFCEEVLKELMKPKHSAYNWPFLDPVDPVALNIPNYFSIIKKPMDLGTISKKLQNGQYQ 61

Query: 434 TAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFED 472
           +AKEF  DVRLIF NCY +NP   +V  M  QL  VF D
Sbjct: 62  SAKEFERDVRLIFKNCYTFNPEGTDVYMMGHQLEEVFND 100

BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. Length = 102

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

 Score =  135 bits (342), Expect = 1e-37
 Identities = 53/102 (51%), Positives = 70/102 (68%), Gaps = 3/102 (2%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
             K C  ++ +L   KH+ + W F  PVDV  LGL DYFDIIKKPMDLGTV+KK+    Y
Sbjct: 1   VMKQCGTLLRKLM--KHK-WGWVFNAPVDVVALGLPDYFDIIKKPMDLGTVKKKLEKGEY 57

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRF 474
            + +EFA DVRL F+N  +YNPP ++V TMA++L  +FE R+
Sbjct: 58  SSPEEFAADVRLTFANAMRYNPPGNDVHTMAKELLKIFETRW 99

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|197636 smart00297, BROMO, bromo domain

 Score =  122 bits (309), Expect = 4e-33
 Identities = 41/108 (37%), Positives = 60/108 (55%), Gaps = 3/108 (2%)

Query: 371 PLWYKYCSEIIAELFHKKHQN-YAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRN 429
           P   K   E++  +  K   +  +WPF  PV  ++    DY+DIIKKPMDL T++KK+ N
Sbjct: 2   PKLQKKLQELLKAVLDKLDSHPLSWPFLKPVSRKEAP--DYYDIIKKPMDLKTIKKKLEN 59

Query: 430 RTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM 477
             Y + +EF  D  L+FSN   YN PD  V   A++L   FE +  ++
Sbjct: 60  GKYSSVEEFVADFNLMFSNARTYNGPDSEVYKDAKKLEKFFEKKLREL 107

Length = 107

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

 Score =  119 bits (301), Expect = 6e-32
 Identities = 43/105 (40%), Positives = 62/105 (59%), Gaps = 2/105 (1%)

Query: 120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENN 179
           +   +LQ ++K V+  +  HP +WPF +PV       PDY+ +I +PMDL TIKK+LEN 
Sbjct: 3   KLQKKLQELLKAVLDKLDSHPLSWPFLKPVSRKEA--PDYYDIIKKPMDLKTIKKKLENG 60

Query: 180 YYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKIT 224
            Y S +E + DF  MF+N   YN P  +V   A+ LE+ F  K+ 
Sbjct: 61  KYSSVEEFVADFNLMFSNARTYNGPDSEVYKDAKKLEKFFEKKLR 105

Length = 107

>gnl|CDD|99922 cd04369, Bromodomain, Bromodomain

 Score =  119 bits (299), Expect = 7e-32
 Identities = 39/102 (38%), Positives = 57/102 (55%), Gaps = 3/102 (2%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
             K    ++  L  K  ++ + PF  PVD       DY+++IK PMDL T++KK++N  Y
Sbjct: 1   LKKKLRSLLDAL-KKLKRDLSEPFLEPVD--PKEAPDYYEVIKNPMDLSTIKKKLKNGEY 57

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRF 474
           K+ +EF  DVRLIFSN   YN P   +   A++L  +FE   
Sbjct: 58  KSLEEFEADVRLIFSNAKTYNGPGSPIYKDAKKLEKLFEKLL 99

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

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

 Score =  114 bits (287), Expect = 3e-30
 Identities = 40/103 (38%), Positives = 59/103 (57%), Gaps = 2/103 (1%)

Query: 124 QLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWS 183
            L   +K V+ ++  H  AWPF EPVD      PDY+ VI +PMDL T++++LEN YY +
Sbjct: 1   PLYTQLKKVLDSLKNHKSAWPFLEPVDK--EEAPDYYDVIKKPMDLSTMEEKLENGYYVT 58

Query: 184 GKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGM 226
            +E + D   +F NC +YN P  +    A  LE+ F  K+  +
Sbjct: 59  LEEFVADLKLIFDNCRLYNGPDTEYYKCANKLEKFFWKKLKEL 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|99930 cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_like subfamily, repeat II

 Score =  111 bits (280), Expect = 3e-29
 Identities = 39/78 (50%), Positives = 49/78 (62%)

Query: 142 AWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY 201
           AWPF++PVD   L L DYH +I  PMDL TIKK+L+N  Y   +E   D   MF+NCY Y
Sbjct: 21  AWPFYKPVDPEALGLHDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKY 80

Query: 202 NKPGEDVVLMAQNLEQLF 219
           N P   V  MA+ L+ +F
Sbjct: 81  NPPDHPVHAMARKLQDVF 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|99929 cd05497, Bromo_Brdt_I_like, Bromodomain, Brdt_like subfamily, repeat I

 Score =  111 bits (279), Expect = 5e-29
 Identities = 44/90 (48%), Positives = 58/90 (64%), Gaps = 1/90 (1%)

Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           KH+ +AWPF  PVD  KL L DY  IIK PMDLGT++K++ N  Y +A E   D   +F+
Sbjct: 19  KHK-FAWPFQQPVDAVKLNLPDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFT 77

Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKM 477
           NCY YN P  +VV MA+ L  +F  + A+M
Sbjct: 78  NCYIYNKPGDDVVLMAQTLEKLFLQKLAQM 107

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

 Score =  110 bits (276), Expect = 8e-29
 Identities = 40/92 (43%), Positives = 55/92 (59%)

Query: 131 NVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQD 190
            +++ + KH   W F+ PVD + L LPDY  +I +PMDLGT+KK+LE   Y S +E   D
Sbjct: 7   TLLRKLMKHKWGWVFNAPVDVVALGLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAAD 66

Query: 191 FTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTK 222
               F N   YN PG DV  MA+ L ++F T+
Sbjct: 67  VRLTFANAMRYNPPGNDVHTMAKELLKIFETR 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|99922 cd04369, Bromodomain, Bromodomain

 Score =  108 bits (273), Expect = 2e-28
 Identities = 39/101 (38%), Positives = 58/101 (57%), Gaps = 4/101 (3%)

Query: 125 LQYIVKNVMKAVWKH--PHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYW 182
           L+  +++++ A+ K     + PF EPVD      PDY++VI  PMDL TIKK+L+N  Y 
Sbjct: 1   LKKKLRSLLDALKKLKRDLSEPFLEPVDP--KEAPDYYEVIKNPMDLSTIKKKLKNGEYK 58

Query: 183 SGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI 223
           S +E   D   +F+N   YN PG  +   A+ LE+LF   +
Sbjct: 59  SLEEFEADVRLIFSNAKTYNGPGSPIYKDAKKLEKLFEKLL 99

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

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

 Score =  105 bits (264), Expect = 5e-27
 Identities = 40/91 (43%), Positives = 55/91 (60%), Gaps = 3/91 (3%)

Query: 387 KKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIF 446
           K H++ AWPF  PVD E+    DY+D+IKKPMDL T+ +K+ N  Y T +EF  D++LIF
Sbjct: 14  KNHKS-AWPFLEPVDKEEAP--DYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIF 70

Query: 447 SNCYKYNPPDHNVVTMARQLSAVFEDRFAKM 477
            NC  YN PD      A +L   F  +  ++
Sbjct: 71  DNCRLYNGPDTEYYKCANKLEKFFWKKLKEL 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|99931 cd05499, Bromo_BDF1_2_II, Bromodomain

 Score =  101 bits (254), Expect = 9e-26
 Identities = 38/78 (48%), Positives = 52/78 (66%)

Query: 142 AWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY 201
            WPF +PVD + LN+P+Y  +I +PMDLGTI K+L+N  Y S KE  +D   +F NCY +
Sbjct: 21  NWPFLDPVDPVALNIPNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTF 80

Query: 202 NKPGEDVVLMAQNLEQLF 219
           N  G DV +M   LE++F
Sbjct: 81  NPEGTDVYMMGHQLEEVF 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|99932 cd05500, Bromo_BDF1_2_I, Bromodomain

 Score =  100 bits (251), Expect = 2e-25
 Identities = 41/102 (40%), Positives = 56/102 (54%), Gaps = 3/102 (2%)

Query: 370 TPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRN 429
           T   +K+    I  L   K    A PF  PVD  KL +  Y  IIKKPMDLGT+ +K+++
Sbjct: 2   TKHQHKFLLSSIRSL---KRLKDARPFLVPVDPVKLNIPHYPTIIKKPMDLGTIERKLKS 58

Query: 430 RTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFE 471
             Y + +EF  D  L+  NC  +N P+H V  M ++L A FE
Sbjct: 59  NVYTSVEEFTADFNLMVDNCLTFNGPEHPVSQMGKRLQAAFE 100

BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. Length = 103

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

 Score = 96.3 bits (240), Expect = 1e-23
 Identities = 42/101 (41%), Positives = 64/101 (63%), Gaps = 5/101 (4%)

Query: 377 CSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAK 436
             +++ E+   KH++ +WPF  PV   K+ + DY+DIIKKPMDLGT+++K+    YK A+
Sbjct: 17  LEQLLVEI--VKHKD-SWPFLRPV--SKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLAE 71

Query: 437 EFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM 477
           EF  D++L+FSNC+ YNP   +V     +L   F  R  K+
Sbjct: 72  EFLSDIQLVFSNCFLYNPEHTSVYKAGTRLQRFFIKRCRKL 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|99932 cd05500, Bromo_BDF1_2_I, Bromodomain

 Score = 92.4 bits (230), Expect = 2e-22
 Identities = 35/96 (36%), Positives = 58/96 (60%), Gaps = 1/96 (1%)

Query: 124 QLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWS 183
           Q ++++ ++ +++ +   A PF  PVD + LN+P Y  +I +PMDLGTI+++L++N Y S
Sbjct: 5   QHKFLLSSI-RSLKRLKDARPFLVPVDPVKLNIPHYPTIIKKPMDLGTIERKLKSNVYTS 63

Query: 184 GKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLF 219
            +E   DF  M  NC  +N P   V  M + L+  F
Sbjct: 64  VEEFTADFNLMVDNCLTFNGPEHPVSQMGKRLQAAF 99

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|99927 cd05495, Bromo_cbp_like, Bromodomain, cbp_like subfamily

 Score = 90.6 bits (225), Expect = 8e-22
 Identities = 35/86 (40%), Positives = 49/86 (56%)

Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           K    + PF  PVD + LG+ DYFDI+K PMDL T+R+K+    Y+   ++ DDV L+F 
Sbjct: 17  KQDPESLPFRQPVDPKLLGIPDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFD 76

Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDR 473
           N + YN     V     +L+ VFE  
Sbjct: 77  NAWLYNRKTSRVYKYCTKLAEVFEQE 102

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|215921 pfam00439, Bromodomain, Bromodomain

 Score = 89.4 bits (222), Expect = 1e-21
 Identities = 32/89 (35%), Positives = 49/89 (55%), Gaps = 5/89 (5%)

Query: 377 CSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAK 436
           C EI+ +L   +H             E     DY+++IK+PMDL T+R+K+++  YK+  
Sbjct: 1   CLEILEDL--MEHPLAEPFLEPVDPEE---YPDYYEVIKEPMDLSTIRQKLKSGKYKSLA 55

Query: 437 EFADDVRLIFSNCYKYNPPDHNVVTMARQ 465
           EF  DV LIFSN   YN  D ++   A++
Sbjct: 56  EFLKDVELIFSNAITYNGEDSDIYKDAKK 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|99942 cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like subfamily

 Score = 89.4 bits (222), Expect = 2e-21
 Identities = 43/107 (40%), Positives = 60/107 (56%), Gaps = 5/107 (4%)

Query: 374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYK 433
           Y+   +++ EL  K +  ++ PF T V   K    DY+DIIKKPMDLGT+ KK++N  YK
Sbjct: 9   YESLDKVLNEL--KTYTEHSTPFLTKV--SKREAPDYYDIIKKPMDLGTMLKKLKNLQYK 64

Query: 434 TAKEFADDVRLIFSNCYKYNP-PDHNVVTMARQLSAVFEDRFAKMPD 479
           +  EF DD+ LI+ NC  YN  P H +   A  +    E     +PD
Sbjct: 65  SKAEFVDDLNLIWKNCLLYNSDPSHPLRRHANFMKKKAEHLLKLIPD 111

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

 Score = 89.2 bits (222), Expect = 3e-21
 Identities = 39/103 (37%), Positives = 63/103 (61%), Gaps = 5/103 (4%)

Query: 378 SEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKE 437
            EI+ EL   K+   +WPF+TPV+ +K+   DY+ IIK+PMDL T+RKK+    Y++ +E
Sbjct: 6   DEIVNEL---KNLPDSWPFHTPVNKKKV--PDYYKIIKRPMDLQTIRKKISKHKYQSREE 60

Query: 438 FADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           F +D+ LI  N   YN PD      A+++  + E+  A+  ++
Sbjct: 61  FLEDIELIVDNSVLYNGPDSVYTKKAKEMLELAEELLAEREEK 103

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|99934 cd05502, Bromo_tif1_like, Bromodomain; tif1_like subfamily

 Score = 86.2 bits (214), Expect = 3e-20
 Identities = 38/111 (34%), Positives = 63/111 (56%), Gaps = 11/111 (9%)

Query: 370 TPLWYKYCSEIIAELF-HKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
           +P+  + C  ++ EL+ H+       PF+ PV      + +Y+ IIK PMDL  +RKK++
Sbjct: 2   SPIDQRKCERLLLELYCHELSL----PFHEPV---SPSVPNYYKIIKTPMDLSLIRKKLQ 54

Query: 429 NRT---YKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAK 476
            ++   Y + +EF  DVRL+F NCYK+N  D  V    ++L   FE++  +
Sbjct: 55  PKSPQHYSSPEEFVADVRLMFKNCYKFNEEDSEVAQAGKELELFFEEQLKE 105

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|215921 pfam00439, Bromodomain, Bromodomain

 Score = 84.0 bits (208), Expect = 8e-20
 Identities = 31/84 (36%), Positives = 50/84 (59%), Gaps = 2/84 (2%)

Query: 130 KNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQ 189
             +++ + +HP A PF EPVD      PDY++VI +PMDL TI+++L++  Y S  E ++
Sbjct: 2   LEILEDLMEHPLAEPFLEPVD--PEEYPDYYEVIKEPMDLSTIRQKLKSGKYKSLAEFLK 59

Query: 190 DFTTMFTNCYVYNKPGEDVVLMAQ 213
           D   +F+N   YN    D+   A+
Sbjct: 60  DVELIFSNAITYNGEDSDIYKDAK 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|99935 cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BAZ2B_like subfamily

 Score = 83.2 bits (206), Expect = 2e-19
 Identities = 42/97 (43%), Positives = 58/97 (59%), Gaps = 5/97 (5%)

Query: 377 CSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAK 436
           C  I+ E+  + H++ AWPF  PV+  KL +  Y  IIKKPMD  T+R+K+ +  YKT +
Sbjct: 5   CETILDEM--EAHED-AWPFLEPVNT-KL-VPGYRKIIKKPMDFSTIREKLESGQYKTLE 59

Query: 437 EFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDR 473
           EFA+DVRL+F NC  +N  D  V      +   FE R
Sbjct: 60  EFAEDVRLVFDNCETFNEDDSEVGRAGHNMRKFFEKR 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|99936 cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like or BAZ1A_like subfamily

 Score = 81.7 bits (202), Expect = 1e-18
 Identities = 32/85 (37%), Positives = 49/85 (57%), Gaps = 2/85 (2%)

Query: 138 KHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTN 197
           KH  +WPF  PV  I +  PDY+ +I +PMDLGTIK++L    Y   +E + D   +F+N
Sbjct: 26  KHKDSWPFLRPVSKIEV--PDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLVFSN 83

Query: 198 CYVYNKPGEDVVLMAQNLEQLFLTK 222
           C++YN     V      L++ F+ +
Sbjct: 84  CFLYNPEHTSVYKAGTRLQRFFIKR 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|99928 cd05496, Bromo_WDR9_II, Bromodomain; WDR9 repeat II_like subfamily

 Score = 79.0 bits (195), Expect = 1e-17
 Identities = 43/106 (40%), Positives = 59/106 (55%), Gaps = 6/106 (5%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
           W K C E++  ++  +      PF  PVD+ K    DY DII  PMDLGTV++ +    Y
Sbjct: 6   WKKQCKELVNLMWDCEDSE---PFRQPVDLLKY--PDYRDIIDTPMDLGTVKETLFGGNY 60

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHN-VVTMARQLSAVFEDRFAKM 477
               EFA DVRLIFSN   Y P   + + +M  +LSA+FE+   K+
Sbjct: 61  DDPMEFAKDVRLIFSNSKSYTPNKRSRIYSMTLRLSALFEEHIKKI 106

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|99934 cd05502, Bromo_tif1_like, Bromodomain; tif1_like subfamily

 Score = 76.6 bits (189), Expect = 7e-17
 Identities = 31/82 (37%), Positives = 45/82 (54%), Gaps = 6/82 (7%)

Query: 144 PFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLE---NNYYWSGKEAIQDFTTMFTNCYV 200
           PFHEPV       P+Y+K+I  PMDL  I+K+L+     +Y S +E + D   MF NCY 
Sbjct: 24  PFHEPVSPSV---PNYYKIIKTPMDLSLIRKKLQPKSPQHYSSPEEFVADVRLMFKNCYK 80

Query: 201 YNKPGEDVVLMAQNLEQLFLTK 222
           +N+   +V    + LE  F  +
Sbjct: 81  FNEEDSEVAQAGKELELFFEEQ 102

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 = 76.1 bits (188), Expect = 1e-16
 Identities = 31/94 (32%), Positives = 54/94 (57%), Gaps = 2/94 (2%)

Query: 125 LQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSG 184
           L +I+  ++  +   P +WPFH PV+     +PDY+K+I +PMDL TI+K++  + Y S 
Sbjct: 1   LSFILDEIVNELKNLPDSWPFHTPVNK--KKVPDYYKIIKRPMDLQTIRKKISKHKYQSR 58

Query: 185 KEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQL 218
           +E ++D   +  N  +YN P       A+ + +L
Sbjct: 59  EEFLEDIELIVDNSVLYNGPDSVYTKKAKEMLEL 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|99927 cd05495, Bromo_cbp_like, Bromodomain, cbp_like subfamily

 Score = 75.2 bits (185), Expect = 2e-16
 Identities = 30/99 (30%), Positives = 51/99 (51%)

Query: 125 LQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSG 184
            Q ++  + K   + P + PF +PVD   L +PDY  ++  PMDL TI+++L+   Y   
Sbjct: 5   RQALMPTLEKLYKQDPESLPFRQPVDPKLLGIPDYFDIVKNPMDLSTIRRKLDTGQYQDP 64

Query: 185 KEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI 223
            + + D   MF N ++YN+    V      L ++F  +I
Sbjct: 65  WQYVDDVWLMFDNAWLYNRKTSRVYKYCTKLAEVFEQEI 103

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 = 73.2 bits (180), Expect = 8e-16
 Identities = 31/87 (35%), Positives = 47/87 (54%), Gaps = 4/87 (4%)

Query: 137 WKHPHAWPFHEPVDAINLNL-PDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMF 195
             H  AWPF EPV   N  L P Y K+I +PMD  TI+++LE+  Y + +E  +D   +F
Sbjct: 13  EAHEDAWPFLEPV---NTKLVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVF 69

Query: 196 TNCYVYNKPGEDVVLMAQNLEQLFLTK 222
            NC  +N+   +V     N+ + F  +
Sbjct: 70  DNCETFNEDDSEVGRAGHNMRKFFEKR 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|99950 cd05519, Bromo_SNF2, Bromodomain, SNF2-like subfamily, specific to fungi

 Score = 73.1 bits (180), Expect = 8e-16
 Identities = 26/67 (38%), Positives = 38/67 (56%)

Query: 157 PDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLE 216
           PDY+ +I +P+ L  IK+R+E   Y S +E ++DF  MF N   YN+ G  V   A  +E
Sbjct: 37  PDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANARTYNQEGSIVYEDAVEME 96

Query: 217 QLFLTKI 223
           + F  K 
Sbjct: 97  KAFKKKY 103

SNF2 is a yeast protein involved in transcriptional activation, it is the catalytic component of the SWI/SNF ATP-dependent chromatin remodeling complex. The protein is essential for the regulation of gene expression (both positive and negative) of a large number of genes. The SWI/SNF complex changes chromatin structure by altering DNA-histone contacts within the nucleosome, which results in a re-positioning of the nucleosome and facilitates or represses the binding of gene-specific transcription factors. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. Length = 103

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

 Score = 70.3 bits (172), Expect = 1e-14
 Identities = 30/89 (33%), Positives = 50/89 (56%), Gaps = 5/89 (5%)

Query: 377 CSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAK 436
           C EI++++   +    +WPF  PV  ++    DY  +I  PMDL T++ K    +Y + +
Sbjct: 5   CEEILSKILKYRF---SWPFREPVTADEA--EDYKKVITNPMDLQTMQTKCSCGSYSSVQ 59

Query: 437 EFADDVRLIFSNCYKYNPPDHNVVTMARQ 465
           EF DD++L+FSN  KY      V++  R+
Sbjct: 60  EFLDDMKLVFSNAEKYYENGSYVLSCMRK 88

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

 Score = 75.6 bits (186), Expect = 2e-14
 Identities = 37/112 (33%), Positives = 59/112 (52%), Gaps = 2/112 (1%)

Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
                 K  ++   +LF +  +  +  F       K    DY++IIK PMDL T++KK++
Sbjct: 142 LLYADNKAIAKFKKQLFLRDGRFLSSIF--LGLPSKREYPDYYEIIKSPMDLLTIQKKLK 199

Query: 429 NRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           N  YK+ +EF  D+ L+F NC  YN PD +V   A++L   F     ++P+E
Sbjct: 200 NGRYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFLKLIEEIPEE 251

Length = 371

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

 Score = 74.5 bits (183), Expect = 4e-14
 Identities = 49/191 (25%), Positives = 74/191 (38%), Gaps = 14/191 (7%)

Query: 123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYW 182
           N+     K  +        +  F           PDY+++I  PMDL TI+K+L+N  Y 
Sbjct: 147 NKAIAKFKKQLFLRDGRFLSSIFLGLPSKREY--PDYYEIIKSPMDLLTIQKKLKNGRYK 204

Query: 183 SGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSK 242
           S +E + D   MF NC +YN P   V + A+ LE+ FL  I  +P EE++  + +P   +
Sbjct: 205 SFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFLKLIEEIP-EEMLELSIKPGREE 263

Query: 243 KKP-----------PVSASPSLNPVIKTPVIPLNKLPSATSTPKPRPPNPVLGSTATTTT 291
           ++             V A P L PV    V    K          +             T
Sbjct: 264 REERESVLITNSQAHVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTKELKLRNNYYRPEET 323

Query: 292 APKVNHLNSMN 302
             +   L   N
Sbjct: 324 FVRDAKLFFDN 334

Length = 371

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

 Score = 67.4 bits (165), Expect = 9e-14
 Identities = 35/88 (39%), Positives = 47/88 (53%), Gaps = 9/88 (10%)

Query: 130 KNVMKAVWK----HPHAWPFHEPV-DAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSG 184
           K ++  V++    H +A  F +PV + I    P YH V+ +PMDL TIKK +EN    S 
Sbjct: 6   KAIL-LVYRTLASHRYASVFLKPVTEDIA---PGYHSVVYRPMDLSTIKKNIENGTIRST 61

Query: 185 KEAIQDFTTMFTNCYVYNKPGEDVVLMA 212
            E  +D   MF N  +YN    DV LMA
Sbjct: 62  AEFQRDVLLMFQNAIMYNSSDHDVYLMA 89

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

 Score = 67.8 bits (166), Expect = 1e-13
 Identities = 32/104 (30%), Positives = 49/104 (47%), Gaps = 15/104 (14%)

Query: 395 PFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNP 454
            F  PVD E++   DY++IIK+PMDL T+ +K+    Y TAK+F  D+ LI +N  +YNP
Sbjct: 23  AFTKPVDEEEV--PDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYNP 80

Query: 455 PDHNVVTMARQLSAVFEDRFAKMPDESNLASRAAASVSSDDDSE 498
                  + R  +               L     A + ++ D  
Sbjct: 81  DRDPADKLIRSRA-------------CELRDEVHAMIEAELDPL 111

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|99944 cd05512, Bromo_brd1_like, Bromodomain; brd1_like subfamily

 Score = 65.1 bits (159), Expect = 5e-13
 Identities = 27/61 (44%), Positives = 39/61 (63%), Gaps = 2/61 (3%)

Query: 396 FYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPP 455
           F  PVD+ ++   DY D IK+PMD  T+RKK+ ++ Y+T ++F  D  LI +NC  YN  
Sbjct: 22  FSEPVDLSEV--PDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNAK 79

Query: 456 D 456
           D
Sbjct: 80  D 80

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

 Score = 65.1 bits (159), Expect = 1e-12
 Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 1/77 (1%)

Query: 144 PFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNK 203
            F  PVD +    PDY   +  PMDL TI+ RLEN YY S +    D   + +N   +N+
Sbjct: 47  YFEYPVD-LRAWYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLILSNAETFNE 105

Query: 204 PGEDVVLMAQNLEQLFL 220
           P  ++   A+ L    L
Sbjct: 106 PNSEIAKKAKRLSDWLL 122

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

 Score = 63.9 bits (156), Expect = 3e-12
 Identities = 29/92 (31%), Positives = 47/92 (51%), Gaps = 1/92 (1%)

Query: 381 IAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFAD 440
           + +L        A  F  PVD+ +    DY++ +  PMDL T+R ++ NR Y++ +    
Sbjct: 33  LDKLLLSLQLEIAEYFEYPVDL-RAWYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRH 91

Query: 441 DVRLIFSNCYKYNPPDHNVVTMARQLSAVFED 472
           DVRLI SN   +N P+  +   A++LS     
Sbjct: 92  DVRLILSNAETFNEPNSEIAKKAKRLSDWLLR 123

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|99942 cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like subfamily

 Score = 61.7 bits (150), Expect = 1e-11
 Identities = 25/63 (39%), Positives = 36/63 (57%), Gaps = 2/63 (3%)

Query: 140 PHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCY 199
            H+ PF   V       PDY+ +I +PMDLGT+ K+L+N  Y S  E + D   ++ NC 
Sbjct: 24  EHSTPFLTKVSKREA--PDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWKNCL 81

Query: 200 VYN 202
           +YN
Sbjct: 82  LYN 84

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

 Score = 61.0 bits (148), Expect = 1e-11
 Identities = 30/82 (36%), Positives = 42/82 (51%), Gaps = 2/82 (2%)

Query: 138 KHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTN 197
           K+  +WPF EPV A      DY KVIT PMDL T++ +     Y S +E + D   +F+N
Sbjct: 14  KYRFSWPFREPVTADEA--EDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSN 71

Query: 198 CYVYNKPGEDVVLMAQNLEQLF 219
              Y + G  V+   +  EQ  
Sbjct: 72  AEKYYENGSYVLSCMRKTEQCC 93

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|99939 cd05507, Bromo_brd8_like, Bromodomain, brd8_like subgroup

 Score = 61.2 bits (149), Expect = 1e-11
 Identities = 28/75 (37%), Positives = 41/75 (54%), Gaps = 2/75 (2%)

Query: 392 YAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYK 451
           YA  F  PV  +      Y  ++ +PMDL T++K + N T ++  EF  DV L+F N   
Sbjct: 20  YASVFLKPVTED--IAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIM 77

Query: 452 YNPPDHNVVTMARQL 466
           YN  DH+V  MA ++
Sbjct: 78  YNSSDHDVYLMAVEM 92

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|99945 cd05513, Bromo_brd7_like, Bromodomain, brd7_like subgroup

 Score = 61.7 bits (150), Expect = 1e-11
 Identities = 30/82 (36%), Positives = 44/82 (53%), Gaps = 8/82 (9%)

Query: 125 LQYIVKNVMKAVWKHPHAWPFHEPV-DAINLNLPDYHKVITQPMDLGTIKKRLENNYYWS 183
           L+ +++ + +   K PH + F  PV D I    P Y  +I  PMD  T+K++++NN Y S
Sbjct: 6   LEQLIRQLQR---KDPHGF-FAFPVTDFI---APGYSSIIKHPMDFSTMKEKIKNNDYQS 58

Query: 184 GKEAIQDFTTMFTNCYVYNKPG 205
            +E   DF  M  N   YNKP 
Sbjct: 59  IEEFKDDFKLMCENAMKYNKPD 80

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|99946 cd05515, Bromo_polybromo_V, Bromodomain, polybromo repeat V

 Score = 61.2 bits (149), Expect = 2e-11
 Identities = 20/48 (41%), Positives = 30/48 (62%)

Query: 409 DYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPD 456
           DY+D+IKKP+D+  +R K+    Y++  +   D  L+F N  KYN PD
Sbjct: 38  DYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNACKYNEPD 85

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|99946 cd05515, Bromo_polybromo_V, Bromodomain, polybromo repeat V

 Score = 60.4 bits (147), Expect = 3e-11
 Identities = 23/70 (32%), Positives = 37/70 (52%)

Query: 156 LPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNL 215
            PDY+ VI +P+D+  I+ ++E N Y S  + + DF  MF N   YN+P   +   A  L
Sbjct: 36  YPDYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNACKYNEPDSQIYKDALTL 95

Query: 216 EQLFLTKITG 225
           +++ L     
Sbjct: 96  QKVLLETKRE 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|99945 cd05513, Bromo_brd7_like, Bromodomain, brd7_like subgroup

 Score = 59.3 bits (144), Expect = 5e-11
 Identities = 28/85 (32%), Positives = 43/85 (50%), Gaps = 8/85 (9%)

Query: 374 YKYCSEIIAELFHKK--HQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRT 431
            +   E +     +K  H  +A+P      V       Y  IIK PMD  T+++K++N  
Sbjct: 2   LQKALEQLIRQLQRKDPHGFFAFP------VTDFIAPGYSSIIKHPMDFSTMKEKIKNND 55

Query: 432 YKTAKEFADDVRLIFSNCYKYNPPD 456
           Y++ +EF DD +L+  N  KYN PD
Sbjct: 56  YQSIEEFKDDFKLMCENAMKYNKPD 80

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|99949 cd05518, Bromo_polybromo_IV, Bromodomain, polybromo repeat IV

 Score = 59.8 bits (145), Expect = 5e-11
 Identities = 26/66 (39%), Positives = 39/66 (59%)

Query: 157 PDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLE 216
           PDY+K+I +P+DL TI+  + N+ Y + +E + DF  MF N   YN+ G  V   A  LE
Sbjct: 37  PDYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNARHYNEEGSQVYEDANILE 96

Query: 217 QLFLTK 222
           ++   K
Sbjct: 97  KVLKEK 102

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|99940 cd05508, Bromo_RACK7, Bromodomain, RACK7_like subfamily

 Score = 58.9 bits (143), Expect = 9e-11
 Identities = 28/77 (36%), Positives = 39/77 (50%), Gaps = 2/77 (2%)

Query: 390 QNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNC 449
           Q  A PF  PVD+E+    DY   + KPMDL T+ K +R + Y +   F  D + I  N 
Sbjct: 17  QPGAEPFLKPVDLEQF--PDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNA 74

Query: 450 YKYNPPDHNVVTMARQL 466
             YN  DH +   A+ +
Sbjct: 75  IIYNGGDHKLTQAAKAI 91

RACK7 (also called human protein kinase C-binding protein) was identified as a potential tumor suppressor genes, it shares domain architecture with BS69/ZMYND11; both have been implicated in the regulation of cellular proliferation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. Length = 99

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

 Score = 57.4 bits (139), Expect = 3e-10
 Identities = 24/58 (41%), Positives = 33/58 (56%), Gaps = 2/58 (3%)

Query: 145 FHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYN 202
           F EPVD     +PDY   I QPMD  T++K+LE+  Y + ++   DF  +  NC  YN
Sbjct: 22  FSEPVDL--SEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYN 77

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|99933 cd05501, Bromo_SP100C_like, Bromodomain, SP100C_like subfamily

 Score = 57.1 bits (138), Expect = 5e-10
 Identities = 23/66 (34%), Positives = 33/66 (50%), Gaps = 1/66 (1%)

Query: 409 DYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSA 468
           DY   IK+PM L  V++++  R Y T + F  D+RLIF N   +   D +   +   L  
Sbjct: 32  DYCQGIKEPMWLNKVKERLNERVYHTVEGFVRDMRLIFHNHKLFYKDD-DFGQVGITLEK 90

Query: 469 VFEDRF 474
            FE  F
Sbjct: 91  KFEKNF 96

The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin level. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. Length = 102

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

 Score = 55.9 bits (135), Expect = 2e-09
 Identities = 26/73 (35%), Positives = 37/73 (50%), Gaps = 2/73 (2%)

Query: 130 KNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQ 189
           K ++  +W    + PF +PVD   L  PDY  +I  PMDLGT+K+ L    Y    E  +
Sbjct: 11  KELVNLMWDCEDSEPFRQPVD--LLKYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAK 68

Query: 190 DFTTMFTNCYVYN 202
           D   +F+N   Y 
Sbjct: 69  DVRLIFSNSKSYT 81

WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. Length = 119

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

 Score = 54.8 bits (132), Expect = 3e-09
 Identities = 24/66 (36%), Positives = 35/66 (53%)

Query: 409 DYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSA 468
           DY+ II +P+DL T+   +RN  Y T +E  DD +L+F N   YN     V   A  L  
Sbjct: 38  DYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNARHYNEEGSQVYEDANILEK 97

Query: 469 VFEDRF 474
           V +++ 
Sbjct: 98  VLKEKR 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|99951 cd05520, Bromo_polybromo_III, Bromodomain, polybromo repeat III

 Score = 54.7 bits (132), Expect = 3e-09
 Identities = 21/61 (34%), Positives = 35/61 (57%)

Query: 409 DYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSA 468
           DY+  IK P+ L  +R K++N  Y+T +E   D+ L+F N  +YN P+  +   A +L  
Sbjct: 38  DYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYNVPNSRIYKDAEKLQK 97

Query: 469 V 469
           +
Sbjct: 98  L 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|99950 cd05519, Bromo_SNF2, Bromodomain, SNF2-like subfamily, specific to fungi

 Score = 53.9 bits (130), Expect = 6e-09
 Identities = 18/45 (40%), Positives = 31/45 (68%)

Query: 409 DYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYN 453
           DY+ IIK+P+ L  +++++  R YK+ +EF +D  L+F+N   YN
Sbjct: 38  DYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANARTYN 82

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

 Score = 53.5 bits (129), Expect = 9e-09
 Identities = 26/92 (28%), Positives = 42/92 (45%), Gaps = 6/92 (6%)

Query: 144 PFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYN- 202
            F +PVD     +PDY+++I QPMDL TI ++L+ + Y + K+ ++D   + TN   YN 
Sbjct: 23  AFTKPVDE--EEVPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYNP 80

Query: 203 ---KPGEDVVLMAQNLEQLFLTKITGMPSEEV 231
                 + +   A  L       I        
Sbjct: 81  DRDPADKLIRSRACELRDEVHAMIEAELDPLF 112

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

 Score = 53.0 bits (128), Expect = 1e-08
 Identities = 19/58 (32%), Positives = 31/58 (53%)

Query: 409 DYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQL 466
           +Y+  I  P+ L  ++KK++ R YK+  +F +D+ L+F N   YN  D      A  L
Sbjct: 39  EYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAKLYNENDSQEYKDAVLL 96

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

 Score = 52.6 bits (127), Expect = 1e-08
 Identities = 19/63 (30%), Positives = 32/63 (50%)

Query: 157 PDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLE 216
           P+Y++ I+ P+ L  IKK+++   Y S  + + D   MF N  +YN+        A  LE
Sbjct: 38  PEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAKLYNENDSQEYKDAVLLE 97

Query: 217 QLF 219
           +  
Sbjct: 98  KEA 100

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 = 51.7 bits (124), Expect = 4e-08
 Identities = 18/64 (28%), Positives = 36/64 (56%)

Query: 156 LPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNL 215
           LP+Y+++I +P+D   IK+R+ N+ Y S ++  +D   +  N   +N  G  +   +  L
Sbjct: 37  LPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNAQTFNLEGSLIYEDSIVL 96

Query: 216 EQLF 219
           + +F
Sbjct: 97  QSVF 100

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

 Score = 49.2 bits (118), Expect = 2e-07
 Identities = 20/60 (33%), Positives = 31/60 (51%), Gaps = 2/60 (3%)

Query: 404 KLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMA 463
           +    DY+ IIK P+ L TV+K++ +  Y  A+EF +D+  I  N   YN     +   A
Sbjct: 34  RKDYPDYYKIIKNPLSLNTVKKRLPH--YTNAQEFVNDLAQIPWNARLYNTKGSVIYKYA 91

Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. Length = 106

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

 Score = 46.9 bits (112), Expect = 2e-06
 Identities = 22/66 (33%), Positives = 34/66 (51%)

Query: 157 PDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLE 216
           PDY++ I  P+ L  I+ +L+N  Y + +E   D   MF N   YN P   +   A+ L+
Sbjct: 37  PDYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYNVPNSRIYKDAEKLQ 96

Query: 217 QLFLTK 222
           +L   K
Sbjct: 97  KLMQAK 102

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

 Score = 46.5 bits (111), Expect = 2e-06
 Identities = 23/68 (33%), Positives = 35/68 (51%), Gaps = 2/68 (2%)

Query: 156 LPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNL 215
            PDY+K+I  P+ L T+KKRL +  Y + +E + D   +  N  +YN  G  +   A  L
Sbjct: 37  YPDYYKIIKNPLSLNTVKKRLPH--YTNAQEFVNDLAQIPWNARLYNTKGSVIYKYALIL 94

Query: 216 EQLFLTKI 223
           E+     I
Sbjct: 95  EKYINDVI 102

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

 Score = 46.3 bits (110), Expect = 3e-06
 Identities = 14/47 (29%), Positives = 31/47 (65%)

Query: 407 LTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYN 453
           L +Y+++I+KP+D   +++++RN  Y++ ++   DV L+  N   +N
Sbjct: 37  LPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNAQTFN 83

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 = 46.2 bits (110), Expect = 3e-06
 Identities = 12/48 (25%), Positives = 26/48 (54%)

Query: 409 DYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPD 456
           +Y++++  P+DL  +++K++   Y    +   D  L+ +N   Y  PD
Sbjct: 40  EYYEVVSNPIDLLKIQQKLKTEEYDDVDDLTADFELLINNAKAYYKPD 87

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|99948 cd05517, Bromo_polybromo_II, Bromodomain, polybromo repeat II

 Score = 45.9 bits (109), Expect = 4e-06
 Identities = 24/94 (25%), Positives = 46/94 (48%), Gaps = 13/94 (13%)

Query: 380 IIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFA 439
           +I+ELF K      +P             DY+ +IK+P+DL T+ +++++  YK+ ++  
Sbjct: 22  LISELFQKLPSKVLYP-------------DYYAVIKEPIDLKTIAQRIQSGYYKSIEDME 68

Query: 440 DDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDR 473
            D+ L+  N   +N P   V   A  +  +F  +
Sbjct: 69  KDLDLMVKNAKTFNEPGSQVYKDANAIKKIFTAK 102

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|99926 cd05494, Bromodomain_1, Bromodomain; uncharacterized subfamily

 Score = 45.1 bits (107), Expect = 9e-06
 Identities = 20/65 (30%), Positives = 30/65 (46%), Gaps = 3/65 (4%)

Query: 374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRK---KMRNR 430
           Y+    ++ EL   +    AWPF  PV+  + G  DY D+IK+PM  GT      +   R
Sbjct: 2   YEALERVLRELKRHRRNEDAWPFLEPVNPPRRGAPDYRDVIKRPMSFGTKVNNIVETGAR 61

Query: 431 TYKTA 435
             +  
Sbjct: 62  DLEDL 66

Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine. Length = 114

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

 Score = 44.3 bits (105), Expect = 1e-05
 Identities = 26/81 (32%), Positives = 42/81 (51%), Gaps = 3/81 (3%)

Query: 122 TNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYY 181
            +QL  ++K  ++ + K P A PF +PVD      PDY + + +PMDL T++K +    Y
Sbjct: 1   VDQLSKLLKFALERM-KQPGAEPFLKPVDL--EQFPDYAQYVFKPMDLSTLEKNVRKKAY 57

Query: 182 WSGKEAIQDFTTMFTNCYVYN 202
            S    + D   +  N  +YN
Sbjct: 58  GSTDAFLADAKWILHNAIIYN 78

RACK7 (also called human protein kinase C-binding protein) was identified as a potential tumor suppressor genes, it shares domain architecture with BS69/ZMYND11; both have been implicated in the regulation of cellular proliferation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. Length = 99

>gnl|CDD|99926 cd05494, Bromodomain_1, Bromodomain; uncharacterized subfamily

 Score = 44.0 bits (104), Expect = 2e-05
 Identities = 18/51 (35%), Positives = 24/51 (47%)

Query: 127 YIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLE 177
             V   +K   ++  AWPF EPV+      PDY  VI +PM  GT    + 
Sbjct: 6   ERVLRELKRHRRNEDAWPFLEPVNPPRRGAPDYRDVIKRPMSFGTKVNNIV 56

Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine. Length = 114

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

 Score = 43.9 bits (104), Expect = 2e-05
 Identities = 18/50 (36%), Positives = 27/50 (54%)

Query: 404 KLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYN 453
           K    DY++ I  P+DL T+ K++    YKT + F  D+  +F N  KY 
Sbjct: 35  KKKNPDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRNAEKYY 84

ASH1 (absent, small, or homeotic 1) is a member of the trithorax-group in Drosophila melanogaster, an epigenetic transcriptional regulator of HOX genes. Drosophila ASH1 has been shown to methylate specific lysines in histones H3 and H4. Mammalian ASH1 has been shown to methylate histone H3. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. Length = 106

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

 Score = 42.8 bits (101), Expect = 4e-05
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 158 DYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQ 217
           DY + I +PM L  +K+RL    Y + +  ++D   +F N  ++ K  +D   +   LE+
Sbjct: 32  DYCQGIKEPMWLNKVKERLNERVYHTVEGFVRDMRLIFHNHKLFYK-DDDFGQVGITLEK 90

Query: 218 LF 219
            F
Sbjct: 91  KF 92

The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin level. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. Length = 102

>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional

 Score = 47.0 bits (112), Expect = 4e-05
 Identities = 61/382 (15%), Positives = 125/382 (32%), Gaps = 40/382 (10%)

Query: 401  DVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVV 460
            +++KLG   + DIIKK  +  T  ++        A +  D+  L  +  Y Y      ++
Sbjct: 1039 ELKKLGYVRFKDIIKKKSEKITAEEEEGAEEDDEADDEDDEEELGAAVSYDY------LL 1092

Query: 461  TMARQLSAVFEDRFAKMPDESNLASRAAASVSSDDDSE---DERQNQLKYLQEQLKSLTD 517
            +M   + ++ +++  K+  E     +    + +    +   ++     + L+EQ +   +
Sbjct: 1093 SMP--IWSLTKEKVEKLNAELEKKEKELEKLKNTTPKDMWLEDLDKFEEALEEQEE--VE 1148

Query: 518  QIRLLVEDSTKPKKKKK--KNRDQPKSKMPMGQNSAMMNDHVNKMNKAPAPLNNGQKPKS 575
            +  +  E   K K K K  K R     K    +  +  +          +   +  + + 
Sbjct: 1149 EKEIAKEQRLKSKTKGKASKLRKPKLKKKEKKKKKSSADKSKKASVVGNSKRVDSDEKRK 1208

Query: 576  LNNVRKPQASNPQQAKKPKPNNANTVAAKKQV-RTFDSEDEDVAKPMSYDEKRQLSLDIN 634
            L++    + SN   + +       T   K  V R    ++         DE     L   
Sbjct: 1209 LDDKPDNKKSNSSGSDQEDDEEQKTKPKKSSVKRLKSKKNNSSKSSEDNDEFSSDDLSKE 1268

Query: 635  KLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKRTYKKT 694
              P +   K V  +Q   P   +    E     +   P+              K+  KK 
Sbjct: 1269 GKPKNAP-KRVSAVQYSPPPPSKRPDGESNGGSKPSSPT--------------KKKVKKR 1313

Query: 695  PKPKDEKFAEKKHELEKRLQDVTSQIDSTNKKLKKPKPTTSAAGPTGASRLSASSSSSSD 754
             +       +KK   +K  +   S       K +  + + S +           S SSS+
Sbjct: 1314 LEGSLAALKKKKKSEKKTARKKKS-------KTRVKQASASQSSRLLRRPRKKKSDSSSE 1366

Query: 755  SD--SSGQSTSSSSSESSDSEG 774
             D  S    +     E  + + 
Sbjct: 1367 DDDDSEVDDSEDEDDEDDEDDD 1388

Length = 1388

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

 Score = 41.6 bits (98), Expect = 1e-04
 Identities = 20/64 (31%), Positives = 33/64 (51%)

Query: 157 PDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLE 216
           P+Y++V++ P+DL  I+++L+   Y    +   DF  +  N   Y KP       A  L 
Sbjct: 39  PEYYEVVSNPIDLLKIQQKLKTEEYDDVDDLTADFELLINNAKAYYKPDSPEHKDACKLW 98

Query: 217 QLFL 220
           +LFL
Sbjct: 99  ELFL 102

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|99948 cd05517, Bromo_polybromo_II, Bromodomain, polybromo repeat II

 Score = 41.7 bits (98), Expect = 1e-04
 Identities = 23/63 (36%), Positives = 39/63 (61%)

Query: 157 PDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLE 216
           PDY+ VI +P+DL TI +R+++ YY S ++  +D   M  N   +N+PG  V   A  ++
Sbjct: 37  PDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDLMVKNAKTFNEPGSQVYKDANAIK 96

Query: 217 QLF 219
           ++F
Sbjct: 97  KIF 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|218440 pfam05110, AF-4, AF-4 proto-oncoprotein

 Score = 41.8 bits (98), Expect = 0.002
 Identities = 31/105 (29%), Positives = 43/105 (40%), Gaps = 5/105 (4%)

Query: 680 QYVSSCLRKRTYKKTPKPKDEKFAEKKHELEKRLQDVTSQIDSTNKKLKKPKPTTSAAG- 738
           Q+VS   + +                   LE  L+  +S+     +  +KP    +    
Sbjct: 327 QHVSPGTQNQKQYDPSSKTSTNSQSGTSMLEDDLKLSSSEDSDEEQATEKPPSRNTPPSA 386

Query: 739 ----PTGASRLSASSSSSSDSDSSGQSTSSSSSESSDSEGEKGPH 779
               P  A+  S SSSSSS S+SS  S S S S SSDSE  + P 
Sbjct: 387 PSSNPEPAASSSGSSSSSSGSESSSGSDSESESSSSDSEENEPPR 431

This family consists of AF4 (Proto-oncogene AF4) and FMR2 (Fragile X E mental retardation syndrome) nuclear proteins. These proteins have been linked to human diseases such as acute lymphoblastic leukaemia and mental retardation. The family also contains a Drosophila AF4 protein homologue Lilliputian which contains an AT-hook domain. Lilliputian represents a novel pair-rule gene that acts in cytoskeleton regulation, segmentation and morphogenesis in Drosophila. Length = 1154

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	779
KOG1474|consensus	640		100.0
KOG1474|consensus	640		99.96
cd05497	107	Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily	99.96
cd05497	107	Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily	99.93
cd05495	108	Bromo_cbp_like Bromodomain, cbp_like subfamily. Cb	99.93
cd05496	119	Bromo_WDR9_II Bromodomain; WDR9 repeat II_like sub	99.93
cd05498	102	Bromo_Brdt_II_like Bromodomain, Brdt_like subfamil	99.93
cd05499	102	Bromo_BDF1_2_II Bromodomain. BDF1/BDF2 like subfam	99.93
cd05495	108	Bromo_cbp_like Bromodomain, cbp_like subfamily. Cb	99.93
cd05496	119	Bromo_WDR9_II Bromodomain; WDR9 repeat II_like sub	99.92
cd05505	97	Bromo_WSTF_like Bromodomain; Williams syndrome tra	99.92
cd05508	99	Bromo_RACK7 Bromodomain, RACK7_like subfamily. RAC	99.92
cd05504	115	Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_li	99.92
cd05505	97	Bromo_WSTF_like Bromodomain; Williams syndrome tra	99.92
cd05510	112	Bromo_SPT7_like Bromodomain; SPT7_like subfamily.	99.91
cd05507	104	Bromo_brd8_like Bromodomain, brd8_like subgroup. I	99.91
cd05503	97	Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like s	99.91
cd05501	102	Bromo_SP100C_like Bromodomain, SP100C_like subfami	99.91
cd05506	99	Bromo_plant1 Bromodomain, uncharacterized subfamil	99.91
cd05500	103	Bromo_BDF1_2_I Bromodomain. BDF1/BDF2 like subfami	99.91
cd05502	109	Bromo_tif1_like Bromodomain; tif1_like subfamily.	99.91
cd05510	112	Bromo_SPT7_like Bromodomain; SPT7_like subfamily.	99.91
cd05504	115	Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_li	99.91
cd05507	104	Bromo_brd8_like Bromodomain, brd8_like subgroup. I	99.91
cd05516	107	Bromo_SNF2L2 Bromodomain, SNF2L2-like subfamily, s	99.9
cd05500	103	Bromo_BDF1_2_I Bromodomain. BDF1/BDF2 like subfami	99.9
cd05502	109	Bromo_tif1_like Bromodomain; tif1_like subfamily.	99.9
cd05503	97	Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like s	99.9
cd05528	112	Bromo_AAA Bromodomain; sub-family co-occurring wit	99.9
cd05509	101	Bromo_gcn5_like Bromodomain; Gcn5_like subfamily.	99.9
cd05506	99	Bromo_plant1 Bromodomain, uncharacterized subfamil	99.9
cd05511	112	Bromo_TFIID Bromodomain, TFIID-like subfamily. Hum	99.9
cd05499	102	Bromo_BDF1_2_II Bromodomain. BDF1/BDF2 like subfam	99.9
cd05498	102	Bromo_Brdt_II_like Bromodomain, Brdt_like subfamil	99.9
cd05516	107	Bromo_SNF2L2 Bromodomain, SNF2L2-like subfamily, s	99.9
cd05509	101	Bromo_gcn5_like Bromodomain; Gcn5_like subfamily.	99.9
cd05513	98	Bromo_brd7_like Bromodomain, brd7_like subgroup. T	99.89
cd05508	99	Bromo_RACK7 Bromodomain, RACK7_like subfamily. RAC	99.89
cd05501	102	Bromo_SP100C_like Bromodomain, SP100C_like subfami	99.89
cd05512	98	Bromo_brd1_like Bromodomain; brd1_like subfamily.	99.89
cd05519	103	Bromo_SNF2 Bromodomain, SNF2-like subfamily, speci	99.89
cd05528	112	Bromo_AAA Bromodomain; sub-family co-occurring wit	99.88
cd05524	113	Bromo_polybromo_I Bromodomain, polybromo repeat I.	99.88
cd05513	98	Bromo_brd7_like Bromodomain, brd7_like subgroup. T	99.88
cd05520	103	Bromo_polybromo_III Bromodomain, polybromo repeat	99.88
cd05515	105	Bromo_polybromo_V Bromodomain, polybromo repeat V.	99.88
cd05518	103	Bromo_polybromo_IV Bromodomain, polybromo repeat I	99.87
cd05515	105	Bromo_polybromo_V Bromodomain, polybromo repeat V.	99.87
cd05517	103	Bromo_polybromo_II Bromodomain, polybromo repeat I	99.87
cd05512	98	Bromo_brd1_like Bromodomain; brd1_like subfamily.	99.87
cd05529	128	Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like	99.87
cd05511	112	Bromo_TFIID Bromodomain, TFIID-like subfamily. Hum	99.87
COG5076	371	Transcription factor involved in chromatin remodel	99.87
cd05519	103	Bromo_SNF2 Bromodomain, SNF2-like subfamily, speci	99.87
cd05525	106	Bromo_ASH1 Bromodomain; ASH1_like sub-family. ASH1	99.87
cd05525	106	Bromo_ASH1 Bromodomain; ASH1_like sub-family. ASH1	99.87
cd05517	103	Bromo_polybromo_II Bromodomain, polybromo repeat I	99.87
cd05529	128	Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like	99.86
cd05520	103	Bromo_polybromo_III Bromodomain, polybromo repeat	99.86
KOG1472|consensus	720		99.86
smart00297	107	BROMO bromo domain.	99.86
cd05524	113	Bromo_polybromo_I Bromodomain, polybromo repeat I.	99.86
cd05518	103	Bromo_polybromo_IV Bromodomain, polybromo repeat I	99.85
cd05522	104	Bromo_Rsc1_2_II Bromodomain, repeat II in Rsc1/2_l	99.85
smart00297	107	BROMO bromo domain.	99.84
cd05521	106	Bromo_Rsc1_2_I Bromodomain, repeat I in Rsc1/2_lik	99.83
cd05492	109	Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family	99.83
cd05522	104	Bromo_Rsc1_2_II Bromodomain, repeat II in Rsc1/2_l	99.82
cd05521	106	Bromo_Rsc1_2_I Bromodomain, repeat I in Rsc1/2_lik	99.82
cd04369	99	Bromodomain Bromodomain. Bromodomains are found in	99.8
PF00439	84	Bromodomain: Bromodomain; InterPro: IPR001487 Brom	99.8
cd04369	99	Bromodomain Bromodomain. Bromodomains are found in	99.8
PF00439	84	Bromodomain: Bromodomain; InterPro: IPR001487 Brom	99.79
KOG0008|consensus	1563		99.79
cd05492	109	Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family	99.78
cd05526	110	Bromo_polybromo_VI Bromodomain, polybromo repeat V	99.74
cd05526	110	Bromo_polybromo_VI Bromodomain, polybromo repeat V	99.73
COG5076	371	Transcription factor involved in chromatin remodel	99.69
KOG1245|consensus	1404		99.64
KOG1245|consensus	1404		99.61
KOG1828|consensus	418		99.45
KOG1472|consensus	720		99.44
cd05494	114	Bromodomain_1 Bromodomain; uncharacterized subfami	99.32
KOG0008|consensus	1563		99.26
cd05494	114	Bromodomain_1 Bromodomain; uncharacterized subfami	99.2
KOG1827|consensus	629		99.18
KOG1827|consensus	629		99.04
cd05491	119	Bromo_TBP7_like Bromodomain; TBP7_like subfamily,	98.96
cd05491	119	Bromo_TBP7_like Bromodomain; TBP7_like subfamily,	98.91
KOG0955|consensus	1051		98.9
KOG0955|consensus	1051		98.86
KOG0386|consensus	1157		98.75
KOG0386|consensus	1157		98.74
KOG1828|consensus	418		97.83
cd05493	131	Bromo_ALL-1 Bromodomain, ALL-1 like proteins. ALL-	95.43
cd05493	131	Bromo_ALL-1 Bromodomain, ALL-1 like proteins. ALL-	95.43
KOG0644|consensus	1113		92.74
KOG0644|consensus	1113		91.53
KOG3116|consensus	177		87.71
PHA03308	1463	transcriptional regulator ICP4; Provisional	83.21
KOG0732|consensus	1080		83.01

>KOG1474|consensus

Probab=100.00  E-value=2.2e-55  Score=514.13  Aligned_cols=528  Identities=36%  Similarity=0.499  Sum_probs=344.3

Q ss_pred             HHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCCHHHHHHH
Q psy14234        134 KAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQ  213 (779)
Q Consensus       134 ~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~s~i~~~A~  213 (779)
                      +.+++|.++|+|..||+.+.+.+|+||.+|.+|||++||+++|.+++|++..++++||..+|.||+.||..+.+|+.+++
T Consensus         2 ~~~~~~~~~~~f~~~v~~v~l~~~~~~~~~~~~~d~~~~~~~~e~n~~~~~~~~~~~f~~~~sn~~~~~~~~~~v~~~~~   81 (640)
T KOG1474|consen    2 KEARKHKLAWPFLEPVDAVALNLPAYYEIIKRPMDIGTIEKRVENNYYFSASECIADFKTKFSNCYLFNDSGDDVVRMKQ   81 (640)
T ss_pred             cccccccccccccCccchhhccchhhhcccCCCCCchhhhhhhccCccccHhhhhhhccccccchhcccCCccchhhccc
Confidence            35688999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCcccccCCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCC-C-CCCCCCCCCCCCCCCCCCCCCC
Q psy14234        214 NLEQLFLTKITGMPSEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLP-S-ATSTPKPRPPNPVLGSTATTTT  291 (779)
Q Consensus       214 ~Le~~f~~~~~~~~~~e~~~~~~~~k~~~~k~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~p~~~~~~~~~~~~~~~~~  291 (779)
                      .++.+|.+++..++.++.+.....++...........        ..+..+.... . ...++.....  +...+...++
T Consensus        82 ~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~--~~~~~~~~~~  151 (640)
T KOG1474|consen   82 SLEKLFPKKLRSMPSDEEDKSSVGPKASKIPLDKDSS--------SQVRKLSERLKQELQQVRPLTKA--VEFSPEPSVV  151 (640)
T ss_pred             cchhhcccccccccccccCCcccccccccCcCCCCch--------hhhhhhhhccccccccCCccccc--cccccccccc
Confidence            9999999999999998877655544443222111100        0000000000 0 0000000000  0000000000


Q ss_pred             CccccccCCCCCCCChhHHHhhhhccCCCCCCCCCCCC--CCCcchhh-----h-cccccccCCCCCCCCCCCcCCCCCC
Q psy14234        292 APKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLH--PTPVKSAK-----Q-LNTRRESGSITKKPQRISEEGGGGS  363 (779)
Q Consensus       292 ~~~s~~~~~~~~p~~~~~kk~~krkadtt~d~tPt~~~--~~~~~~~~-----~-~~~rres~R~~k~p~~~l~~~~~~~  363 (779)
                      ..      ......+.....++++.+|+.   ++....  ......+.     . ...+++++      ...  .. ...
T Consensus       152 ~~------~~~~~~~~~~~~~~~~~~d~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~--~~-~~~  213 (640)
T KOG1474|consen  152 SP------VSPASQPFKSKNGVKKVADTC---VKSYKSKSEREPSPGQKREGTVAPNSSRESG------DSA--AE-EEA  213 (640)
T ss_pred             CC------CCCcccccccccchhhhhccc---cccccccCcCCCCccccccccccCccccccc------ccc--cc-ccc
Confidence            00      000011222233444555544   222000  00000000     0 00000100      000  00 011


Q ss_pred             CCCCCCcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHH
Q psy14234        364 GLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVR  443 (779)
Q Consensus       364 ~~~~~~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~  443 (779)
                      ....+.+..++++|..||+.|+.++|   +|||+.|||++.|||||||+||+|||||+||++||.+|.|.++.+|++|||
T Consensus       214 ~~~~~~~~~~lk~C~~iLk~l~~~k~---awpF~~PVD~v~LgLpDY~~IIK~PMDLgTIK~kL~~~~Y~~~~eF~~DVR  290 (640)
T KOG1474|consen  214 KPKSKLTVELLKQCLSILKRLMKHKH---AWPFNEPVDVVKLGLPDYHDIIKHPMDLGTIKKKLEKGEYKSAEEFAADVR  290 (640)
T ss_pred             cccccccHHHHHHHHHHHHHHHhccC---CCCcCCCcCHHhcCCcchhhhcCCCccHHHHHhhhcccccCCHHHHHHHHH
Confidence            11227788999999999999999987   699999999999999999999999999999999999999999999999999


Q ss_pred             HhhhhhcccCCCCChHHHHHHHHHHHHHHHHhcCCCchhhhhhhc-----------------------c--------CCC
Q psy14234        444 LIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASRAA-----------------------A--------SVS  492 (779)
Q Consensus       444 Lmf~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~~~~~~~~~-----------------------s--------~~~  492 (779)
                      |||.|||+||++|++||.||..|+.+|+.+|+.++.+........                       +        +..
T Consensus       291 L~F~Ncm~YNp~g~dV~~Ma~~L~~~Fe~rw~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  370 (640)
T KOG1474|consen  291 LTFDNCMTYNPEGSDVYAMAKKLQEVFEERWASMPLEIEESESAVKEEAGMASSDQIPSNSVEGPRSSSFESRESASEPS  370 (640)
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhhccccccccccccccccccccccccccccccCcccccchhcccccCcc
Confidence            999999999999999999999999999999999876554322110                       0        001


Q ss_pred             CCCCchHHHHHHHHHHHHHHHHHHHHHHHhhhccCCchhhcccCCCCCCCCCCCCc---cccchhccccccCCCCCCCCC
Q psy14234        493 SDDDSEDERQNQLKYLQEQLKSLTDQIRLLVEDSTKPKKKKKKNRDQPKSKMPMGQ---NSAMMNDHVNKMNKAPAPLNN  569 (779)
Q Consensus       493 ~~~d~eee~~~~l~~lq~ql~~~~~~l~~l~~~~~~k~kkk~~~~~~~k~~~~~~~---~~~~~~~~~~~~~~~~~~~~~  569 (779)
                      .....++++...++.|+..+..++.+|..+.+.+..++....+.+...........   ..+......            
T Consensus       371 ~~~~~~~e~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~------------  438 (640)
T KOG1474|consen  371 SELMSEEERKKLLAELKLLLKDVPPQLIALLQRPVSKPPRKIEEELESDKRPLVTGKLIKEKNKKEKA------------  438 (640)
T ss_pred             cccccHHhhhhhHhhhhcchhhhhHHHHhhhhccccCccccccccccccccccchhhhhhhhhccccc------------
Confidence            22345666788889999999999999999988887776555433222111110000   000000000            


Q ss_pred             CCCCCCcCCCCCC-CCCCccccC--CCCCCCCcchhhccccccCCCcccccCCCCCHHHHHHHHHHccCCCCcchHHHHH
Q psy14234        570 GQKPKSLNNVRKP-QASNPQQAK--KPKPNNANTVAAKKQVRTFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVH  646 (779)
Q Consensus       570 ~~~~k~~~~~~~~-~~~~~~~~~--~~k~~~~~~~~~~~~~~~~~s~~e~~~~pmt~dEK~qLs~~In~LpgekL~~Vv~  646 (779)
                       ....+....... ........+  .|.+..              +.. ...+|    +++++.+.+|.+..+...++|+
T Consensus       439 -~~~~~r~~t~~~~~~l~~~~~~~~~p~~l~--------------~~~-~~~~~----~~~~~~l~~~~~~~~~~~~~vd  498 (640)
T KOG1474|consen  439 -ANENKRDMTAPEKAKLKELLQNLLPPNKLE--------------SIV-EILKP----EKRQLDLSQNDDEIELDLDSVD  498 (640)
T ss_pred             -cccccccccccccccchhhccCCCCCcccc--------------Ccc-cccch----hhhcccccccccchhhcccccc
Confidence             000000000000 000000000  000000              000 01133    8899999999999999999999


Q ss_pred             HHhhcCCCCCCCCCCcEEEeCCCCChHHHHHHHHHHHHHHhhhcCCC--------CCCChhHHHHHHHHHHHHHHhhhhc
Q psy14234        647 IIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKRTYKK--------TPKPKDEKFAEKKHELEKRLQDVTS  718 (779)
Q Consensus       647 IIq~~ep~l~~~n~dEIEiD~etL~~~TLreLe~yV~~cL~kk~~k~--------~~ks~~~~~~~k~~ele~~l~~~~g  718 (779)
                      |++.++|+   .+++++|++++++...|.+++..++..|++...+..        .....++...++..++..+......
T Consensus       499 ~~~~~~~~---~~~~~~e~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s  575 (640)
T KOG1474|consen  499 GSQSREPS---SNPLEIETIRETLKLSTERELELSKASSSRSLMRNRSGSLPERLSRSISEEKLREKSEKSSSEASSSSS  575 (640)
T ss_pred             cccccCCC---cccchhhhhhccccchhhHHHHHHHHhhhhhhccCcccccccchhhhhhHHhhhhhhHhhhhhhhhhhH
Confidence            99999998   678999999999999999999999999999887752        2233355567777777778888888


Q ss_pred             CCCcccccC
Q psy14234        719 QIDSTNKKL  727 (779)
Q Consensus       719 ~~~~~~~~~  727 (779)
                      +++...+..
T Consensus       576 ~~~~~~~~~  584 (640)
T KOG1474|consen  576 EDGENKAAS  584 (640)
T ss_pred             HHHhhcccc
Confidence            777655544

>KOG1474|consensus

Probab=99.96  E-value=5.3e-29  Score=292.19  Aligned_cols=112  Identities=46%  Similarity=0.774  Sum_probs=104.8

Q ss_pred             CChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhh
Q psy14234        120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCY  199 (779)
Q Consensus       120 ~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~  199 (779)
                      +.+.++...|..||..||+|+++|||..|||++.|++||||+||++||||+||++||.++.|+++.+|..||+|||.||+
T Consensus       218 ~~~~~~lk~C~~iLk~l~~~k~awpF~~PVD~v~LgLpDY~~IIK~PMDLgTIK~kL~~~~Y~~~~eF~~DVRL~F~Ncm  297 (640)
T KOG1474|consen  218 KLTVELLKQCLSILKRLMKHKHAWPFNEPVDVVKLGLPDYHDIIKHPMDLGTIKKKLEKGEYKSAEEFAADVRLTFDNCM  297 (640)
T ss_pred             cccHHHHHHHHHHHHHHHhccCCCCcCCCcCHHhcCCcchhhhcCCCccHHHHHhhhcccccCCHHHHHHHHHHHHHHHH
Confidence            34445555688999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHhCCCCccc
Q psy14234        200 VYNKPGEDVVLMAQNLEQLFLTKITGMPSEEV  231 (779)
Q Consensus       200 ~yN~~~s~i~~~A~~Le~~f~~~~~~~~~~e~  231 (779)
                      +||.+|++||.||..|+.+|..+|+.|+....
T Consensus       298 ~YNp~g~dV~~Ma~~L~~~Fe~rw~~~~~~~~  329 (640)
T KOG1474|consen  298 TYNPEGSDVYAMAKKLQEVFEERWASMPLEIE  329 (640)
T ss_pred             hcCCCCCHHHHHHHHHHHHHHHHHhhcccccc
Confidence            99999999999999999999999999887644

>cd05497 Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily, repeat I

Probab=99.96  E-value=8.1e-29  Score=227.07  Aligned_cols=107  Identities=75%  Similarity=1.322  Sum_probs=104.4

Q ss_pred             CChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhh
Q psy14234        120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCY  199 (779)
Q Consensus       120 ~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~  199 (779)
                      |.|+|++++++.||+.|++|+.+|||..|||+.+.++||||++|++||||+||++||+++.|.++.+|+.||+|||.||+
T Consensus         1 ~~~~q~~~~~~~il~~l~~~~~s~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~D~~li~~Na~   80 (107)
T cd05497           1 RHTNQLQYLLKVVLKALWKHKFAWPFQQPVDAVKLNLPDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCY   80 (107)
T ss_pred             CccHHHHHHHHHHHHHHHhCCcCccccCCCCcccccCCcHHHHHcCcccHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHH
Confidence            57999999999999999999999999999999888899999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHhCC
Q psy14234        200 VYNKPGEDVVLMAQNLEQLFLTKITGM  226 (779)
Q Consensus       200 ~yN~~~s~i~~~A~~Le~~f~~~~~~~  226 (779)
                      +||+++|.|+.+|..|++.|+++|.+|
T Consensus        81 ~yN~~~s~i~~~A~~l~~~f~~~l~~~  107 (107)
T cd05497          81 IYNKPGDDVVLMAQTLEKLFLQKLAQM  107 (107)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHcC
Confidence            999999999999999999999999876

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.

>cd05497 Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily, repeat I

Probab=99.93  E-value=2.5e-26  Score=210.63  Aligned_cols=104  Identities=43%  Similarity=0.816  Sum_probs=96.4

Q ss_pred             HHHHHHH-HHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh
Q psy14234        371 PLWYKYC-SEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNC  449 (779)
Q Consensus       371 ~~~~k~c-~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na  449 (779)
                      +.++++| ..||..|+.+.   .+|||..|||+...++||||+||++||||+||++||++|.|.++.+|.+||+|||.||
T Consensus         3 ~~q~~~~~~~il~~l~~~~---~s~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~D~~li~~Na   79 (107)
T cd05497           3 TNQLQYLLKVVLKALWKHK---FAWPFQQPVDAVKLNLPDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNC   79 (107)
T ss_pred             cHHHHHHHHHHHHHHHhCC---cCccccCCCCcccccCCcHHHHHcCcccHHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Confidence            4567777 47788888764   6999999999998889999999999999999999999999999999999999999999


Q ss_pred             cccCCCCChHHHHHHHHHHHHHHHHhcC
Q psy14234        450 YKYNPPDHNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       450 ~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      +.||+++|.|+.+|..|+++|++++++|
T Consensus        80 ~~yN~~~s~i~~~A~~l~~~f~~~l~~~  107 (107)
T cd05497          80 YIYNKPGDDVVLMAQTLEKLFLQKLAQM  107 (107)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHHcC
Confidence            9999999999999999999999999865

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.

>cd05495 Bromo_cbp_like Bromodomain, cbp_like subfamily

Probab=99.93  E-value=5.9e-26  Score=208.63  Aligned_cols=105  Identities=33%  Similarity=0.625  Sum_probs=98.9

Q ss_pred             HHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        371 PLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       371 ~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      .++.+.|..||..|+++.  ..+|||..|||+...++||||++|++||||+||++||++|.|.++.+|.+||+|||.||+
T Consensus         2 ~~l~~~~~~il~~l~~~~--~~s~~F~~PV~~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~D~~li~~Na~   79 (108)
T cd05495           2 EELRQALMPTLEKLYKQD--PESLPFRQPVDPKLLGIPDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAW   79 (108)
T ss_pred             HHHHHHHHHHHHHHHHcC--cccchhcCCCCccccCCCcHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            467899999999999873  259999999999988899999999999999999999999999999999999999999999


Q ss_pred             ccCCCCChHHHHHHHHHHHHHHHHhcC
Q psy14234        451 KYNPPDHNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       451 ~yN~~~s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      .||+++|.|+.+|..|+++|++.+..+
T Consensus        80 ~yN~~~s~i~~~a~~l~~~F~~~~~~~  106 (108)
T cd05495          80 LYNRKTSRVYKYCTKLAEVFEQEIDPV  106 (108)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999998764

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.

>cd05496 Bromo_WDR9_II Bromodomain; WDR9 repeat II_like subfamily

Probab=99.93  E-value=5.6e-26  Score=211.57  Aligned_cols=106  Identities=41%  Similarity=0.693  Sum_probs=99.4

Q ss_pred             HHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        371 PLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       371 ~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      ..|.+.|..||..|+.+.   .+|||+.|||+..  +||||+||++||||+||++||.+|.|.++.+|.+||+|||.||+
T Consensus         4 ~~w~~~c~~il~~l~~~~---~s~~F~~PVd~~~--~pdY~~iIk~PmDL~tIk~kL~~~~Y~~~~ef~~D~~lif~Na~   78 (119)
T cd05496           4 SDWKKQCKELVNLMWDCE---DSEPFRQPVDLLK--YPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSNSK   78 (119)
T ss_pred             HHHHHHHHHHHHHHHhCC---ccccccCCCChhh--cCcHHHHhCCcccHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHH
Confidence            479999999999999875   5899999999875  89999999999999999999999999999999999999999999


Q ss_pred             ccCCC-CChHHHHHHHHHHHHHHHHhcCCCch
Q psy14234        451 KYNPP-DHNVVTMARQLSAVFEDRFAKMPDES  481 (779)
Q Consensus       451 ~yN~~-~s~v~~~A~~Lq~~Fe~~~~~i~~~~  481 (779)
                      +||++ ++.||.+|..|+.+|+++|.+|....
T Consensus        79 ~yN~~~~s~i~~~a~~L~~~F~~~~~~l~~~~  110 (119)
T cd05496          79 SYTPNKRSRIYSMTLRLSALFEEHIKKIISDW  110 (119)
T ss_pred             HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99985 99999999999999999999986544

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.

>cd05498 Bromo_Brdt_II_like Bromodomain, Brdt_like subfamily, repeat II

Probab=99.93  E-value=4.8e-26  Score=207.56  Aligned_cols=102  Identities=68%  Similarity=1.201  Sum_probs=98.3

Q ss_pred             HHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhccc
Q psy14234        373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY  452 (779)
Q Consensus       373 ~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~y  452 (779)
                      ++++|..||..|+++++..++|||+.||++...++|+||++|++||||++|++||++|.|.++++|..||+|||.||+.|
T Consensus         1 ~~~~c~~il~~l~~~~~~~~a~~F~~pv~~~~~~~p~Y~~~I~~Pmdl~~I~~kl~~~~Y~s~~ef~~D~~li~~Na~~y   80 (102)
T cd05498           1 QLKFCSGILKELFSKKHKAYAWPFYKPVDPEALGLHDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKY   80 (102)
T ss_pred             ChhHHHHHHHHHHhCCCccccCcccCcCCccccCCCcHHHHccCCCcHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHH
Confidence            46899999999999988789999999999988789999999999999999999999999999999999999999999999


Q ss_pred             CCCCChHHHHHHHHHHHHHHHH
Q psy14234        453 NPPDHNVVTMARQLSAVFEDRF  474 (779)
Q Consensus       453 N~~~s~v~~~A~~Lq~~Fe~~~  474 (779)
                      |+++|.++.+|..|++.|+++|
T Consensus        81 n~~~s~i~~~a~~l~~~fe~~~  102 (102)
T cd05498          81 NPPDHPVHAMARKLQDVFEDRW  102 (102)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhC
Confidence            9999999999999999999987

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.

>cd05499 Bromo_BDF1_2_II Bromodomain

Probab=99.93  E-value=5.6e-26  Score=207.12  Aligned_cols=101  Identities=52%  Similarity=1.031  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccC
Q psy14234        374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYN  453 (779)
Q Consensus       374 ~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN  453 (779)
                      +++|..||..|++.+++.++|||+.|||+...++||||++|++||||++|++||+++.|.++.+|.+||+|||.||+.||
T Consensus         2 ~~~c~~Il~~l~~~~~~~~s~~F~~pvd~~~~~~pdY~~~I~~P~dL~~I~~kl~~~~Y~s~~ef~~D~~li~~N~~~yn   81 (102)
T cd05499           2 LKFCEEVLKELMKPKHSAYNWPFLDPVDPVALNIPNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFN   81 (102)
T ss_pred             hHHHHHHHHHHHcccCCcccchhcCCCCccccCCCCHHHHhcCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            68999999999998877899999999999977799999999999999999999999999999999999999999999999


Q ss_pred             CCCChHHHHHHHHHHHHHHHH
Q psy14234        454 PPDHNVVTMARQLSAVFEDRF  474 (779)
Q Consensus       454 ~~~s~v~~~A~~Lq~~Fe~~~  474 (779)
                      +++|.++.+|..|+++|+++|
T Consensus        82 ~~~s~~~~~a~~l~~~fe~~~  102 (102)
T cd05499          82 PEGTDVYMMGHQLEEVFNDKW  102 (102)
T ss_pred             CCCCHHHHHHHHHHHHHHHhC
Confidence            999999999999999999886

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.

>cd05495 Bromo_cbp_like Bromodomain, cbp_like subfamily

Probab=99.93  E-value=1.4e-25  Score=206.18  Aligned_cols=104  Identities=29%  Similarity=0.602  Sum_probs=99.7

Q ss_pred             HHHHHHHHHHHHHHHcC-CCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        123 NQLQYIVKNVMKAVWKH-PHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       123 ~~l~~~~~~il~~L~~~-~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      .+|+..|..|++.|+++ +.+|||..||++...++||||++|++||||+||++||++|.|.++.+|..||+|||.||+.|
T Consensus         2 ~~l~~~~~~il~~l~~~~~~s~~F~~PV~~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~D~~li~~Na~~y   81 (108)
T cd05495           2 EELRQALMPTLEKLYKQDPESLPFRQPVDPKLLGIPDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLY   81 (108)
T ss_pred             HHHHHHHHHHHHHHHHcCcccchhcCCCCccccCCCcHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            47888999999999999 99999999999988889999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHhCC
Q psy14234        202 NKPGEDVVLMAQNLEQLFLTKITGM  226 (779)
Q Consensus       202 N~~~s~i~~~A~~Le~~f~~~~~~~  226 (779)
                      |+++|.|+.+|..|++.|++++..+
T Consensus        82 N~~~s~i~~~a~~l~~~F~~~~~~~  106 (108)
T cd05495          82 NRKTSRVYKYCTKLAEVFEQEIDPV  106 (108)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999998753

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.

>cd05496 Bromo_WDR9_II Bromodomain; WDR9 repeat II_like subfamily

Probab=99.92  E-value=2.1e-25  Score=207.77  Aligned_cols=106  Identities=29%  Similarity=0.517  Sum_probs=100.6

Q ss_pred             hHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        122 TNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      ...|+..|..||+.|++|+.+|||+.||++.  .+||||.+|++||||+||++||.+|.|.++.+|..||+|||.||++|
T Consensus         3 ~~~w~~~c~~il~~l~~~~~s~~F~~PVd~~--~~pdY~~iIk~PmDL~tIk~kL~~~~Y~~~~ef~~D~~lif~Na~~y   80 (119)
T cd05496           3 ESDWKKQCKELVNLMWDCEDSEPFRQPVDLL--KYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSNSKSY   80 (119)
T ss_pred             HHHHHHHHHHHHHHHHhCCccccccCCCChh--hcCcHHHHhCCcccHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            4679999999999999999999999999976  79999999999999999999999999999999999999999999999


Q ss_pred             CCC-CCHHHHHHHHHHHHHHHHHhCCCCc
Q psy14234        202 NKP-GEDVVLMAQNLEQLFLTKITGMPSE  229 (779)
Q Consensus       202 N~~-~s~i~~~A~~Le~~f~~~~~~~~~~  229 (779)
                      |++ ++.||.+|..|+++|.+++..|...
T Consensus        81 N~~~~s~i~~~a~~L~~~F~~~~~~l~~~  109 (119)
T cd05496          81 TPNKRSRIYSMTLRLSALFEEHIKKIISD  109 (119)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            985 9999999999999999999987543

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=99.92  E-value=2.1e-25  Score=200.81  Aligned_cols=95  Identities=32%  Similarity=0.654  Sum_probs=90.3

Q ss_pred             HHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccC
Q psy14234        374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYN  453 (779)
Q Consensus       374 ~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN  453 (779)
                      ++.|.+||..|+.++   .+|||+.|||...  +||||+||++||||+||++||++|.|.++++|.+||+|||.||++||
T Consensus         2 ~~~c~~il~~l~~~~---~s~~F~~pv~~~~--~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN   76 (97)
T cd05505           2 LQKCEEILSKILKYR---FSWPFREPVTADE--AEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYY   76 (97)
T ss_pred             HHHHHHHHHHHHhCC---CcccccCCCChhh--cccHHHHcCCcCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            578999999999875   5899999999765  89999999999999999999999999999999999999999999999


Q ss_pred             CCCChHHHHHHHHHHHHHHH
Q psy14234        454 PPDHNVVTMARQLSAVFEDR  473 (779)
Q Consensus       454 ~~~s~v~~~A~~Lq~~Fe~~  473 (779)
                      ++++.|+.+|..|+++|..+
T Consensus        77 ~~~s~i~~~a~~le~~f~~~   96 (97)
T cd05505          77 ENGSYVLSCMRKTEQCCVNL   96 (97)
T ss_pred             CCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999875

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.

>cd05508 Bromo_RACK7 Bromodomain, RACK7_like subfamily

Probab=99.92  E-value=3.1e-25  Score=200.28  Aligned_cols=98  Identities=27%  Similarity=0.463  Sum_probs=94.0

Q ss_pred             HHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhC
Q psy14234        123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYN  202 (779)
Q Consensus       123 ~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN  202 (779)
                      +||+.+|..+++.|+ |+.+|||..||++.  ++||||.+|++||||+||++||++|.|.++++|..||+|||.||++||
T Consensus         2 ~~l~~~L~~~~~~~~-~~~s~~F~~PV~~~--~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~LI~~Na~~YN   78 (99)
T cd05508           2 DQLSKLLKFALERMK-QPGAEPFLKPVDLE--QFPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNAIIYN   78 (99)
T ss_pred             hHHHHHHHHHHHHHh-CcCcchhcCCCChh--hCCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            689999999999999 99999999999975  799999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHH
Q psy14234        203 KPGEDVVLMAQNLEQLFLTKI  223 (779)
Q Consensus       203 ~~~s~i~~~A~~Le~~f~~~~  223 (779)
                      +++|.++.+|..|.+.|...|
T Consensus        79 ~~~s~i~~~A~~l~~~~~~e~   99 (99)
T cd05508          79 GGDHKLTQAAKAIVKICEQEM   99 (99)
T ss_pred             CCCCHHHHHHHHHHHHHHhhC
Confidence            999999999999999997653

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.

>cd05504 Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_like subfamily

Probab=99.92  E-value=4.4e-25  Score=205.00  Aligned_cols=107  Identities=39%  Similarity=0.751  Sum_probs=100.6

Q ss_pred             CCCcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q psy14234        367 GSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIF  446 (779)
Q Consensus       367 ~~~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf  446 (779)
                      +.++..++..|..||..|+.+.   .+|+|+.|||...  +||||++|++||||+||++||++|.|.++.+|.+||+|||
T Consensus         7 ~~~~~~~~~~c~~il~~l~~~~---~s~~F~~pvd~~~--~pdY~~vI~~PmDL~tI~~kL~~~~Y~s~~~f~~Dv~LI~   81 (115)
T cd05504           7 RHHGPLNLSALEQLLVEIVKHK---DSWPFLRPVSKIE--VPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLVF   81 (115)
T ss_pred             CCCCHHHHHHHHHHHHHHHhCC---CchhhcCCCCccc--cccHHHHhcCcccHHHHHHHHccCCCCCHHHHHHHHHHHH
Confidence            3567889999999999999865   5899999999764  8999999999999999999999999999999999999999


Q ss_pred             hhhcccCCCCChHHHHHHHHHHHHHHHHhcCC
Q psy14234        447 SNCYKYNPPDHNVVTMARQLSAVFEDRFAKMP  478 (779)
Q Consensus       447 ~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~  478 (779)
                      .||+.||+++|.++.+|..|+++|++++.++.
T Consensus        82 ~Na~~yN~~~s~i~~~A~~l~~~f~~~~~~~~  113 (115)
T cd05504          82 SNCFLYNPEHTSVYKAGTRLQRFFIKRCRKLG  113 (115)
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999874

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.

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

Probab=99.92  E-value=5.7e-25  Score=198.03  Aligned_cols=95  Identities=32%  Similarity=0.512  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCC
Q psy14234        127 YIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGE  206 (779)
Q Consensus       127 ~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~s  206 (779)
                      ..|..||+.|++|+.+|||..||+..  ++||||++|++||||+||++||+.|.|.++.+|..||.|||.||++||+++|
T Consensus         3 ~~c~~il~~l~~~~~s~~F~~pv~~~--~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~~s   80 (97)
T cd05505           3 QKCEEILSKILKYRFSWPFREPVTAD--EAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYYENGS   80 (97)
T ss_pred             HHHHHHHHHHHhCCCcccccCCCChh--hcccHHHHcCCcCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Confidence            46889999999999999999999965  7999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH
Q psy14234        207 DVVLMAQNLEQLFLTKI  223 (779)
Q Consensus       207 ~i~~~A~~Le~~f~~~~  223 (779)
                      .|+.+|..|++.|.+++
T Consensus        81 ~i~~~a~~le~~f~~~~   97 (97)
T cd05505          81 YVLSCMRKTEQCCVNLL   97 (97)
T ss_pred             HHHHHHHHHHHHHHHhC
Confidence            99999999999998763

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.

>cd05510 Bromo_SPT7_like Bromodomain; SPT7_like subfamily

Probab=99.91  E-value=1.3e-24  Score=200.49  Aligned_cols=108  Identities=36%  Similarity=0.582  Sum_probs=99.4

Q ss_pred             CCcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhh
Q psy14234        368 SKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS  447 (779)
Q Consensus       368 ~~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~  447 (779)
                      ++.+++...|..||.+|+.+.  ..+|||+.||++..  +||||++|++||||+||++||++|.|.++++|.+||+|||.
T Consensus         3 ~~~~~~~~~~~~il~~l~~~~--~~s~~F~~pv~~~~--~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~Li~~   78 (112)
T cd05510           3 IGQEEFYESLDKVLNELKTYT--EHSTPFLTKVSKRE--APDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWK   78 (112)
T ss_pred             ccHHHHHHHHHHHHHHHHhcC--ccccchhcCCChhh--cCCHHHHhcCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Confidence            345788999999999999873  24899999999875  89999999999999999999999999999999999999999


Q ss_pred             hhcccCCCCC-hHHHHHHHHHHHHHHHHhcCCC
Q psy14234        448 NCYKYNPPDH-NVVTMARQLSAVFEDRFAKMPD  479 (779)
Q Consensus       448 Na~~yN~~~s-~v~~~A~~Lq~~Fe~~~~~i~~  479 (779)
                      ||+.||++++ .++.+|..|++.|+.++..||+
T Consensus        79 N~~~yN~~~s~~~~~~A~~l~~~~~~~~~~~~~  111 (112)
T cd05510          79 NCLLYNSDPSHPLRRHANFMKKKAEHLLKLIPD  111 (112)
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCC
Confidence            9999999865 6789999999999999999986

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.

>cd05507 Bromo_brd8_like Bromodomain, brd8_like subgroup

Probab=99.91  E-value=1.5e-24  Score=198.24  Aligned_cols=101  Identities=34%  Similarity=0.466  Sum_probs=96.8

Q ss_pred             HHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhC
Q psy14234        123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYN  202 (779)
Q Consensus       123 ~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN  202 (779)
                      ..|+..|..|++.|+.|+.++||..||+..  .+||||.+|++||||+||++||++|.|.++.+|..||+|||+||++||
T Consensus         2 ~~~~~~~~~il~~l~~~~~a~~F~~pV~~~--~~p~Y~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN   79 (104)
T cd05507           2 RAWKKAILLVYRTLASHRYASVFLKPVTED--IAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYN   79 (104)
T ss_pred             hHHHHHHHHHHHHHHcCCCCHhhcCCCCcc--ccCCHHHHhCCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            358889999999999999999999999974  799999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHhC
Q psy14234        203 KPGEDVVLMAQNLEQLFLTKITG  225 (779)
Q Consensus       203 ~~~s~i~~~A~~Le~~f~~~~~~  225 (779)
                      ++++.|+.+|..|++.|.+.+..
T Consensus        80 ~~~s~v~~~A~~l~~~~~~~~~~  102 (104)
T cd05507          80 SSDHDVYLMAVEMQREVMSQIQQ  102 (104)
T ss_pred             CCCCHHHHHHHHHHHHHHHHhhc
Confidence            99999999999999999998875

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.

>cd05503 Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like subfamily

Probab=99.91  E-value=8.1e-25  Score=197.52  Aligned_cols=96  Identities=41%  Similarity=0.782  Sum_probs=91.8

Q ss_pred             HHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccC
Q psy14234        374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYN  453 (779)
Q Consensus       374 ~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN  453 (779)
                      +.+|..||.+|+.+.   .+++|+.||+...  +|+||++|++||||+||++||++|.|.++++|.+||+|||.||+.||
T Consensus         2 ~~~c~~il~~l~~~~---~~~~F~~pv~~~~--~p~Y~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN   76 (97)
T cd05503           2 LALCETILDEMEAHE---DAWPFLEPVNTKL--VPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFN   76 (97)
T ss_pred             HHHHHHHHHHHHcCC---CchhhcCCCCccc--cCCHHHHhCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            678999999999874   5899999999875  89999999999999999999999999999999999999999999999


Q ss_pred             CCCChHHHHHHHHHHHHHHHH
Q psy14234        454 PPDHNVVTMARQLSAVFEDRF  474 (779)
Q Consensus       454 ~~~s~v~~~A~~Lq~~Fe~~~  474 (779)
                      ++++.++.+|..|+++|+.+|
T Consensus        77 ~~~s~i~~~a~~l~~~f~~~~   97 (97)
T cd05503          77 EDDSEVGRAGHNMRKFFEKRW   97 (97)
T ss_pred             CCCCHHHHHHHHHHHHHHHhC
Confidence            999999999999999999987

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.

>cd05501 Bromo_SP100C_like Bromodomain, SP100C_like subfamily

Probab=99.91  E-value=1.2e-24  Score=196.19  Aligned_cols=98  Identities=26%  Similarity=0.406  Sum_probs=89.7

Q ss_pred             HHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcc
Q psy14234        372 LWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYK  451 (779)
Q Consensus       372 ~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~  451 (779)
                      ..++.|..||.+|+++..   +++|..++  .  ++||||+||++||||+||++||.+|.|.++.+|.+||+|||.||++
T Consensus         2 ~~l~~ce~il~~l~~~~~---s~~f~~~p--~--~~pdY~~iIk~PMDL~tI~~kL~~~~Y~s~~ef~~D~~Lif~N~~~   74 (102)
T cd05501           2 EELLKCEFLLLKVYCMSK---SGFFISKP--Y--YIRDYCQGIKEPMWLNKVKERLNERVYHTVEGFVRDMRLIFHNHKL   74 (102)
T ss_pred             HHHHHHHHHHHHHHhCcc---cccccCCC--C--CCCchHHHcCCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH
Confidence            467889999999999875   67886532  2  5899999999999999999999999999999999999999999999


Q ss_pred             cCCCCChHHHHHHHHHHHHHHHHhcC
Q psy14234        452 YNPPDHNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       452 yN~~~s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      ||+++ .++.+|..|++.|+++|.++
T Consensus        75 yN~~~-~~~~~a~~L~~~Fek~~~~~   99 (102)
T cd05501          75 FYKDD-DFGQVGITLEKKFEKNFKEV   99 (102)
T ss_pred             HcCCC-HHHHHHHHHHHHHHHHHHHH
Confidence            99999 99999999999999999865

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.

>cd05506 Bromo_plant1 Bromodomain, uncharacterized subfamily specific to plants

Probab=99.91  E-value=1.5e-24  Score=196.61  Aligned_cols=98  Identities=53%  Similarity=0.990  Sum_probs=94.0

Q ss_pred             HHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccC
Q psy14234        374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYN  453 (779)
Q Consensus       374 ~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN  453 (779)
                      ++.|..||..|++++   .+|+|..||++...++|+||++|++||||+||++||+++.|.++.+|.+||+|||.||+.||
T Consensus         2 ~~~c~~il~~l~~~~---~~~~F~~pv~~~~~~~p~Y~~~I~~P~dl~tI~~kL~~~~Y~s~~ef~~D~~li~~Na~~yn   78 (99)
T cd05506           2 MKQCGTLLRKLMKHK---WGWVFNAPVDVVALGLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYN   78 (99)
T ss_pred             HHHHHHHHHHHHhCC---CCccccCCCCccccCCCCHHHHHcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            678999999999875   58999999999877899999999999999999999999999999999999999999999999


Q ss_pred             CCCChHHHHHHHHHHHHHHHH
Q psy14234        454 PPDHNVVTMARQLSAVFEDRF  474 (779)
Q Consensus       454 ~~~s~v~~~A~~Lq~~Fe~~~  474 (779)
                      +++|.++.+|..|++.|+++|
T Consensus        79 ~~~s~i~~~a~~l~~~fe~~w   99 (99)
T cd05506          79 PPGNDVHTMAKELLKIFETRW   99 (99)
T ss_pred             CCCCHHHHHHHHHHHHHHHhC
Confidence            999999999999999999987

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=99.91  E-value=2.6e-24  Score=196.43  Aligned_cols=100  Identities=40%  Similarity=0.677  Sum_probs=95.4

Q ss_pred             HHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        371 PLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       371 ~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      ..+.++|.+||..|+.+.   .+|||..|||+...++|+||++|++||||+||++||.+|.|.++.+|..||+|||.||+
T Consensus         3 ~~~~~~~~~ii~~l~~~~---~a~~F~~pv~~~~~~~p~Y~~~I~~P~dL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~   79 (103)
T cd05500           3 KHQHKFLLSSIRSLKRLK---DARPFLVPVDPVKLNIPHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCL   79 (103)
T ss_pred             HHHHHHHHHHHHHHHcCC---CChhhcCCCCcccccCCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            468899999999998765   58999999999888899999999999999999999999999999999999999999999


Q ss_pred             ccCCCCChHHHHHHHHHHHHHHH
Q psy14234        451 KYNPPDHNVVTMARQLSAVFEDR  473 (779)
Q Consensus       451 ~yN~~~s~v~~~A~~Lq~~Fe~~  473 (779)
                      .||+++|.++.+|..|++.|++.
T Consensus        80 ~yN~~~s~~~~~A~~l~~~fe~~  102 (103)
T cd05500          80 TFNGPEHPVSQMGKRLQAAFEKH  102 (103)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999975

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.

>cd05502 Bromo_tif1_like Bromodomain; tif1_like subfamily

Probab=99.91  E-value=3.3e-24  Score=197.73  Aligned_cols=102  Identities=36%  Similarity=0.783  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhc---CCCCCHHHHHHHHHHhhh
Q psy14234        371 PLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRN---RTYKTAKEFADDVRLIFS  447 (779)
Q Consensus       371 ~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~---~~Y~s~~eF~~Dv~Lmf~  447 (779)
                      +.++++|..||.+|+++   ..+|||+.||++   .+|+||++|++||||+||++||++   |.|.++++|.+||+|||.
T Consensus         3 ~~~~~~c~~il~~l~~~---~~s~~F~~pv~~---~~p~Y~~iI~~PmdL~tI~~kL~~~~~~~Y~s~~~f~~D~~li~~   76 (109)
T cd05502           3 PIDQRKCERLLLELYCH---ELSLPFHEPVSP---SVPNYYKIIKTPMDLSLIRKKLQPKSPQHYSSPEEFVADVRLMFK   76 (109)
T ss_pred             HHHHHHHHHHHHHHHhC---CCChhhcCCCCC---CCCCHHHHCCCCccHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHH
Confidence            56899999999999987   469999999998   389999999999999999999998   699999999999999999


Q ss_pred             hhcccCCCCChHHHHHHHHHHHHHHHHhcCC
Q psy14234        448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMP  478 (779)
Q Consensus       448 Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~  478 (779)
                      ||+.||+++|.++.+|..|+++|+++|.++.
T Consensus        77 Na~~yN~~~s~i~~~a~~l~~~f~~~~~~~~  107 (109)
T cd05502          77 NCYKFNEEDSEVAQAGKELELFFEEQLKEIL  107 (109)
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHC
Confidence            9999999999999999999999999998864

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.

>cd05510 Bromo_SPT7_like Bromodomain; SPT7_like subfamily

Probab=99.91  E-value=3.7e-24  Score=197.54  Aligned_cols=105  Identities=27%  Similarity=0.438  Sum_probs=98.7

Q ss_pred             hHHHHHHHHHHHHHHHcC-CCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhh
Q psy14234        122 TNQLQYIVKNVMKAVWKH-PHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYV  200 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~-~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~  200 (779)
                      ..+|...|..||+.|++| +.+++|+.||++.  ++||||.+|++||||+||++||+++.|.++.+|..||+|||+||+.
T Consensus         5 ~~~~~~~~~~il~~l~~~~~~s~~F~~pv~~~--~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~Li~~N~~~   82 (112)
T cd05510           5 QEEFYESLDKVLNELKTYTEHSTPFLTKVSKR--EAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWKNCLL   82 (112)
T ss_pred             HHHHHHHHHHHHHHHHhcCccccchhcCCChh--hcCCHHHHhcCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHH
Confidence            457888999999999999 8999999999976  7999999999999999999999999999999999999999999999


Q ss_pred             hCCCCC-HHHHHHHHHHHHHHHHHhCCCC
Q psy14234        201 YNKPGE-DVVLMAQNLEQLFLTKITGMPS  228 (779)
Q Consensus       201 yN~~~s-~i~~~A~~Le~~f~~~~~~~~~  228 (779)
                      ||++++ .++.+|..|++.|...+..||.
T Consensus        83 yN~~~s~~~~~~A~~l~~~~~~~~~~~~~  111 (112)
T cd05510          83 YNSDPSHPLRRHANFMKKKAEHLLKLIPD  111 (112)
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHHHHCCC
Confidence            999876 6789999999999999998863

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.

>cd05504 Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_like subfamily

Probab=99.91  E-value=3.6e-24  Score=198.90  Aligned_cols=103  Identities=31%  Similarity=0.635  Sum_probs=97.4

Q ss_pred             HHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhC
Q psy14234        123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYN  202 (779)
Q Consensus       123 ~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN  202 (779)
                      ......|..||+.|++++.+|+|..||+..  ++||||++|++||||+||++||++|.|.++.+|+.||+|||.||++||
T Consensus        11 ~~~~~~c~~il~~l~~~~~s~~F~~pvd~~--~~pdY~~vI~~PmDL~tI~~kL~~~~Y~s~~~f~~Dv~LI~~Na~~yN   88 (115)
T cd05504          11 PLNLSALEQLLVEIVKHKDSWPFLRPVSKI--EVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLVFSNCFLYN   88 (115)
T ss_pred             HHHHHHHHHHHHHHHhCCCchhhcCCCCcc--ccccHHHHhcCcccHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            344567899999999999999999999965  799999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHhCCC
Q psy14234        203 KPGEDVVLMAQNLEQLFLTKITGMP  227 (779)
Q Consensus       203 ~~~s~i~~~A~~Le~~f~~~~~~~~  227 (779)
                      +++|.|+.+|..|+++|.++++++.
T Consensus        89 ~~~s~i~~~A~~l~~~f~~~~~~~~  113 (115)
T cd05504          89 PEHTSVYKAGTRLQRFFIKRCRKLG  113 (115)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999999999864

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.

>cd05507 Bromo_brd8_like Bromodomain, brd8_like subgroup

Probab=99.91  E-value=3.2e-24  Score=196.00  Aligned_cols=100  Identities=31%  Similarity=0.529  Sum_probs=94.3

Q ss_pred             HHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcc
Q psy14234        372 LWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYK  451 (779)
Q Consensus       372 ~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~  451 (779)
                      .|.+.|..||..|+.++   .+|||..||+..  ++|+||++|++||||+||++||++|.|.++.+|.+||+|||.||+.
T Consensus         3 ~~~~~~~~il~~l~~~~---~a~~F~~pV~~~--~~p~Y~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~   77 (104)
T cd05507           3 AWKKAILLVYRTLASHR---YASVFLKPVTED--IAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIM   77 (104)
T ss_pred             HHHHHHHHHHHHHHcCC---CCHhhcCCCCcc--ccCCHHHHhCCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            48899999999998875   589999999985  4899999999999999999999999999999999999999999999


Q ss_pred             cCCCCChHHHHHHHHHHHHHHHHhc
Q psy14234        452 YNPPDHNVVTMARQLSAVFEDRFAK  476 (779)
Q Consensus       452 yN~~~s~v~~~A~~Lq~~Fe~~~~~  476 (779)
                      ||++++.|+.+|..|+..|..++..
T Consensus        78 yN~~~s~v~~~A~~l~~~~~~~~~~  102 (104)
T cd05507          78 YNSSDHDVYLMAVEMQREVMSQIQQ  102 (104)
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHhhc
Confidence            9999999999999999999988765

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.

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

Probab=99.90  E-value=3.4e-24  Score=196.74  Aligned_cols=103  Identities=22%  Similarity=0.432  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHHHHhccC---CCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh
Q psy14234        373 WYKYCSEIIAELFHKKH---QNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNC  449 (779)
Q Consensus       373 ~~k~c~~iL~~l~~~k~---~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na  449 (779)
                      +.+.|..||..|+.+++   +.++|||+.+|+...  +||||++|++||||+||++||.+|.|.++.+|..||+|||.||
T Consensus         2 l~~~~~~il~~v~~~~d~~g~~~s~~F~~~p~~~~--~pdYy~iI~~Pmdl~tI~~kl~~~~Y~s~~ef~~D~~li~~Na   79 (107)
T cd05516           2 LTKKMNKIVDVVIKYKDSDGRQLAEVFIQLPSRKE--LPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNA   79 (107)
T ss_pred             HHHHHHHHHHHHHhhhCcCCCEeeHHhhcCCCccc--CCCHHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHHH
Confidence            45778889998888764   457999999998764  8999999999999999999999999999999999999999999


Q ss_pred             cccCCCCChHHHHHHHHHHHHHHHHhcC
Q psy14234        450 YKYNPPDHNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       450 ~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      +.||++||.||.+|..|+++|++.+.++
T Consensus        80 ~~yN~~~s~i~~~a~~l~~~f~~~~~~~  107 (107)
T cd05516          80 QTFNLEGSLIYEDSIVLQSVFKSARQKI  107 (107)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHhcC
Confidence            9999999999999999999999998864

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.

>cd05500 Bromo_BDF1_2_I Bromodomain

Probab=99.90  E-value=8.7e-24  Score=192.96  Aligned_cols=102  Identities=34%  Similarity=0.627  Sum_probs=95.7

Q ss_pred             hHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        122 TNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      +......|..||+.|++++.+++|..||++.+.++||||.+|++||||++|++||.++.|.++.+|..||++||+||+.|
T Consensus         2 t~~~~~~~~~ii~~l~~~~~a~~F~~pv~~~~~~~p~Y~~~I~~P~dL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~y   81 (103)
T cd05500           2 TKHQHKFLLSSIRSLKRLKDARPFLVPVDPVKLNIPHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTF   81 (103)
T ss_pred             CHHHHHHHHHHHHHHHcCCCChhhcCCCCcccccCCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            34455677889999999999999999999988889999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHH
Q psy14234        202 NKPGEDVVLMAQNLEQLFLTKI  223 (779)
Q Consensus       202 N~~~s~i~~~A~~Le~~f~~~~  223 (779)
                      |+++|.++.+|..|++.|++.+
T Consensus        82 N~~~s~~~~~A~~l~~~fe~~~  103 (103)
T cd05500          82 NGPEHPVSQMGKRLQAAFEKHL  103 (103)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhC
Confidence            9999999999999999998753

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.

>cd05502 Bromo_tif1_like Bromodomain; tif1_like subfamily

Probab=99.90  E-value=1e-23  Score=194.44  Aligned_cols=104  Identities=32%  Similarity=0.591  Sum_probs=98.1

Q ss_pred             hHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhc---CCCCCHHHHHHHHHHHhhhh
Q psy14234        122 TNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLEN---NYYWSGKEAIQDFTTMFTNC  198 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~---~~Y~s~~ef~~D~~lmf~Na  198 (779)
                      +...+..|..||..|++|+.++||..||++   .+|+||.+|++||||+||++||+.   |.|.++.+|..||+|||+||
T Consensus         2 ~~~~~~~c~~il~~l~~~~~s~~F~~pv~~---~~p~Y~~iI~~PmdL~tI~~kL~~~~~~~Y~s~~~f~~D~~li~~Na   78 (109)
T cd05502           2 SPIDQRKCERLLLELYCHELSLPFHEPVSP---SVPNYYKIIKTPMDLSLIRKKLQPKSPQHYSSPEEFVADVRLMFKNC   78 (109)
T ss_pred             CHHHHHHHHHHHHHHHhCCCChhhcCCCCC---CCCCHHHHCCCCccHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHH
Confidence            345677899999999999999999999996   599999999999999999999998   69999999999999999999


Q ss_pred             hhhCCCCCHHHHHHHHHHHHHHHHHhCCCC
Q psy14234        199 YVYNKPGEDVVLMAQNLEQLFLTKITGMPS  228 (779)
Q Consensus       199 ~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~  228 (779)
                      +.||+++|.|+.+|..|++.|+++|.++.+
T Consensus        79 ~~yN~~~s~i~~~a~~l~~~f~~~~~~~~p  108 (109)
T cd05502          79 YKFNEEDSEVAQAGKELELFFEEQLKEILP  108 (109)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHHHHCc
Confidence            999999999999999999999999998754

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=99.90  E-value=6.7e-24  Score=191.56  Aligned_cols=95  Identities=31%  Similarity=0.627  Sum_probs=91.4

Q ss_pred             HHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCC
Q psy14234        127 YIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGE  206 (779)
Q Consensus       127 ~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~s  206 (779)
                      ..|..||+.|++|+.+++|+.||++.  .+|+||.+|++||||+||++||++|.|.++.+|..||+|||.||+.||++++
T Consensus         3 ~~c~~il~~l~~~~~~~~F~~pv~~~--~~p~Y~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~~s   80 (97)
T cd05503           3 ALCETILDEMEAHEDAWPFLEPVNTK--LVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFNEDDS   80 (97)
T ss_pred             HHHHHHHHHHHcCCCchhhcCCCCcc--ccCCHHHHhCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Confidence            36889999999999999999999976  6999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH
Q psy14234        207 DVVLMAQNLEQLFLTKI  223 (779)
Q Consensus       207 ~i~~~A~~Le~~f~~~~  223 (779)
                      .|+.+|..|++.|+.+|
T Consensus        81 ~i~~~a~~l~~~f~~~~   97 (97)
T cd05503          81 EVGRAGHNMRKFFEKRW   97 (97)
T ss_pred             HHHHHHHHHHHHHHHhC
Confidence            99999999999999875

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.

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

Probab=99.90  E-value=1.2e-23  Score=194.38  Aligned_cols=103  Identities=28%  Similarity=0.448  Sum_probs=98.4

Q ss_pred             HHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhC
Q psy14234        123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYN  202 (779)
Q Consensus       123 ~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN  202 (779)
                      .||+.+|..|++.|+.|+.+++|..||+..  .+||||++|++||||+||++||+++.|.++.+|..||+|||.||+.||
T Consensus         2 ~~lr~~L~~il~~l~~~~~~~~F~~pv~~~--~~pdY~~vI~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~yN   79 (112)
T cd05528           2 RELRLFLRDVLKRLASDKRFNAFTKPVDEE--EVPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYN   79 (112)
T ss_pred             hHHHHHHHHHHHHHHhCCCchhhcCCCCcc--ccCcHHHHHcCCCCHHHHHHHHcCCCcCCHHHHHHHHHHHHHHHHHHC
Confidence            478999999999999999999999999976  799999999999999999999999999999999999999999999999


Q ss_pred             CCC----CHHHHHHHHHHHHHHHHHhCCC
Q psy14234        203 KPG----EDVVLMAQNLEQLFLTKITGMP  227 (779)
Q Consensus       203 ~~~----s~i~~~A~~Le~~f~~~~~~~~  227 (779)
                      +++    +.|+.+|..|++.|.+++.++.
T Consensus        80 ~~~s~~~s~i~~~A~~L~~~~~~~~~~~~  108 (112)
T cd05528          80 PDRDPADKLIRSRACELRDEVHAMIEAEL  108 (112)
T ss_pred             CCCCccccHHHHHHHHHHHHHHHHHHhcC
Confidence            994    6999999999999999999864

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

>cd05509 Bromo_gcn5_like Bromodomain; Gcn5_like subfamily

Probab=99.90  E-value=1.1e-23  Score=191.65  Aligned_cols=100  Identities=40%  Similarity=0.743  Sum_probs=95.8

Q ss_pred             HHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCC
Q psy14234        125 LQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKP  204 (779)
Q Consensus       125 l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~  204 (779)
                      ++..|..|++.|.+|+.+++|..||++.  .+|+||.+|++||||.||++||+++.|.++.+|+.||+|||+||++||++
T Consensus         2 ~~~~~~~il~~l~~~~~a~~F~~pv~~~--~~p~Y~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yN~~   79 (101)
T cd05509           2 LYTQLKKVLDSLKNHKSAWPFLEPVDKE--EAPDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGP   79 (101)
T ss_pred             hHHHHHHHHHHHHhCCCchhhcCCCChh--hcCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCC
Confidence            5678899999999999999999999976  69999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHhCC
Q psy14234        205 GEDVVLMAQNLEQLFLTKITGM  226 (779)
Q Consensus       205 ~s~i~~~A~~Le~~f~~~~~~~  226 (779)
                      ++.++.+|..|++.|+++|+++
T Consensus        80 ~s~~~~~a~~l~~~f~~~~~~~  101 (101)
T cd05509          80 DTEYYKCANKLEKFFWKKLKEL  101 (101)
T ss_pred             CCHHHHHHHHHHHHHHHHHhhC
Confidence            9999999999999999999864

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.

>cd05506 Bromo_plant1 Bromodomain, uncharacterized subfamily specific to plants

Probab=99.90  E-value=9e-24  Score=191.58  Aligned_cols=98  Identities=41%  Similarity=0.705  Sum_probs=94.4

Q ss_pred             HHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCC
Q psy14234        126 QYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPG  205 (779)
Q Consensus       126 ~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~  205 (779)
                      +..|..||+.|++++.+++|..||++...++|+||.+|++||||.||++||+++.|.++.+|..||++||.||++||+++
T Consensus         2 ~~~c~~il~~l~~~~~~~~F~~pv~~~~~~~p~Y~~~I~~P~dl~tI~~kL~~~~Y~s~~ef~~D~~li~~Na~~yn~~~   81 (99)
T cd05506           2 MKQCGTLLRKLMKHKWGWVFNAPVDVVALGLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPPG   81 (99)
T ss_pred             HHHHHHHHHHHHhCCCCccccCCCCccccCCCCHHHHHcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCC
Confidence            56799999999999999999999998877899999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHH
Q psy14234        206 EDVVLMAQNLEQLFLTKI  223 (779)
Q Consensus       206 s~i~~~A~~Le~~f~~~~  223 (779)
                      |.++.+|..|++.|+++|
T Consensus        82 s~i~~~a~~l~~~fe~~w   99 (99)
T cd05506          82 NDVHTMAKELLKIFETRW   99 (99)
T ss_pred             CHHHHHHHHHHHHHHHhC
Confidence            999999999999999875

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.

>cd05511 Bromo_TFIID Bromodomain, TFIID-like subfamily

Probab=99.90  E-value=7.2e-24  Score=196.09  Aligned_cols=103  Identities=30%  Similarity=0.597  Sum_probs=98.7

Q ss_pred             HHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCC
Q psy14234        125 LQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKP  204 (779)
Q Consensus       125 l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~  204 (779)
                      |++++..|+..|++|+.+++|..||++.  .+|+||.+|++||||+||++||+++.|.++.+|..||+|||+||++||++
T Consensus         1 ~~~~l~~ii~~l~~~~~s~~F~~pv~~~--~~p~Y~~~I~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~yN~~   78 (112)
T cd05511           1 LSFILDEIVNELKNLPDSWPFHTPVNKK--KVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGP   78 (112)
T ss_pred             CHHHHHHHHHHHHhCCCchhhcCCCChh--hcccHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCC
Confidence            4688999999999999999999999976  69999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHhCCCCc
Q psy14234        205 GEDVVLMAQNLEQLFLTKITGMPSE  229 (779)
Q Consensus       205 ~s~i~~~A~~Le~~f~~~~~~~~~~  229 (779)
                      ++.++.+|..|++.|.+.+.+++.+
T Consensus        79 ~s~i~~~A~~l~~~~~~~~~~~~~~  103 (112)
T cd05511          79 DSVYTKKAKEMLELAEELLAEREEK  103 (112)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHhHHH
Confidence            9999999999999999999998654

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.

>cd05499 Bromo_BDF1_2_II Bromodomain

Probab=99.90  E-value=1.3e-23  Score=191.56  Aligned_cols=97  Identities=43%  Similarity=0.823  Sum_probs=91.9

Q ss_pred             HHHHHHHHHHHc---CCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCC
Q psy14234        127 YIVKNVMKAVWK---HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNK  203 (779)
Q Consensus       127 ~~~~~il~~L~~---~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~  203 (779)
                      ..|..||+.|++   +..++||+.||++...++||||.+|++||||++|++||+++.|.++.+|..||+|||.||+.||+
T Consensus         3 ~~c~~Il~~l~~~~~~~~s~~F~~pvd~~~~~~pdY~~~I~~P~dL~~I~~kl~~~~Y~s~~ef~~D~~li~~N~~~yn~   82 (102)
T cd05499           3 KFCEEVLKELMKPKHSAYNWPFLDPVDPVALNIPNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFNP   82 (102)
T ss_pred             HHHHHHHHHHHcccCCcccchhcCCCCccccCCCCHHHHhcCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHCC
Confidence            468889999998   46799999999988778999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHHH
Q psy14234        204 PGEDVVLMAQNLEQLFLTKI  223 (779)
Q Consensus       204 ~~s~i~~~A~~Le~~f~~~~  223 (779)
                      ++|.++.+|..|++.|+++|
T Consensus        83 ~~s~~~~~a~~l~~~fe~~~  102 (102)
T cd05499          83 EGTDVYMMGHQLEEVFNDKW  102 (102)
T ss_pred             CCCHHHHHHHHHHHHHHHhC
Confidence            99999999999999999875

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.

>cd05498 Bromo_Brdt_II_like Bromodomain, Brdt_like subfamily, repeat II

Probab=99.90  E-value=1.7e-23  Score=190.75  Aligned_cols=98  Identities=41%  Similarity=0.746  Sum_probs=93.5

Q ss_pred             HHHHHHHHHHHHcC---CCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhC
Q psy14234        126 QYIVKNVMKAVWKH---PHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYN  202 (779)
Q Consensus       126 ~~~~~~il~~L~~~---~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN  202 (779)
                      +..|..||+.|+.+   +.++||..||++...++||||.+|++||||++|++||++|.|.++.+|..||+|||.||+.||
T Consensus         2 ~~~c~~il~~l~~~~~~~~a~~F~~pv~~~~~~~p~Y~~~I~~Pmdl~~I~~kl~~~~Y~s~~ef~~D~~li~~Na~~yn   81 (102)
T cd05498           2 LKFCSGILKELFSKKHKAYAWPFYKPVDPEALGLHDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYN   81 (102)
T ss_pred             hhHHHHHHHHHHhCCCccccCcccCcCCccccCCCcHHHHccCCCcHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            35688999999999   889999999998877899999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHH
Q psy14234        203 KPGEDVVLMAQNLEQLFLTKI  223 (779)
Q Consensus       203 ~~~s~i~~~A~~Le~~f~~~~  223 (779)
                      +++|.|+.+|..|++.|+++|
T Consensus        82 ~~~s~i~~~a~~l~~~fe~~~  102 (102)
T cd05498          82 PPDHPVHAMARKLQDVFEDRW  102 (102)
T ss_pred             CCCCHHHHHHHHHHHHHHHhC
Confidence            999999999999999999875

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.

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

Probab=99.90  E-value=1.8e-23  Score=191.88  Aligned_cols=100  Identities=23%  Similarity=0.329  Sum_probs=92.3

Q ss_pred             HHHHHHHHHHHHHcCCC------CCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhh
Q psy14234        125 LQYIVKNVMKAVWKHPH------AWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNC  198 (779)
Q Consensus       125 l~~~~~~il~~L~~~~~------s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na  198 (779)
                      |+..|..||+.|.++.+      ++||..||+..  ++||||.+|++||||+||++||++|.|.++.+|..||.|||.||
T Consensus         2 l~~~~~~il~~v~~~~d~~g~~~s~~F~~~p~~~--~~pdYy~iI~~Pmdl~tI~~kl~~~~Y~s~~ef~~D~~li~~Na   79 (107)
T cd05516           2 LTKKMNKIVDVVIKYKDSDGRQLAEVFIQLPSRK--ELPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNA   79 (107)
T ss_pred             HHHHHHHHHHHHHhhhCcCCCEeeHHhhcCCCcc--cCCCHHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHHH
Confidence            55667778888887766      89999999865  89999999999999999999999999999999999999999999


Q ss_pred             hhhCCCCCHHHHHHHHHHHHHHHHHhCC
Q psy14234        199 YVYNKPGEDVVLMAQNLEQLFLTKITGM  226 (779)
Q Consensus       199 ~~yN~~~s~i~~~A~~Le~~f~~~~~~~  226 (779)
                      ++||+++|.||.+|..|+++|.+.+..+
T Consensus        80 ~~yN~~~s~i~~~a~~l~~~f~~~~~~~  107 (107)
T cd05516          80 QTFNLEGSLIYEDSIVLQSVFKSARQKI  107 (107)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHhcC
Confidence            9999999999999999999999998764

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.

>cd05509 Bromo_gcn5_like Bromodomain; Gcn5_like subfamily

Probab=99.90  E-value=2e-23  Score=190.01  Aligned_cols=100  Identities=41%  Similarity=0.760  Sum_probs=94.3

Q ss_pred             HHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhccc
Q psy14234        373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY  452 (779)
Q Consensus       373 ~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~y  452 (779)
                      ...+|..||..|+.++   .+|+|..||++..  +|+||++|++||||+||++||++|.|.++.+|..||+|||.||+.|
T Consensus         2 ~~~~~~~il~~l~~~~---~a~~F~~pv~~~~--~p~Y~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na~~y   76 (101)
T cd05509           2 LYTQLKKVLDSLKNHK---SAWPFLEPVDKEE--APDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLY   76 (101)
T ss_pred             hHHHHHHHHHHHHhCC---CchhhcCCCChhh--cCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            3678999999998875   5899999999886  8999999999999999999999999999999999999999999999


Q ss_pred             CCCCChHHHHHHHHHHHHHHHHhcC
Q psy14234        453 NPPDHNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       453 N~~~s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      |++++.++.+|..|+++|+++++++
T Consensus        77 N~~~s~~~~~a~~l~~~f~~~~~~~  101 (101)
T cd05509          77 NGPDTEYYKCANKLEKFFWKKLKEL  101 (101)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhhC
Confidence            9999999999999999999998764

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.

>cd05513 Bromo_brd7_like Bromodomain, brd7_like subgroup

Probab=99.89  E-value=1.9e-23  Score=188.37  Aligned_cols=95  Identities=29%  Similarity=0.411  Sum_probs=89.7

Q ss_pred             HHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCC
Q psy14234        125 LQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKP  204 (779)
Q Consensus       125 l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~  204 (779)
                      |+.+|..||+.|++++.+++|..||+..  .+||||++|++||||+||++||+++.|.++.+|+.||+|||.||++||++
T Consensus         2 l~~~l~~il~~l~~~~~~~~F~~PV~~~--~~pdY~~vIk~PmDL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yN~~   79 (98)
T cd05513           2 LQKALEQLIRQLQRKDPHGFFAFPVTDF--IAPGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYNKP   79 (98)
T ss_pred             HHHHHHHHHHHHHcCCccccccCcCCcc--ccccHHHHHcCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHCCC
Confidence            6788999999999999999999999965  79999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHH
Q psy14234        205 GEDVVLMAQNLEQLFLT  221 (779)
Q Consensus       205 ~s~i~~~A~~Le~~f~~  221 (779)
                      ++.+|.+|..|...-..
T Consensus        80 ~s~~~~~A~~L~~~~~~   96 (98)
T cd05513          80 DTIYYKAAKKLLHSGMK   96 (98)
T ss_pred             CCHHHHHHHHHHHhhhh
Confidence            99999999999776543

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.

>cd05508 Bromo_RACK7 Bromodomain, RACK7_like subfamily

Probab=99.89  E-value=2e-23  Score=188.44  Aligned_cols=94  Identities=31%  Similarity=0.529  Sum_probs=83.8

Q ss_pred             HHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccC
Q psy14234        374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYN  453 (779)
Q Consensus       374 ~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN  453 (779)
                      ...+..+|..|. +   ..+|||..||++..  +||||++|++||||+||++||++|.|.++++|.+||+|||.||+.||
T Consensus         5 ~~~L~~~~~~~~-~---~~s~~F~~PV~~~~--~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~LI~~Na~~YN   78 (99)
T cd05508           5 SKLLKFALERMK-Q---PGAEPFLKPVDLEQ--FPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNAIIYN   78 (99)
T ss_pred             HHHHHHHHHHHh-C---cCcchhcCCCChhh--CCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            344455555554 3   46999999999864  89999999999999999999999999999999999999999999999


Q ss_pred             CCCChHHHHHHHHHHHHHHH
Q psy14234        454 PPDHNVVTMARQLSAVFEDR  473 (779)
Q Consensus       454 ~~~s~v~~~A~~Lq~~Fe~~  473 (779)
                      +++|.++.+|..|.++|+..
T Consensus        79 ~~~s~i~~~A~~l~~~~~~e   98 (99)
T cd05508          79 GGDHKLTQAAKAIVKICEQE   98 (99)
T ss_pred             CCCCHHHHHHHHHHHHHHhh
Confidence            99999999999999999864

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.

>cd05501 Bromo_SP100C_like Bromodomain, SP100C_like subfamily

Probab=99.89  E-value=5.3e-23  Score=185.57  Aligned_cols=95  Identities=21%  Similarity=0.293  Sum_probs=89.2

Q ss_pred             HHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCCH
Q psy14234        128 IVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGED  207 (779)
Q Consensus       128 ~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~s~  207 (779)
                      .|..||..|+.++.+++|..++  .  ++||||.+|++||||+||++||.+|.|.++.+|++||+|||.||++||+++ .
T Consensus         6 ~ce~il~~l~~~~~s~~f~~~p--~--~~pdY~~iIk~PMDL~tI~~kL~~~~Y~s~~ef~~D~~Lif~N~~~yN~~~-~   80 (102)
T cd05501           6 KCEFLLLKVYCMSKSGFFISKP--Y--YIRDYCQGIKEPMWLNKVKERLNERVYHTVEGFVRDMRLIFHNHKLFYKDD-D   80 (102)
T ss_pred             HHHHHHHHHHhCcccccccCCC--C--CCCchHHHcCCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHcCCC-H
Confidence            4999999999999999997633  2  799999999999999999999999999999999999999999999999999 9


Q ss_pred             HHHHHHHHHHHHHHHHhCCC
Q psy14234        208 VVLMAQNLEQLFLTKITGMP  227 (779)
Q Consensus       208 i~~~A~~Le~~f~~~~~~~~  227 (779)
                      ++.+|..|++.|+++|.++.
T Consensus        81 ~~~~a~~L~~~Fek~~~~~f  100 (102)
T cd05501          81 FGQVGITLEKKFEKNFKEVF  100 (102)
T ss_pred             HHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999998753

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=99.89  E-value=4.4e-23  Score=186.23  Aligned_cols=93  Identities=30%  Similarity=0.486  Sum_probs=88.5

Q ss_pred             HHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCC
Q psy14234        125 LQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKP  204 (779)
Q Consensus       125 l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~  204 (779)
                      |..+|..||+.|+.|+.+++|..||+..  ++||||++|++||||+||++||+++.|.++.+|..||+|||.||+.||++
T Consensus         2 ~~~~l~~il~~l~~~~~~~~F~~pVd~~--~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~   79 (98)
T cd05512           2 LEVLLRKTLDQLQEKDTAEIFSEPVDLS--EVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNAK   79 (98)
T ss_pred             HHHHHHHHHHHHHhCCCchhhcCCCCcc--ccCCHHHHhcCCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHCCC
Confidence            5678899999999999999999999975  79999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q psy14234        205 GEDVVLMAQNLEQLF  219 (779)
Q Consensus       205 ~s~i~~~A~~Le~~f  219 (779)
                      ++.+|.+|..|++.-
T Consensus        80 ~s~~~~~A~~l~~~~   94 (98)
T cd05512          80 DTIFYRAAVRLRDQG   94 (98)
T ss_pred             CCHHHHHHHHHHHhh
Confidence            999999999998753

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.

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

Probab=99.89  E-value=3.3e-23  Score=189.14  Aligned_cols=99  Identities=24%  Similarity=0.466  Sum_probs=91.8

Q ss_pred             HHHHHHHHHHHHhcc---CCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        374 YKYCSEIIAELFHKK---HQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       374 ~k~c~~iL~~l~~~k---~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      .+.|..|+..|+..+   ++.++|+|+.|++...  +|+||++|++||||++|++||++|.|.++.+|..||+|||.||+
T Consensus         2 ~~~~~~i~~~v~~~~~~~~~~~~~~F~~~p~~~~--~pdYy~iIk~Pmdl~~I~~kl~~~~Y~s~~~f~~D~~li~~Na~   79 (103)
T cd05519           2 KAAMLEIYDAVLNCEDETGRKLSELFLEKPSKKL--YPDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANAR   79 (103)
T ss_pred             HHHHHHHHHHHHHhcCcCCCchhHHhcCCCCCCC--CcCHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHH
Confidence            467899999998765   4578999999988765  89999999999999999999999999999999999999999999


Q ss_pred             ccCCCCChHHHHHHHHHHHHHHHH
Q psy14234        451 KYNPPDHNVVTMARQLSAVFEDRF  474 (779)
Q Consensus       451 ~yN~~~s~v~~~A~~Lq~~Fe~~~  474 (779)
                      .||++++.++.+|..|++.|+.+|
T Consensus        80 ~yn~~~s~i~~~A~~l~~~f~~~~  103 (103)
T cd05519          80 TYNQEGSIVYEDAVEMEKAFKKKY  103 (103)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHhC
Confidence            999999999999999999999864

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.

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

Probab=99.88  E-value=1e-22  Score=188.15  Aligned_cols=103  Identities=32%  Similarity=0.510  Sum_probs=94.3

Q ss_pred             HHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcc
Q psy14234        372 LWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYK  451 (779)
Q Consensus       372 ~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~  451 (779)
                      ++...|..||..|+.++   .+|+|..|||...  +||||++|++||||+||++||+++.|.++.+|.+||+|||.||+.
T Consensus         3 ~lr~~L~~il~~l~~~~---~~~~F~~pv~~~~--~pdY~~vI~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~   77 (112)
T cd05528           3 ELRLFLRDVLKRLASDK---RFNAFTKPVDEEE--VPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALE   77 (112)
T ss_pred             HHHHHHHHHHHHHHhCC---CchhhcCCCCccc--cCcHHHHHcCCCCHHHHHHHHcCCCcCCHHHHHHHHHHHHHHHHH
Confidence            34556789999998875   4899999999876  899999999999999999999999999999999999999999999


Q ss_pred             cCCCC----ChHHHHHHHHHHHHHHHHhcCCC
Q psy14234        452 YNPPD----HNVVTMARQLSAVFEDRFAKMPD  479 (779)
Q Consensus       452 yN~~~----s~v~~~A~~Lq~~Fe~~~~~i~~  479 (779)
                      ||+++    +.|+.+|..|+++|..++..+.+
T Consensus        78 yN~~~s~~~s~i~~~A~~L~~~~~~~~~~~~~  109 (112)
T cd05528          78 YNPDRDPADKLIRSRACELRDEVHAMIEAELD  109 (112)
T ss_pred             HCCCCCccccHHHHHHHHHHHHHHHHHHhcCC
Confidence            99994    79999999999999999988654

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

>cd05524 Bromo_polybromo_I Bromodomain, polybromo repeat I

Probab=99.88  E-value=8.5e-23  Score=189.16  Aligned_cols=104  Identities=18%  Similarity=0.344  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHHHHhccC---CCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh
Q psy14234        373 WYKYCSEIIAELFHKKH---QNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNC  449 (779)
Q Consensus       373 ~~k~c~~iL~~l~~~k~---~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na  449 (779)
                      -++.|..||..|+..++   +.++.+|..+++...  +||||++|++||||+||++||.++.|.++++|.+||+|||.||
T Consensus         3 ~~~~c~~il~~l~~~~~~~g~~l~~~F~~~p~~~~--~PdYy~iI~~Pmdl~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na   80 (113)
T cd05524           3 PIAVCQELYDTIRNYKSEDGRILCESFIRVPKRRN--EPEYYEVVSNPIDLLKIQQKLKTEEYDDVDDLTADFELLINNA   80 (113)
T ss_pred             HHHHHHHHHHHHHhhcccCCCchhHHHhcCCCccc--CCCHHHHhCCccCHHHHHHHhCcCCCCCHHHHHHHHHHHHHHH
Confidence            36789999999997554   346788999877554  8999999999999999999999999999999999999999999


Q ss_pred             cccCCCCChHHHHHHHHHHHHHHHHhcCC
Q psy14234        450 YKYNPPDHNVVTMARQLSAVFEDRFAKMP  478 (779)
Q Consensus       450 ~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~  478 (779)
                      +.||+++|.+|.+|..|+++|++.+.++.
T Consensus        81 ~~yN~~~s~~~~~A~~L~~~f~~~~~~~~  109 (113)
T cd05524          81 KAYYKPDSPEHKDACKLWELFLSARNEVL  109 (113)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999999999999998875

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.

>cd05513 Bromo_brd7_like Bromodomain, brd7_like subgroup

Probab=99.88  E-value=1.2e-22  Score=183.22  Aligned_cols=92  Identities=34%  Similarity=0.480  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhccc
Q psy14234        373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY  452 (779)
Q Consensus       373 ~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~y  452 (779)
                      ..+.|..||..|+.+.   .+++|..||+...  +||||++|++||||+||++||+++.|.++.+|.+||+|||.||++|
T Consensus         2 l~~~l~~il~~l~~~~---~~~~F~~PV~~~~--~pdY~~vIk~PmDL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~y   76 (98)
T cd05513           2 LQKALEQLIRQLQRKD---PHGFFAFPVTDFI--APGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKY   76 (98)
T ss_pred             HHHHHHHHHHHHHcCC---ccccccCcCCccc--cccHHHHHcCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            3567899999998765   4889999999765  8999999999999999999999999999999999999999999999


Q ss_pred             CCCCChHHHHHHHHHHH
Q psy14234        453 NPPDHNVVTMARQLSAV  469 (779)
Q Consensus       453 N~~~s~v~~~A~~Lq~~  469 (779)
                      |+++|.+|.+|..|...
T Consensus        77 N~~~s~~~~~A~~L~~~   93 (98)
T cd05513          77 NKPDTIYYKAAKKLLHS   93 (98)
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999999764

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.

>cd05520 Bromo_polybromo_III Bromodomain, polybromo repeat III

Probab=99.88  E-value=1.1e-22  Score=185.37  Aligned_cols=92  Identities=29%  Similarity=0.528  Sum_probs=82.9

Q ss_pred             HHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccCCCCChH
Q psy14234        380 IIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNV  459 (779)
Q Consensus       380 iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN~~~s~v  459 (779)
                      .|.......++.+++||+.+++...  +||||++|++||||+||++||++|.|.++.+|..||+|||.||++||+++|.+
T Consensus        11 ~i~~~~~~~g~~~s~pF~~~p~~~~--~PdYy~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~~yN~~~s~i   88 (103)
T cd05520          11 TIRNARNNQGQLLAEPFLKLPSKRK--YPDYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYNVPNSRI   88 (103)
T ss_pred             HHHhhcCCCCCCccHhhhcCCCccc--CCCHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence            3333333445679999999998765  89999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q psy14234        460 VTMARQLSAVFEDR  473 (779)
Q Consensus       460 ~~~A~~Lq~~Fe~~  473 (779)
                      |.+|..|+++|+++
T Consensus        89 ~~~A~~L~~~f~~~  102 (103)
T cd05520          89 YKDAEKLQKLMQAK  102 (103)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999999874

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.

>cd05515 Bromo_polybromo_V Bromodomain, polybromo repeat V

Probab=99.88  E-value=1.7e-22  Score=184.96  Aligned_cols=100  Identities=25%  Similarity=0.439  Sum_probs=90.8

Q ss_pred             HHHHHHHHHHHHhcc---CCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        374 YKYCSEIIAELFHKK---HQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       374 ~k~c~~iL~~l~~~k---~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      .+.|.+||..|...+   ++.++++|+.||+...  +||||++|++||||+||++||.++.|.++++|..||+|||.||+
T Consensus         2 ~~~~~~~~~~i~~~~d~~~~~~a~~F~~~p~~~~--~pdYy~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~l~~~Na~   79 (105)
T cd05515           2 QQKLWELYNAVKNYTDGRGRRLSLIFMRLPSKSE--YPDYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNAC   79 (105)
T ss_pred             hHHHHHHHHHHHHhhCcCCCcccHHhccCCCccc--CCcHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHH
Confidence            356777777777654   4679999999988765  89999999999999999999999999999999999999999999


Q ss_pred             ccCCCCChHHHHHHHHHHHHHHHHh
Q psy14234        451 KYNPPDHNVVTMARQLSAVFEDRFA  475 (779)
Q Consensus       451 ~yN~~~s~v~~~A~~Lq~~Fe~~~~  475 (779)
                      .||+++|.||.+|..|+++|.+...
T Consensus        80 ~yN~~~s~i~~~A~~L~~~~~~~~~  104 (105)
T cd05515          80 KYNEPDSQIYKDALTLQKVLLETKR  104 (105)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHc
Confidence            9999999999999999999998754

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=99.87  E-value=1.7e-22  Score=183.91  Aligned_cols=97  Identities=27%  Similarity=0.462  Sum_probs=87.5

Q ss_pred             HHHHHHHHHHHhcc---CCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcc
Q psy14234        375 KYCSEIIAELFHKK---HQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYK  451 (779)
Q Consensus       375 k~c~~iL~~l~~~k---~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~  451 (779)
                      +++..|+..|+..+   ++..+.+|+.+|+...  +||||++|++||||+||++||.++.|.++++|.+||+|||.||+.
T Consensus         3 ~~~~~l~~~v~~~~d~~gr~~~~~F~~~p~~~~--~pdYy~iIk~Pmdl~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~   80 (103)
T cd05518           3 KRMLALFLYVLEYREGSGRRLCDLFMEKPSKKD--YPDYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNARH   80 (103)
T ss_pred             HHHHHHHHHHHHhhccCCCcccHHHhcCCCccc--CccHHHHcCCCcCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHH
Confidence            45666777766644   5678899999998766  899999999999999999999999999999999999999999999


Q ss_pred             cCCCCChHHHHHHHHHHHHHHH
Q psy14234        452 YNPPDHNVVTMARQLSAVFEDR  473 (779)
Q Consensus       452 yN~~~s~v~~~A~~Lq~~Fe~~  473 (779)
                      ||+++|.||.+|..|+++|+++
T Consensus        81 yN~~~s~i~~~A~~le~~~~~~  102 (103)
T cd05518          81 YNEEGSQVYEDANILEKVLKEK  102 (103)
T ss_pred             HCCCCCHHHHHHHHHHHHHHhc
Confidence            9999999999999999999864

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.

>cd05515 Bromo_polybromo_V Bromodomain, polybromo repeat V

Probab=99.87  E-value=2.7e-22  Score=183.61  Aligned_cols=96  Identities=27%  Similarity=0.436  Sum_probs=86.6

Q ss_pred             HHHHHHHHHHHc------CCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhh
Q psy14234        127 YIVKNVMKAVWK------HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYV  200 (779)
Q Consensus       127 ~~~~~il~~L~~------~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~  200 (779)
                      ..|..|++.|..      ++.+++|..||+..  ++||||.+|++||||+||++||.++.|.++.+|+.||.|||.||++
T Consensus         3 ~~~~~~~~~i~~~~d~~~~~~a~~F~~~p~~~--~~pdYy~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~l~~~Na~~   80 (105)
T cd05515           3 QKLWELYNAVKNYTDGRGRRLSLIFMRLPSKS--EYPDYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNACK   80 (105)
T ss_pred             HHHHHHHHHHHHhhCcCCCcccHHhccCCCcc--cCCcHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHH
Confidence            345666666655      46689999999865  8999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHh
Q psy14234        201 YNKPGEDVVLMAQNLEQLFLTKIT  224 (779)
Q Consensus       201 yN~~~s~i~~~A~~Le~~f~~~~~  224 (779)
                      ||+++|.||.+|..|+++|.++..
T Consensus        81 yN~~~s~i~~~A~~L~~~~~~~~~  104 (105)
T cd05515          81 YNEPDSQIYKDALTLQKVLLETKR  104 (105)
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHc
Confidence            999999999999999999998764

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=99.87  E-value=2.2e-22  Score=183.39  Aligned_cols=97  Identities=20%  Similarity=0.399  Sum_probs=89.1

Q ss_pred             HHHHHHHHHHHHhcc---CCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        374 YKYCSEIIAELFHKK---HQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       374 ~k~c~~iL~~l~~~k---~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      .+.|.+||..|+..+   ++.++++|..+++...  +||||++|++||||+||++||+++.|.++.+|..||+|||.||+
T Consensus         2 ~~~~~~l~~~i~~~~d~~gr~~~~~F~~lp~~~~--~pdYy~vI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~   79 (103)
T cd05517           2 KQILEQLLEAVMTATDPSGRLISELFQKLPSKVL--YPDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDLMVKNAK   79 (103)
T ss_pred             hHHHHHHHHHHHHhhCcCCCChhHHHhcCCCCCC--CCCHHHHcCCCcCHHHHHHHHCcCCCCCHHHHHHHHHHHHHHHH
Confidence            357888888887754   4578999999988766  89999999999999999999999999999999999999999999


Q ss_pred             ccCCCCChHHHHHHHHHHHHHH
Q psy14234        451 KYNPPDHNVVTMARQLSAVFED  472 (779)
Q Consensus       451 ~yN~~~s~v~~~A~~Lq~~Fe~  472 (779)
                      .||+++|.|+.+|..|+++|+.
T Consensus        80 ~yN~~~s~i~~~A~~l~~~f~~  101 (103)
T cd05517          80 TFNEPGSQVYKDANAIKKIFTA  101 (103)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999985

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.

>cd05512 Bromo_brd1_like Bromodomain; brd1_like subfamily

Probab=99.87  E-value=2.8e-22  Score=180.98  Aligned_cols=91  Identities=35%  Similarity=0.572  Sum_probs=84.3

Q ss_pred             HHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccC
Q psy14234        374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYN  453 (779)
Q Consensus       374 ~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN  453 (779)
                      ...|..+|..|+.+.   .+|+|+.|||...  +||||++|++||||+||++||+++.|.++++|..||+|||.||+.||
T Consensus         3 ~~~l~~il~~l~~~~---~~~~F~~pVd~~~--~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN   77 (98)
T cd05512           3 EVLLRKTLDQLQEKD---TAEIFSEPVDLSE--VPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYN   77 (98)
T ss_pred             HHHHHHHHHHHHhCC---CchhhcCCCCccc--cCCHHHHhcCCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            346778899998764   5899999999875  89999999999999999999999999999999999999999999999


Q ss_pred             CCCChHHHHHHHHHHH
Q psy14234        454 PPDHNVVTMARQLSAV  469 (779)
Q Consensus       454 ~~~s~v~~~A~~Lq~~  469 (779)
                      ++++.+|++|..|++.
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.

>cd05529 Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like subfamily

Probab=99.87  E-value=4.6e-22  Score=188.29  Aligned_cols=105  Identities=28%  Similarity=0.411  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        371 PLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       371 ~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      ..+...|..+|..|+....+..+++|..||+... ++|+||++|++||||+||++||.+|.|.++++|..||+|||.||+
T Consensus        23 ~~~~~~i~~~l~~l~~~~~~~~~~~F~~pv~~~~-~~p~Y~~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~Li~~Na~  101 (128)
T cd05529          23 DEERERLISGLDKLLLSLQLEIAEYFEYPVDLRA-WYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLILSNAE  101 (128)
T ss_pred             HHHHHHHHHHHHHHHhcccCcccccccCCCCccc-cCCcHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            4678889999999986556678999999999884 589999999999999999999999999999999999999999999


Q ss_pred             ccCCCCChHHHHHHHHHHHHHHHHhc
Q psy14234        451 KYNPPDHNVVTMARQLSAVFEDRFAK  476 (779)
Q Consensus       451 ~yN~~~s~v~~~A~~Lq~~Fe~~~~~  476 (779)
                      +||++++.++.+|..|+++|..++..
T Consensus       102 ~yN~~~s~i~~~A~~l~~~~~~~l~~  127 (128)
T cd05529         102 TFNEPNSEIAKKAKRLSDWLLRILSS  127 (128)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHhcc
Confidence            99999999999999999999988754

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.

>cd05511 Bromo_TFIID Bromodomain, TFIID-like subfamily

Probab=99.87  E-value=2.6e-22  Score=185.65  Aligned_cols=100  Identities=38%  Similarity=0.681  Sum_probs=92.8

Q ss_pred             HHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccCCCC
Q psy14234        377 CSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPD  456 (779)
Q Consensus       377 c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN~~~  456 (779)
                      ...||.+|+.+.   .++||+.|||+..  +|+||++|++||||+||++||.++.|.++++|.+||+|||.||+.||+++
T Consensus         5 l~~ii~~l~~~~---~s~~F~~pv~~~~--~p~Y~~~I~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~yN~~~   79 (112)
T cd05511           5 LDEIVNELKNLP---DSWPFHTPVNKKK--VPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPD   79 (112)
T ss_pred             HHHHHHHHHhCC---CchhhcCCCChhh--cccHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCC
Confidence            457888887764   5899999999886  89999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHHHHHhcCCCch
Q psy14234        457 HNVVTMARQLSAVFEDRFAKMPDES  481 (779)
Q Consensus       457 s~v~~~A~~Lq~~Fe~~~~~i~~~~  481 (779)
                      |.++.+|..|..+|+..+..+++..
T Consensus        80 s~i~~~A~~l~~~~~~~~~~~~~~~  104 (112)
T cd05511          80 SVYTKKAKEMLELAEELLAEREEKL  104 (112)
T ss_pred             CHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            9999999999999999999986554

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.

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

Probab=99.87  E-value=3e-22  Score=222.79  Aligned_cols=201  Identities=34%  Similarity=0.544  Sum_probs=162.3

Q ss_pred             CCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCCHHHHHHHHHHHH
Q psy14234        139 HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQL  218 (779)
Q Consensus       139 ~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~s~i~~~A~~Le~~  218 (779)
                      ....++|+.+|+  +.++|+||.||+.||||.+|+++|..+.|.++++|+.||+|||.||.+||++++.||.+|+.|++.
T Consensus       163 ~~~s~~F~~~p~--k~~~PdYy~iIk~Pm~L~~i~kkl~~~~Y~s~eef~~D~~lM~~N~~~yN~~~s~v~~~a~~l~~~  240 (371)
T COG5076         163 RFLSSIFLGLPS--KREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKY  240 (371)
T ss_pred             cccccccccCCc--cccCCChheeecchhhHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhccCCCcchhhhhHHHHHH
Confidence            345677777776  669999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhCCCCcccccCCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccccc
Q psy14234        219 FLTKITGMPSEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATSTPKPRPPNPVLGSTATTTTAPKVNHL  298 (779)
Q Consensus       219 f~~~~~~~~~~e~~~~~~~~k~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~s~~~  298 (779)
                      |...+..++........                                                               
T Consensus       241 ~~~~i~~~~~~~~~~~~---------------------------------------------------------------  257 (371)
T COG5076         241 FLKLIEEIPEEMLELSI---------------------------------------------------------------  257 (371)
T ss_pred             HHHHHHhccccchhhcc---------------------------------------------------------------
Confidence            99999987654321000                                                               


Q ss_pred             CCCCCCCChhHHHhhhhccCCCCCCCCCCCCCCCcchhhhcccccccCCCCCCCCCCCcCCCCCCCCCCCCcHHHHHHHH
Q psy14234        299 NSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQRISEEGGGGSGLGGSKTPLWYKYCS  378 (779)
Q Consensus       299 ~~~~~p~~~~~kk~~krkadtt~d~tPt~~~~~~~~~~~~~~~rres~R~~k~p~~~l~~~~~~~~~~~~~~~~~~k~c~  378 (779)
                                               .+...            .+ +. |                             -.
T Consensus       258 -------------------------~~~~~------------~~-~~-~-----------------------------~~  269 (371)
T COG5076         258 -------------------------KPGRE------------ER-EE-R-----------------------------ES  269 (371)
T ss_pred             -------------------------Ccccc------------cc-cc-c-----------------------------hh
Confidence                                     00000            00 00 0                             00


Q ss_pred             HHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccCCCCCh
Q psy14234        379 EIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHN  458 (779)
Q Consensus       379 ~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN~~~s~  458 (779)
                      .++...   ..+..+|+|+.++....  .|+|+++|..+|++.+.+-++..+.|....+|..|..++|.||..||.....
T Consensus       270 ~~i~~~---~~~~~~~~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  344 (371)
T COG5076         270 VLITNS---QAHVGAWPFLRPVSDEE--VPDYYKDIRDPMDLSTKELKLRNNYYRPEETFVRDAKLFFDNCVMYNGEVTD  344 (371)
T ss_pred             hccccc---ccccccccccccCCccc--ccchhhhhhcccccccchhhhhcccCCCccccccccchhhhcccccchhhhh
Confidence            000000   11234799999988776  7999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhcC
Q psy14234        459 VVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       459 v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      ++.-+..+..+|...+..+
T Consensus       345 ~~~~~~~~~~~~~~~~~~~  363 (371)
T COG5076         345 YYKNANVLEDFVIKKTRLI  363 (371)
T ss_pred             hhhhccchhhhHhhhhhhh
Confidence            9999999998888776654

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

Probab=99.87  E-value=3.2e-22  Score=182.66  Aligned_cols=96  Identities=32%  Similarity=0.441  Sum_probs=88.7

Q ss_pred             HHHHHHHHHHHHHc------CCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhh
Q psy14234        125 LQYIVKNVMKAVWK------HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNC  198 (779)
Q Consensus       125 l~~~~~~il~~L~~------~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na  198 (779)
                      |+..|..|++.|+.      +..+++|+.||+..  .+||||.+|++||||++|++||+.|.|.++.+|..||+|||.||
T Consensus         1 ~~~~~~~i~~~v~~~~~~~~~~~~~~F~~~p~~~--~~pdYy~iIk~Pmdl~~I~~kl~~~~Y~s~~~f~~D~~li~~Na   78 (103)
T cd05519           1 LKAAMLEIYDAVLNCEDETGRKLSELFLEKPSKK--LYPDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANA   78 (103)
T ss_pred             CHHHHHHHHHHHHHhcCcCCCchhHHhcCCCCCC--CCcCHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHH
Confidence            46678888888884      45699999999865  79999999999999999999999999999999999999999999


Q ss_pred             hhhCCCCCHHHHHHHHHHHHHHHH
Q psy14234        199 YVYNKPGEDVVLMAQNLEQLFLTK  222 (779)
Q Consensus       199 ~~yN~~~s~i~~~A~~Le~~f~~~  222 (779)
                      ++||++++.++.+|..|++.|..+
T Consensus        79 ~~yn~~~s~i~~~A~~l~~~f~~~  102 (103)
T cd05519          79 RTYNQEGSIVYEDAVEMEKAFKKK  102 (103)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHh
Confidence            999999999999999999999875

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.

>cd05525 Bromo_ASH1 Bromodomain; ASH1_like sub-family

Probab=99.87  E-value=3.9e-22  Score=182.46  Aligned_cols=98  Identities=27%  Similarity=0.392  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHHHhcc---CCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        374 YKYCSEIIAELFHKK---HQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       374 ~k~c~~iL~~l~~~k---~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      ...|..||..|+..+   ++.++|||+++++...  +||||++|++||||+||++||.+|.|.++++|..||.|||.||+
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~   81 (106)
T cd05525           4 AQVLKEICDAIITYKDSNGQSLAIPFINLPSKKK--NPDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRNAE   81 (106)
T ss_pred             HHHHHHHHHHHHHhhccCCCcccHhhccCCCccc--CCchhhhCCCCcCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHH
Confidence            345667777776644   4578999999988765  89999999999999999999999999999999999999999999


Q ss_pred             ccCCCCChHHHHHHHHHHHHHHH
Q psy14234        451 KYNPPDHNVVTMARQLSAVFEDR  473 (779)
Q Consensus       451 ~yN~~~s~v~~~A~~Lq~~Fe~~  473 (779)
                      .||+++|.++.+|..|+++|+..
T Consensus        82 ~yn~~~S~i~~~A~~L~~~f~~~  104 (106)
T cd05525          82 KYYGRKSPIGRDVCRLRKAYYQA  104 (106)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHc
Confidence            99999999999999999999864

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.

>cd05525 Bromo_ASH1 Bromodomain; ASH1_like sub-family

Probab=99.87  E-value=4.8e-22  Score=181.88  Aligned_cols=100  Identities=23%  Similarity=0.293  Sum_probs=87.2

Q ss_pred             ChHHHHHHHHHHHHHHHc--CCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhh
Q psy14234        121 NTNQLQYIVKNVMKAVWK--HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNC  198 (779)
Q Consensus       121 ~~~~l~~~~~~il~~L~~--~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na  198 (779)
                      ++..|..+|..|+.....  +..++||+.+++.  ..+||||.+|++||||++|++||++|.|.++.+|..||.|||.||
T Consensus         3 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           3 LAQVLKEICDAIITYKDSNGQSLAIPFINLPSK--KKNPDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRNA   80 (106)
T ss_pred             HHHHHHHHHHHHHHhhccCCCcccHhhccCCCc--ccCCchhhhCCCCcCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Confidence            445555566555554443  4568999999885  489999999999999999999999999999999999999999999


Q ss_pred             hhhCCCCCHHHHHHHHHHHHHHHH
Q psy14234        199 YVYNKPGEDVVLMAQNLEQLFLTK  222 (779)
Q Consensus       199 ~~yN~~~s~i~~~A~~Le~~f~~~  222 (779)
                      ++||+++|.|+.+|..|+++|++.
T Consensus        81 ~~yn~~~S~i~~~A~~L~~~f~~~  104 (106)
T cd05525          81 EKYYGRKSPIGRDVCRLRKAYYQA  104 (106)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHc
Confidence            999999999999999999999864

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=99.87  E-value=3.9e-22  Score=181.68  Aligned_cols=94  Identities=29%  Similarity=0.512  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHHHcCCC------CCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhh
Q psy14234        126 QYIVKNVMKAVWKHPH------AWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCY  199 (779)
Q Consensus       126 ~~~~~~il~~L~~~~~------s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~  199 (779)
                      |..|..|++.|+++..      +++|..+++..  .+||||.+|++||||+||++||+.+.|.++.+|..||+|||.||+
T Consensus         2 ~~~~~~l~~~i~~~~d~~gr~~~~~F~~lp~~~--~~pdYy~vI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~   79 (103)
T cd05517           2 KQILEQLLEAVMTATDPSGRLISELFQKLPSKV--LYPDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDLMVKNAK   79 (103)
T ss_pred             hHHHHHHHHHHHHhhCcCCCChhHHHhcCCCCC--CCCCHHHHcCCCcCHHHHHHHHCcCCCCCHHHHHHHHHHHHHHHH
Confidence            5677888888887544      79999998854  899999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHH
Q psy14234        200 VYNKPGEDVVLMAQNLEQLFLT  221 (779)
Q Consensus       200 ~yN~~~s~i~~~A~~Le~~f~~  221 (779)
                      .||+++|.|+.+|..|+++|..
T Consensus        80 ~yN~~~s~i~~~A~~l~~~f~~  101 (103)
T cd05517          80 TFNEPGSQVYKDANAIKKIFTA  101 (103)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999975

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.

>cd05529 Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like subfamily

Probab=99.86  E-value=1.8e-21  Score=184.26  Aligned_cols=105  Identities=27%  Similarity=0.400  Sum_probs=97.4

Q ss_pred             CChHHHHHHHHHHHHHHH---cCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhh
Q psy14234        120 RNTNQLQYIVKNVMKAVW---KHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFT  196 (779)
Q Consensus       120 ~~~~~l~~~~~~il~~L~---~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~  196 (779)
                      .....++..|..+++.|.   .++.+++|..||+... .+|+||.+|++||||+||++||++++|.++.+|+.||+|||.
T Consensus        20 ~~~~~~~~~i~~~l~~l~~~~~~~~~~~F~~pv~~~~-~~p~Y~~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~Li~~   98 (128)
T cd05529          20 HIRDEERERLISGLDKLLLSLQLEIAEYFEYPVDLRA-WYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLILS   98 (128)
T ss_pred             CCCHHHHHHHHHHHHHHHhcccCcccccccCCCCccc-cCCcHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Confidence            456677777788888888   9999999999999754 699999999999999999999999999999999999999999


Q ss_pred             hhhhhCCCCCHHHHHHHHHHHHHHHHHhC
Q psy14234        197 NCYVYNKPGEDVVLMAQNLEQLFLTKITG  225 (779)
Q Consensus       197 Na~~yN~~~s~i~~~A~~Le~~f~~~~~~  225 (779)
                      ||++||+++|.++.+|..|++.|...+..
T Consensus        99 Na~~yN~~~s~i~~~A~~l~~~~~~~l~~  127 (128)
T cd05529          99 NAETFNEPNSEIAKKAKRLSDWLLRILSS  127 (128)
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHhcc
Confidence            99999999999999999999999998865

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.

>cd05520 Bromo_polybromo_III Bromodomain, polybromo repeat III

Probab=99.86  E-value=8.2e-22  Score=179.61  Aligned_cols=96  Identities=28%  Similarity=0.386  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHHHHc--CCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhC
Q psy14234        125 LQYIVKNVMKAVWK--HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYN  202 (779)
Q Consensus       125 l~~~~~~il~~L~~--~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN  202 (779)
                      |..++..|+.....  +..++||..+|+..  .+||||.+|++||||+||++||+++.|.++.+|+.||+|||.||++||
T Consensus         5 ~~~l~~~i~~~~~~~g~~~s~pF~~~p~~~--~~PdYy~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~~yN   82 (103)
T cd05520           5 LWQLYDTIRNARNNQGQLLAEPFLKLPSKR--KYPDYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYN   82 (103)
T ss_pred             HHHHHHHHHhhcCCCCCCccHhhhcCCCcc--cCCCHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            34444444433322  35799999999854  899999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHH
Q psy14234        203 KPGEDVVLMAQNLEQLFLTK  222 (779)
Q Consensus       203 ~~~s~i~~~A~~Le~~f~~~  222 (779)
                      +++|.++.+|..|+++|.++
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.

>KOG1472|consensus

Probab=99.86  E-value=1.9e-21  Score=223.79  Aligned_cols=101  Identities=31%  Similarity=0.639  Sum_probs=91.0

Q ss_pred             HHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhccc
Q psy14234        373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY  452 (779)
Q Consensus       373 ~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~y  452 (779)
                      .......||..|..+   ..+|||++||+...  +||||++|++||||.||+.+|.++.|..+..|..||.+||.||+.|
T Consensus       607 ~~s~~~~il~~l~~h---~~awPf~~Pv~~~e--~pdyy~~I~~pmDl~tM~~~l~~~~y~~~~~f~ad~~~vf~ncr~y  681 (720)
T KOG1472|consen  607 LFSAIQNILDQLQNH---GDAWPFLKPVNKKE--VPDYYDVIKHPMDLRTMQNRLKDNQYTEVELFMADVVRVFANCRMY  681 (720)
T ss_pred             hhHHHHhHHhhhhcC---CccCCccCcccccc--CCcHHHHhcccccHHHHhhhccccchhhHHHHHHHHHHHHhhhhcc
Confidence            344567777777655   45999999999887  8999999999999999999999999999999999999999999999


Q ss_pred             CCCCChHHHHHHHHHHHHHHHHhcCC
Q psy14234        453 NPPDHNVVTMARQLSAVFEDRFAKMP  478 (779)
Q Consensus       453 N~~~s~v~~~A~~Lq~~Fe~~~~~i~  478 (779)
                      |+.++..|+.|..|..+|...+....
T Consensus       682 n~~~~~y~k~~~~le~~~~~k~~~~i  707 (720)
T KOG1472|consen  682 NGSDTQYYKCAQALEKFFLFKLNELI  707 (720)
T ss_pred             CCccchheecccchhhhhcchhhhhh
Confidence            99999999999999999998877653

>smart00297 BROMO bromo domain

Probab=99.86  E-value=1.8e-21  Score=178.53  Aligned_cols=103  Identities=41%  Similarity=0.660  Sum_probs=98.4

Q ss_pred             ChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhh
Q psy14234        121 NTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYV  200 (779)
Q Consensus       121 ~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~  200 (779)
                      ....++.+|..|++.+.+|+.+++|..||+..  .+|+||.+|++||||.+|++||++|.|.++.+|..||.+||.||+.
T Consensus         4 ~~~~~~~~~~~i~~~~~~~~~~~~F~~~~~~~--~~p~Y~~~i~~P~dl~~I~~kl~~~~Y~s~~ef~~D~~li~~Na~~   81 (107)
T smart00297        4 LQKKLQSLLKAVLDKLDSHRLSWPFLKPVDRK--EAPDYYDIIKKPMDLSTIKKKLENGKYSSVEEFVADVQLMFSNAKT   81 (107)
T ss_pred             hHHHHHHHHHHHHHHHHhCccchhhccCCChh--hccCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            45678999999999999999999999999976  6999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHhC
Q psy14234        201 YNKPGEDVVLMAQNLEQLFLTKITG  225 (779)
Q Consensus       201 yN~~~s~i~~~A~~Le~~f~~~~~~  225 (779)
                      ||++++.++.+|..|++.|.+.|.+
T Consensus        82 ~n~~~s~~~~~a~~l~~~f~~~~~~  106 (107)
T smart00297       82 YNGPDSEVYKDAKKLEKFFEKKLRE  106 (107)
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999875

>cd05524 Bromo_polybromo_I Bromodomain, polybromo repeat I

Probab=99.86  E-value=1.2e-21  Score=181.57  Aligned_cols=102  Identities=23%  Similarity=0.310  Sum_probs=92.3

Q ss_pred             HHHHHHHHHHHHcCC------CCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhh
Q psy14234        126 QYIVKNVMKAVWKHP------HAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCY  199 (779)
Q Consensus       126 ~~~~~~il~~L~~~~------~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~  199 (779)
                      ...|..||+.|.++.      .+.+|..+++.  ..+||||.+|++||||+||++||.++.|.++.+|..||+|||+||+
T Consensus         4 ~~~c~~il~~l~~~~~~~g~~l~~~F~~~p~~--~~~PdYy~iI~~Pmdl~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~   81 (113)
T cd05524           4 IAVCQELYDTIRNYKSEDGRILCESFIRVPKR--RNEPEYYEVVSNPIDLLKIQQKLKTEEYDDVDDLTADFELLINNAK   81 (113)
T ss_pred             HHHHHHHHHHHHhhcccCCCchhHHHhcCCCc--ccCCCHHHHhCCccCHHHHHHHhCcCCCCCHHHHHHHHHHHHHHHH
Confidence            356888899998643      45689998874  4899999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHhCCCCc
Q psy14234        200 VYNKPGEDVVLMAQNLEQLFLTKITGMPSE  229 (779)
Q Consensus       200 ~yN~~~s~i~~~A~~Le~~f~~~~~~~~~~  229 (779)
                      +||+++|.++.+|..|+++|.+.+.++...
T Consensus        82 ~yN~~~s~~~~~A~~L~~~f~~~~~~~~~~  111 (113)
T cd05524          82 AYYKPDSPEHKDACKLWELFLSARNEVLSG  111 (113)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHhhcc
Confidence            999999999999999999999999887543

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=99.85  E-value=1.7e-21  Score=177.49  Aligned_cols=97  Identities=30%  Similarity=0.420  Sum_probs=84.8

Q ss_pred             HHHHHHHHHHHH--HHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        124 QLQYIVKNVMKA--VWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       124 ~l~~~~~~il~~--L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      .++.++..|++.  ...+..+.+|+.+|+..  ++||||.+|++||||+||++||.++.|.++.+|..||.|||.||+.|
T Consensus         4 ~~~~l~~~v~~~~d~~gr~~~~~F~~~p~~~--~~pdYy~iIk~Pmdl~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~y   81 (103)
T cd05518           4 RMLALFLYVLEYREGSGRRLCDLFMEKPSKK--DYPDYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNARHY   81 (103)
T ss_pred             HHHHHHHHHHHhhccCCCcccHHHhcCCCcc--cCccHHHHcCCCcCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            455555555543  22456789999999865  89999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHH
Q psy14234        202 NKPGEDVVLMAQNLEQLFLTK  222 (779)
Q Consensus       202 N~~~s~i~~~A~~Le~~f~~~  222 (779)
                      |+++|.|+.+|..|+++|.++
T Consensus        82 N~~~s~i~~~A~~le~~~~~~  102 (103)
T cd05518          82 NEEGSQVYEDANILEKVLKEK  102 (103)
T ss_pred             CCCCCHHHHHHHHHHHHHHhc
Confidence            999999999999999999764

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.

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

Probab=99.85  E-value=2.6e-21  Score=176.79  Aligned_cols=99  Identities=22%  Similarity=0.305  Sum_probs=89.8

Q ss_pred             HHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhccc
Q psy14234        373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY  452 (779)
Q Consensus       373 ~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~y  452 (779)
                      .++.+...|..+....++.++++|..+++...  +||||++|++||||++|++||.++.|.++++|..||+|||.||+.|
T Consensus         5 ~~~~i~~~v~~~~d~~g~~l~~~F~~~p~~~~--~pdYy~~I~~Pmdl~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~y   82 (104)
T cd05522           5 RIKNILKGLRKERDENGRLLTLHFEKLPDKAR--EPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAKLY   82 (104)
T ss_pred             HHHHHHHHHHHHhCcCCCcccHHHhcCCCccc--cCcHHHHhCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHH
Confidence            45566666666666666789999999998775  8999999999999999999999999999999999999999999999


Q ss_pred             CCCCChHHHHHHHHHHHHHHH
Q psy14234        453 NPPDHNVVTMARQLSAVFEDR  473 (779)
Q Consensus       453 N~~~s~v~~~A~~Lq~~Fe~~  473 (779)
                      |++++.+|.+|..|++.|+.+
T Consensus        83 n~~~s~i~~~A~~l~~~f~~l  103 (104)
T cd05522          83 NENDSQEYKDAVLLEKEARLL  103 (104)
T ss_pred             CCCCCHHHHHHHHHHHHHHHh
Confidence            999999999999999999874

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.

>smart00297 BROMO bromo domain

Probab=99.84  E-value=1.3e-20  Score=173.01  Aligned_cols=101  Identities=40%  Similarity=0.744  Sum_probs=91.3

Q ss_pred             HHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcc
Q psy14234        372 LWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYK  451 (779)
Q Consensus       372 ~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~  451 (779)
                      .....|..|+..+..+   .++|+|..||+...  +|+||++|++||||++|++||++|.|.++.+|.+||+|||.||+.
T Consensus         7 ~~~~~~~~i~~~~~~~---~~~~~F~~~~~~~~--~p~Y~~~i~~P~dl~~I~~kl~~~~Y~s~~ef~~D~~li~~Na~~   81 (107)
T smart00297        7 KLQSLLKAVLDKLDSH---RLSWPFLKPVDRKE--APDYYDIIKKPMDLSTIKKKLENGKYSSVEEFVADVQLMFSNAKT   81 (107)
T ss_pred             HHHHHHHHHHHHHHhC---ccchhhccCCChhh--ccCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            3456667777776554   57999999999876  899999999999999999999999999999999999999999999


Q ss_pred             cCCCCChHHHHHHHHHHHHHHHHhcC
Q psy14234        452 YNPPDHNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       452 yN~~~s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      ||++++.++.+|..|+..|+..|+++
T Consensus        82 ~n~~~s~~~~~a~~l~~~f~~~~~~~  107 (107)
T smart00297       82 YNGPDSEVYKDAKKLEKFFEKKLREL  107 (107)
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHhhC
Confidence            99999999999999999999999763

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

Probab=99.83  E-value=1.5e-20  Score=171.93  Aligned_cols=98  Identities=26%  Similarity=0.338  Sum_probs=86.2

Q ss_pred             HHHHHHHHHHHHhcc---CCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        374 YKYCSEIIAELFHKK---HQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       374 ~k~c~~iL~~l~~~k---~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      .+.|..|+..|+..+   ++..+.+|..+++...  +||||++|++||||+||++||++  |.++++|.+||+|||.||+
T Consensus         3 ~~~~~~l~~~i~~~~~~~g~~~~~~F~~lp~~~~--~pdYy~iI~~PmdL~tI~~kl~~--Y~s~~ef~~D~~li~~Na~   78 (106)
T cd05521           3 SKKLKPLYDGIYTLKEENGIEIHPIFNVLPLRKD--YPDYYKIIKNPLSLNTVKKRLPH--YTNAQEFVNDLAQIPWNAR   78 (106)
T ss_pred             HHHHHHHHHHHHhhcCcCCCCchHhhhcCCcccc--CccHHHHhcCCCCHHHHHHHHHc--CCCHHHHHHHHHHHHHHHH
Confidence            355777777776644   4567788998777654  89999999999999999999998  9999999999999999999


Q ss_pred             ccCCCCChHHHHHHHHHHHHHHHHh
Q psy14234        451 KYNPPDHNVVTMARQLSAVFEDRFA  475 (779)
Q Consensus       451 ~yN~~~s~v~~~A~~Lq~~Fe~~~~  475 (779)
                      .||++++.+|.+|..|+++|..++.
T Consensus        79 ~yN~~~s~i~~~A~~le~~~~~~~~  103 (106)
T cd05521          79 LYNTKGSVIYKYALILEKYINDVII  103 (106)
T ss_pred             HHcCCCCHHHHHHHHHHHHHHHhhc
Confidence            9999999999999999999998764

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

>cd05492 Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family

Probab=99.83  E-value=1.6e-20  Score=171.80  Aligned_cols=101  Identities=15%  Similarity=0.174  Sum_probs=91.6

Q ss_pred             HHHHHHHHHHHHc-CCCCCCCCCCCCc---cccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        126 QYIVKNVMKAVWK-HPHAWPFHEPVDA---INLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       126 ~~~~~~il~~L~~-~~~s~pF~~PVd~---~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      -++|..++..+.. .+..+||+.||.+   .+.++|+||.+|++||||+||++||++|.|.+++||..||.|||+||.+|
T Consensus         2 ~~~L~f~~~~~k~~lp~~~~~~~~v~~~~~~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~LI~~N~~~y   81 (109)
T cd05492           2 NCLLKFIVSRMKSWLPPDTTNRAIVLNKRGKATKLPKRRRLIHTHLDVADIQEKINSEKYTSLEEFKADALLLLHNTAIF   81 (109)
T ss_pred             chhHHHHHHHHHhcCcccccccccccccCchhccCCCHHHHhCCCCcHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            3567778888877 6778999999973   34569999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHhCC
Q psy14234        202 NKPGEDVVLMAQNLEQLFLTKITGM  226 (779)
Q Consensus       202 N~~~s~i~~~A~~Le~~f~~~~~~~  226 (779)
                      |+++|.++.+|..|.+.....+.+|
T Consensus        82 Ng~~s~~~~~A~~l~~d~~~el~Ei  106 (109)
T cd05492          82 HGADSEQYDAARWLYRDTCHDLREL  106 (109)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999888775

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.

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

Probab=99.82  E-value=3e-20  Score=169.77  Aligned_cols=92  Identities=27%  Similarity=0.369  Sum_probs=83.5

Q ss_pred             HHHHHHHHHHc------CCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        128 IVKNVMKAVWK------HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       128 ~~~~il~~L~~------~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      .++.|++.|.+      ++.+++|..+|+..  .+||||.+|++||||++|++||.++.|.++.+|+.||.|||.||+.|
T Consensus         5 ~~~~i~~~v~~~~d~~g~~l~~~F~~~p~~~--~~pdYy~~I~~Pmdl~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~y   82 (104)
T cd05522           5 RIKNILKGLRKERDENGRLLTLHFEKLPDKA--REPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAKLY   82 (104)
T ss_pred             HHHHHHHHHHHHhCcCCCcccHHHhcCCCcc--ccCcHHHHhCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHH
Confidence            34555555554      56799999999865  79999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHH
Q psy14234        202 NKPGEDVVLMAQNLEQLFLT  221 (779)
Q Consensus       202 N~~~s~i~~~A~~Le~~f~~  221 (779)
                      |++++.|+.+|..|++.|..
T Consensus        83 n~~~s~i~~~A~~l~~~f~~  102 (104)
T cd05522          83 NENDSQEYKDAVLLEKEARL  102 (104)
T ss_pred             CCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999976

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

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

Probab=99.82  E-value=3.6e-20  Score=169.46  Aligned_cols=95  Identities=26%  Similarity=0.356  Sum_probs=82.8

Q ss_pred             HHHHHHHHHHHHcC------CCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhh
Q psy14234        126 QYIVKNVMKAVWKH------PHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCY  199 (779)
Q Consensus       126 ~~~~~~il~~L~~~------~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~  199 (779)
                      ...|..|++.|++.      ..+.+|..+++..  .+||||.+|++||||+||++||++  |.++.+|+.||.|||.||+
T Consensus         3 ~~~~~~l~~~i~~~~~~~g~~~~~~F~~lp~~~--~~pdYy~iI~~PmdL~tI~~kl~~--Y~s~~ef~~D~~li~~Na~   78 (106)
T cd05521           3 SKKLKPLYDGIYTLKEENGIEIHPIFNVLPLRK--DYPDYYKIIKNPLSLNTVKKRLPH--YTNAQEFVNDLAQIPWNAR   78 (106)
T ss_pred             HHHHHHHHHHHHhhcCcCCCCchHhhhcCCccc--cCccHHHHhcCCCCHHHHHHHHHc--CCCHHHHHHHHHHHHHHHH
Confidence            34455556666553      4467899887754  799999999999999999999998  9999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHh
Q psy14234        200 VYNKPGEDVVLMAQNLEQLFLTKIT  224 (779)
Q Consensus       200 ~yN~~~s~i~~~A~~Le~~f~~~~~  224 (779)
                      +||+++|.||.+|..|+++|..++.
T Consensus        79 ~yN~~~s~i~~~A~~le~~~~~~~~  103 (106)
T cd05521          79 LYNTKGSVIYKYALILEKYINDVII  103 (106)
T ss_pred             HHcCCCCHHHHHHHHHHHHHHHhhc
Confidence            9999999999999999999998874

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.

>cd04369 Bromodomain Bromodomain

Probab=99.80  E-value=9.8e-20  Score=163.17  Aligned_cols=98  Identities=40%  Similarity=0.696  Sum_probs=89.9

Q ss_pred             HHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccC
Q psy14234        374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYN  453 (779)
Q Consensus       374 ~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN  453 (779)
                      ...|..|+..|..+. ...+++|..||+...  +|+||++|++||||++|++||.+|.|.++.+|.+||+|||.||+.||
T Consensus         2 ~~~~~~i~~~l~~~~-~~~~~~F~~~~~~~~--~~~Y~~~i~~P~~l~~I~~kl~~~~Y~s~~~f~~D~~li~~Na~~~n   78 (99)
T cd04369           2 KKKLRSLLDALKKLK-RDLSEPFLEPVDPKE--APDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEADVRLIFSNAKTYN   78 (99)
T ss_pred             HHHHHHHHHHHHhhc-ccccHHHhcCCChhc--CCCHHHHHhCcccHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            357889999998763 246899999999855  89999999999999999999999999999999999999999999999


Q ss_pred             CCCChHHHHHHHHHHHHHHHH
Q psy14234        454 PPDHNVVTMARQLSAVFEDRF  474 (779)
Q Consensus       454 ~~~s~v~~~A~~Lq~~Fe~~~  474 (779)
                      +.++.++.+|..|+..|++.|
T Consensus        79 ~~~~~~~~~a~~l~~~~~~~~   99 (99)
T cd04369          79 GPGSPIYKDAKKLEKLFEKLL   99 (99)
T ss_pred             CCCCHHHHHHHHHHHHHHHhC
Confidence            999999999999999999764

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=99.80  E-value=1e-19  Score=159.60  Aligned_cols=84  Identities=38%  Similarity=0.652  Sum_probs=78.6

Q ss_pred             HHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCCHH
Q psy14234        129 VKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDV  208 (779)
Q Consensus       129 ~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~s~i  208 (779)
                      |..||+.|++|+.+++|..||+..  .+|+|+.+|++||||.+|++||++|.|.++.+|..||++||.||+.||++++.+
T Consensus         1 C~~il~~l~~~~~~~~F~~~~~~~--~~p~y~~~i~~P~dL~~I~~kl~~~~Y~s~~~f~~Dv~~i~~Na~~yn~~~s~~   78 (84)
T PF00439_consen    1 CREILEELMKHPISSPFSKPVDPK--EYPDYYEIIKNPMDLSTIRKKLENGKYKSIEEFEADVRLIFQNARRYNPPDSPI   78 (84)
T ss_dssp             HHHHHHHHHTSTTGGGGSSSTHTT--TSTTHHHHSSSS--HHHHHHHHHTTSSSSHHHHHHHHHHHHHHHHHHSCTTSHH
T ss_pred             CHHHHHHHHcCCCchhhcCCCChh--hCCCHHHHHhhccchhhhhHHhhccchhhHHHHHHHHHHHHHHHHHHCCCcCHH
Confidence            788999999999999999999755  799999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHH
Q psy14234        209 VLMAQN  214 (779)
Q Consensus       209 ~~~A~~  214 (779)
                      +.+|+.
T Consensus        79 ~~~A~~   84 (84)
T PF00439_consen   79 YKAAEK   84 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHhcC
Confidence            999974

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 ....

>cd04369 Bromodomain Bromodomain

Probab=99.80  E-value=1.4e-19  Score=162.12  Aligned_cols=96  Identities=40%  Similarity=0.579  Sum_probs=90.6

Q ss_pred             HHHHHHHHHHHHcC--CCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCC
Q psy14234        126 QYIVKNVMKAVWKH--PHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNK  203 (779)
Q Consensus       126 ~~~~~~il~~L~~~--~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~  203 (779)
                      ...|..|++.|..+  +.+++|..||+..  .+|+||.+|++||||.+|++||.++.|.++.+|..||.+||.||+.||+
T Consensus         2 ~~~~~~i~~~l~~~~~~~~~~F~~~~~~~--~~~~Y~~~i~~P~~l~~I~~kl~~~~Y~s~~~f~~D~~li~~Na~~~n~   79 (99)
T cd04369           2 KKKLRSLLDALKKLKRDLSEPFLEPVDPK--EAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEADVRLIFSNAKTYNG   79 (99)
T ss_pred             HHHHHHHHHHHHhhcccccHHHhcCCChh--cCCCHHHHHhCcccHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCC
Confidence            35688999999999  9999999999974  6999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHHH
Q psy14234        204 PGEDVVLMAQNLEQLFLTKI  223 (779)
Q Consensus       204 ~~s~i~~~A~~Le~~f~~~~  223 (779)
                      .++.++.+|..|+..|.+.+
T Consensus        80 ~~~~~~~~a~~l~~~~~~~~   99 (99)
T cd04369          80 PGSPIYKDAKKLEKLFEKLL   99 (99)
T ss_pred             CCCHHHHHHHHHHHHHHHhC
Confidence            99999999999999998753

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=99.79  E-value=1.5e-19  Score=158.59  Aligned_cols=84  Identities=49%  Similarity=0.898  Sum_probs=77.3

Q ss_pred             HHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccCCCC
Q psy14234        377 CSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPD  456 (779)
Q Consensus       377 c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN~~~  456 (779)
                      |..||..|+.+.   .+++|..||+...  +|+|+++|++||||++|++||++|.|.++.+|..||++||.||+.||+++
T Consensus         1 C~~il~~l~~~~---~~~~F~~~~~~~~--~p~y~~~i~~P~dL~~I~~kl~~~~Y~s~~~f~~Dv~~i~~Na~~yn~~~   75 (84)
T PF00439_consen    1 CREILEELMKHP---ISSPFSKPVDPKE--YPDYYEIIKNPMDLSTIRKKLENGKYKSIEEFEADVRLIFQNARRYNPPD   75 (84)
T ss_dssp             HHHHHHHHHTST---TGGGGSSSTHTTT--STTHHHHSSSS--HHHHHHHHHTTSSSSHHHHHHHHHHHHHHHHHHSCTT
T ss_pred             CHHHHHHHHcCC---CchhhcCCCChhh--CCCHHHHHhhccchhhhhHHhhccchhhHHHHHHHHHHHHHHHHHHCCCc
Confidence            899999999876   5899999996655  89999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHH
Q psy14234        457 HNVVTMARQ  465 (779)
Q Consensus       457 s~v~~~A~~  465 (779)
                      +.+|.+|.+
T Consensus        76 s~~~~~A~~   84 (84)
T PF00439_consen   76 SPIYKAAEK   84 (84)
T ss_dssp             SHHHHHHHH
T ss_pred             CHHHHHhcC
Confidence            999999974

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 ....

>KOG0008|consensus

Probab=99.79  E-value=1e-18  Score=206.85  Aligned_cols=219  Identities=28%  Similarity=0.502  Sum_probs=173.8

Q ss_pred             HHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCC
Q psy14234        124 QLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNK  203 (779)
Q Consensus       124 ~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~  203 (779)
                      .++-++..|++.+...+...+|..||+..  .++|||.||+.||||.++++.+....|.+-++|+.|+.+||.|..+||+
T Consensus      1261 ~~ss~l~~i~n~~~~~~~t~~f~~Pv~~k--~v~dyy~vi~~P~~lq~~kk~v~kr~y~~r~~fle~~~~~~~ns~~yng 1338 (1563)
T KOG0008|consen 1261 SLSSILETIINQARSSPNTYPFPTPVNAK--EVKDYYRVITPPMDLQTQKKLVRKRLYESREHFLEELPLIVSNSTKYNG 1338 (1563)
T ss_pred             ecccchHHHHHHHhcCCCCcCCCCccchh--hccchhhccCCCcchHHHHHHHHHHHHHHHHHHHHHhHHHhhchhhhcC
Confidence            57788999999999999999999999976  7999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHHHhCCCCcccccCCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCCCCCCC
Q psy14234        204 PGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATSTPKPRPPNPVL  283 (779)
Q Consensus       204 ~~s~i~~~A~~Le~~f~~~~~~~~~~e~~~~~~~~k~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~  283 (779)
                      +.+.+...++.+..++...|.+-...-.-+         .+                  +++                  
T Consensus      1339 ~~~~~t~~~q~mls~~~~~~~ekedk~~~l---------Ek------------------~In------------------ 1373 (1563)
T KOG0008|consen 1339 PLASLTRQQQSMLSLCFEKLKEKEDKLWRL---------EK------------------AIN------------------ 1373 (1563)
T ss_pred             chHHHHHHHHHHHHHHHHhhchhHHHHHHH---------Hh------------------hcC------------------
Confidence            999999999988877766665411000000         00                  000                  


Q ss_pred             CCCCCCCCCccccccCCCCCCCChhHHHhhhhccCCCCCCCCCCCCCCCcchhhhcccccccCCCCCCCCCCCcCCCCCC
Q psy14234        284 GSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQRISEEGGGGS  363 (779)
Q Consensus       284 ~~~~~~~~~~~s~~~~~~~~p~~~~~kk~~krkadtt~d~tPt~~~~~~~~~~~~~~~rres~R~~k~p~~~l~~~~~~~  363 (779)
                                                                                         +.   |.+.    
T Consensus      1374 -------------------------------------------------------------------pl---ld~~---- 1379 (1563)
T KOG0008|consen 1374 -------------------------------------------------------------------PL---LDDD---- 1379 (1563)
T ss_pred             -------------------------------------------------------------------cc---cCcc----
Confidence                                                                               00   0000    


Q ss_pred             CCCCCCcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHH
Q psy14234        364 GLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVR  443 (779)
Q Consensus       364 ~~~~~~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~  443 (779)
                          +.  ..+-....|+.++..   -+-.|+|+.||+.+.  +++||.+|++||||.+|.+++..+.|.+..+|..||+
T Consensus      1380 ----d~--v~~~~~d~~vs~~~~---ipes~~f~~~v~~k~--~~~yy~kik~pmdl~~i~~n~~~~~y~s~~e~l~dv~ 1448 (1563)
T KOG0008|consen 1380 ----DQ--VAFFILDNIVSQMKE---IPESWPFHEPVNKKR--VPDYYKKIKNPMDLETILKNIPPHKYDSRSEFLDDVN 1448 (1563)
T ss_pred             ----ch--hhHhhhhhHHHHHHh---cchhcccccccchhh--chHHHHHhcChhhHHHHhhcCCccccccHHHHhhhhH
Confidence                00  001122344444322   245899999999988  8999999999999999999999999999999999999


Q ss_pred             HhhhhhcccCCCCChHHHHHHHHHHHHHHHH
Q psy14234        444 LIFSNCYKYNPPDHNVVTMARQLSAVFEDRF  474 (779)
Q Consensus       444 Lmf~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~  474 (779)
                      +|+-||..||+..+....-|+++-.+....+
T Consensus      1449 ~i~~n~~~~ng~e~~y~~k~~k~~ev~~~~~ 1479 (1563)
T KOG0008|consen 1449 LIYVNSVEYNGAESAYTKKARKIGEVGLANL 1479 (1563)
T ss_pred             hhcccceeecCccccccHHHHHHHHHHHHHH
Confidence            9999999999999998888887766655444

>cd05492 Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family

Probab=99.78  E-value=6.3e-19  Score=161.38  Aligned_cols=85  Identities=18%  Similarity=0.212  Sum_probs=77.3

Q ss_pred             ccCccccCCc---cccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccCCCCChHHHHHHHHHHH
Q psy14234        393 AWPFYTPVDV---EKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAV  469 (779)
Q Consensus       393 a~pF~~PVd~---~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN~~~s~v~~~A~~Lq~~  469 (779)
                      .+||..||+.   ...++|+||++|++||||+||++||++|.|+++++|.+||+|||+||+.||+++|.++.+|..|.+.
T Consensus        19 ~~~~~~~v~~~~~~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~LI~~N~~~yNg~~s~~~~~A~~l~~d   98 (109)
T cd05492          19 DTTNRAIVLNKRGKATKLPKRRRLIHTHLDVADIQEKINSEKYTSLEEFKADALLLLHNTAIFHGADSEQYDAARWLYRD   98 (109)
T ss_pred             cccccccccccCchhccCCCHHHHhCCCCcHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Confidence            5899999974   4445899999999999999999999999999999999999999999999999999999999999887


Q ss_pred             HHHHHhcC
Q psy14234        470 FEDRFAKM  477 (779)
Q Consensus       470 Fe~~~~~i  477 (779)
                      ...-+.+|
T Consensus        99 ~~~el~Ei  106 (109)
T cd05492          99 TCHDLREL  106 (109)
T ss_pred             HHHHHHHH
Confidence            77666554

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

>cd05526 Bromo_polybromo_VI Bromodomain, polybromo repeat VI

Probab=99.74  E-value=5.5e-18  Score=154.70  Aligned_cols=102  Identities=12%  Similarity=0.224  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHHHHhcc---CCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh
Q psy14234        373 WYKYCSEIIAELFHKK---HQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNC  449 (779)
Q Consensus       373 ~~k~c~~iL~~l~~~k---~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na  449 (779)
                      ..+....|+..++.+.   ++.++.+|.+.+..    .++||.+|+.||||.+|++||++|.|+++++|..||.|||.||
T Consensus         4 vq~~l~~l~~~V~~~~D~~Gr~~s~~f~~LP~~----~~~~~~~ik~Pi~l~~Ik~ki~~~~Y~~ld~~~~D~~lmf~NA   79 (110)
T cd05526           4 VQELLATLFVSVMNHQDEEGRCYSDSLAELPEL----AVDGVGPKKIPLTLDIIKRNVDKGRYRRLDKFQEDMFEVLERA   79 (110)
T ss_pred             HHHHHHHHHHHHHhccCCCCCCchHHHHHCCCc----ccCchhhhcCCccHHHHHHHHHcCCcCcHHHHHHHHHHHHHHH
Confidence            3456677777887776   56689999998772    4788999999999999999999999999999999999999999


Q ss_pred             cccCCCCChHHHHHHHHHHHHHHHHhcCC
Q psy14234        450 YKYNPPDHNVVTMARQLSAVFEDRFAKMP  478 (779)
Q Consensus       450 ~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~  478 (779)
                      ++||.+||.||.+|..||.+|.....++.
T Consensus        80 r~yN~~~S~iy~dA~eLq~~f~~~rd~~~  108 (110)
T cd05526          80 RRLSRTDSEIYEDAVELQQFFIKIRDELC  108 (110)
T ss_pred             HHhCcccCHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999888764

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.

>cd05526 Bromo_polybromo_VI Bromodomain, polybromo repeat VI

Probab=99.73  E-value=8.5e-18  Score=153.45  Aligned_cols=99  Identities=15%  Similarity=0.199  Sum_probs=89.9

Q ss_pred             HHHHHHHHHHHHHHcCCC------CCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhh
Q psy14234        124 QLQYIVKNVMKAVWKHPH------AWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTN  197 (779)
Q Consensus       124 ~l~~~~~~il~~L~~~~~------s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~N  197 (779)
                      .+|.++..|+..|++|.+      +.+|.+.+.    ..|+||.+|+.||||.+|++||++|.|.++++|..||.+||.|
T Consensus         3 ~vq~~l~~l~~~V~~~~D~~Gr~~s~~f~~LP~----~~~~~~~~ik~Pi~l~~Ik~ki~~~~Y~~ld~~~~D~~lmf~N   78 (110)
T cd05526           3 LVQELLATLFVSVMNHQDEEGRCYSDSLAELPE----LAVDGVGPKKIPLTLDIIKRNVDKGRYRRLDKFQEDMFEVLER   78 (110)
T ss_pred             HHHHHHHHHHHHHHhccCCCCCCchHHHHHCCC----cccCchhhhcCCccHHHHHHHHHcCCcCcHHHHHHHHHHHHHH
Confidence            467888899999998764      788998877    2578899999999999999999999999999999999999999


Q ss_pred             hhhhCCCCCHHHHHHHHHHHHHHHHHhCC
Q psy14234        198 CYVYNKPGEDVVLMAQNLEQLFLTKITGM  226 (779)
Q Consensus       198 a~~yN~~~s~i~~~A~~Le~~f~~~~~~~  226 (779)
                      |++||.+||.||.+|..|+++|...-.++
T Consensus        79 Ar~yN~~~S~iy~dA~eLq~~f~~~rd~~  107 (110)
T cd05526          79 ARRLSRTDSEIYEDAVELQQFFIKIRDEL  107 (110)
T ss_pred             HHHhCcccCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999876654

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

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

Probab=99.69  E-value=3.3e-17  Score=182.47  Aligned_cols=111  Identities=32%  Similarity=0.509  Sum_probs=97.8

Q ss_pred             cHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh
Q psy14234        370 TPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNC  449 (779)
Q Consensus       370 ~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na  449 (779)
                      +......|...+..+....+..+.++|+.+|+...  +|+||.||+.||||++|+++|.++.|.++++|..||+|||.||
T Consensus       143 ~~~~~~~i~~~~~~~~~~~~~~~s~~F~~~p~k~~--~PdYy~iIk~Pm~L~~i~kkl~~~~Y~s~eef~~D~~lM~~N~  220 (371)
T COG5076         143 LYADNKAIAKFKKQLFLRDGRFLSSIFLGLPSKRE--YPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNC  220 (371)
T ss_pred             HHHHHHHHHHHHHHhhcccccccccccccCCcccc--CCChheeecchhhHHHHHHHHHhhhhhhHHHHHHHHHHHHHhh
Confidence            34455556666666666677778899999888766  8999999999999999999999999999999999999999999


Q ss_pred             cccCCCCChHHHHHHHHHHHHHHHHhcCCCchh
Q psy14234        450 YKYNPPDHNVVTMARQLSAVFEDRFAKMPDESN  482 (779)
Q Consensus       450 ~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~~~  482 (779)
                      ++||.++|.||.+|..|++.|..++..++....
T Consensus       221 ~~yN~~~s~v~~~a~~l~~~~~~~i~~~~~~~~  253 (371)
T COG5076         221 KLYNGPDSSVYVDAKELEKYFLKLIEEIPEEML  253 (371)
T ss_pred             hhccCCCcchhhhhHHHHHHHHHHHHhccccch
Confidence            999999999999999999999999998876543

>KOG1245|consensus

Probab=99.64  E-value=1.5e-16  Score=197.80  Aligned_cols=95  Identities=42%  Similarity=0.833  Sum_probs=91.3

Q ss_pred             HHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccCCCC
Q psy14234        377 CSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPD  456 (779)
Q Consensus       377 c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN~~~  456 (779)
                      |..||.+|+.|+.   +|||++||+...  +|+||+||++||||+||+.|+..|.|.++++|..||.|||+||..||.. 
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---AWPFLEPVNPKE--VPDYYDIIKKPMDLSTIREKLSKGIYPSPEEFATDIELVFDNCETYNED- 1379 (1404)
T ss_pred             HHHHHHHHHHhhh---cchhhccCChhh--cccHHHHhcChhHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHhccc-
Confidence            8999999998864   999999999988  8999999999999999999999999999999999999999999999999 


Q ss_pred             ChHHHHHHHHHHHHHHHHhcC
Q psy14234        457 HNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       457 s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      +.|+..+..|+++|+.+|...
T Consensus      1380 s~i~~ag~~l~~ff~~~~~~~ 1400 (1404)
T KOG1245|consen 1380 SEIGRAGTCLRRFFHKRWRKK 1400 (1404)
T ss_pred             hhhhhhcchHHHHHHHHHHhh
Confidence            999999999999999988764

>KOG1245|consensus

Probab=99.61  E-value=5.6e-16  Score=192.82  Aligned_cols=96  Identities=31%  Similarity=0.603  Sum_probs=92.3

Q ss_pred             HHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCCHH
Q psy14234        129 VKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDV  208 (779)
Q Consensus       129 ~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~s~i  208 (779)
                      |..||..|+.|..+|||+.||++.  .+||||.||++||||.||+.||..|.|.++.+|..||.|||.||.+||.+ |.|
T Consensus      1306 ~e~il~e~~~~~~awPFlepVn~~--~vp~Y~~IIk~Pmdl~tir~k~~~~~Y~~~eef~~Di~lvf~Nc~~yN~~-s~i 1382 (1404)
T KOG1245|consen 1306 CEDILHELVVHKAAWPFLEPVNPK--EVPDYYDIIKKPMDLSTIREKLSKGIYPSPEEFATDIELVFDNCETYNED-SEI 1382 (1404)
T ss_pred             HHHHHHHHHHhhhcchhhccCChh--hcccHHHHhcChhHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHhccc-hhh
Confidence            899999999999999999999976  79999999999999999999999999999999999999999999999999 999


Q ss_pred             HHHHHHHHHHHHHHHhCCC
Q psy14234        209 VLMAQNLEQLFLTKITGMP  227 (779)
Q Consensus       209 ~~~A~~Le~~f~~~~~~~~  227 (779)
                      +..+..|.++|...|..+.
T Consensus      1383 ~~ag~~l~~ff~~~~~~~~ 1401 (1404)
T KOG1245|consen 1383 GRAGTCLRRFFHKRWRKKF 1401 (1404)
T ss_pred             hhhcchHHHHHHHHHHhhc
Confidence            9999999999999887653

>KOG1828|consensus

Probab=99.45  E-value=9.4e-14  Score=148.13  Aligned_cols=94  Identities=18%  Similarity=0.193  Sum_probs=79.5

Q ss_pred             HHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCCH
Q psy14234        128 IVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGED  207 (779)
Q Consensus       128 ~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~s~  207 (779)
                      ..+.++..+-+...-..|..||...  -.|+|.+||..|||+.||+.+++.++|.++.+|..|+++|+.|+..||..+..
T Consensus        23 ~~ehhlrkl~sKdp~q~fafplt~~--map~y~~iis~Pmd~~t~r~kidd~~yl~L~~m~~d~kl~~~na~~yn~~~Tv  100 (418)
T KOG1828|consen   23 DAEHHLRKLPSKDPKQKFAFPLTDK--MAPNYLEIISEPMDRITKRSKIDDTRYLVLSQMEFDRKLPDGNATLYNLHPTV  100 (418)
T ss_pred             hHHHHHHhccccChhhhhccccchh--hccchHhhhhcccccccccccCCCccceechhhhhhhcccccchhhhhcCCcc
Confidence            3445555555555566677788765  58999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHH
Q psy14234        208 VVLMAQNLEQLFLTKI  223 (779)
Q Consensus       208 i~~~A~~Le~~f~~~~  223 (779)
                      ++..|++|..+.....
T Consensus       101 ~~~aaKrL~~v~~~~~  116 (418)
T KOG1828|consen  101 PIVAAKRLCPVRLGMT  116 (418)
T ss_pred             ccccccccchhhcchh
Confidence            9999999977654433

>KOG1472|consensus

Probab=99.44  E-value=7.6e-14  Score=161.57  Aligned_cols=102  Identities=35%  Similarity=0.655  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhC
Q psy14234        123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYN  202 (779)
Q Consensus       123 ~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN  202 (779)
                      ..+...+..++..|..|..+|||..||+..  +.||||.+|++||||.||+.+|..++|..+..|+.|+.+||.||++||
T Consensus       605 ~~~~s~~~~il~~l~~h~~awPf~~Pv~~~--e~pdyy~~I~~pmDl~tM~~~l~~~~y~~~~~f~ad~~~vf~ncr~yn  682 (720)
T KOG1472|consen  605 GKLFSAIQNILDQLQNHGDAWPFLKPVNKK--EVPDYYDVIKHPMDLRTMQNRLKDNQYTEVELFMADVVRVFANCRMYN  682 (720)
T ss_pred             chhhHHHHhHHhhhhcCCccCCccCccccc--cCCcHHHHhcccccHHHHhhhccccchhhHHHHHHHHHHHHhhhhccC
Confidence            456667788999999999999999999966  899999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHhCC
Q psy14234        203 KPGEDVVLMAQNLEQLFLTKITGM  226 (779)
Q Consensus       203 ~~~s~i~~~A~~Le~~f~~~~~~~  226 (779)
                      +.++..|+.|..|+.+|..++...
T Consensus       683 ~~~~~y~k~~~~le~~~~~k~~~~  706 (720)
T KOG1472|consen  683 GSDTQYYKCAQALEKFFLFKLNEL  706 (720)
T ss_pred             Cccchheecccchhhhhcchhhhh
Confidence            999999999999999999988875

>cd05494 Bromodomain_1 Bromodomain; uncharacterized subfamily

Probab=99.32  E-value=1.1e-12  Score=121.85  Aligned_cols=80  Identities=26%  Similarity=0.361  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcC-------CCCCHHHHHHHHHHhhhh
Q psy14234        376 YCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNR-------TYKTAKEFADDVRLIFSN  448 (779)
Q Consensus       376 ~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~-------~Y~s~~eF~~Dv~Lmf~N  448 (779)
                      .|..+|..|....++..+|||..|||+...++||||++|++||||+||+++|.++       .|..-..+.+++..++.|
T Consensus         4 ~~~~~l~~l~~~~~~~~~~pF~~PVd~~~~~~pdY~~iIK~PMDL~ti~~kl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (114)
T cd05494           4 ALERVLRELKRHRRNEDAWPFLEPVNPPRRGAPDYRDVIKRPMSFGTKVNNIVETGARDLEDLQIVQEDPADKQIDDEGR   83 (114)
T ss_pred             HHHHHHHHHHHhhhCCCCCCcCCCCCchhcCCCChhhhcCCCCChHHHHHHHHccccccccccccccccccccccccccc
Confidence            4455555555555556799999999998888999999999999999999999987       445455666777777777


Q ss_pred             hcccCCC
Q psy14234        449 CYKYNPP  455 (779)
Q Consensus       449 a~~yN~~  455 (779)
                      |..||..
T Consensus        84 ~~~~~~~   90 (114)
T cd05494          84 RSPSNIY   90 (114)
T ss_pred             cCccccc
Confidence            7777764

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

>KOG0008|consensus

Probab=99.26  E-value=1.6e-12  Score=155.21  Aligned_cols=95  Identities=33%  Similarity=0.595  Sum_probs=82.6

Q ss_pred             HHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCC
Q psy14234        127 YIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGE  206 (779)
Q Consensus       127 ~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~s  206 (779)
                      +++..++..++.-..+|+|+.||+..  .+|+||.+|++||||.+|.+++....|.+..+|..|+++|+.||..||+.++
T Consensus      1385 ~~~d~~vs~~~~ipes~~f~~~v~~k--~~~~yy~kik~pmdl~~i~~n~~~~~y~s~~e~l~dv~~i~~n~~~~ng~e~ 1462 (1563)
T KOG0008|consen 1385 FILDNIVSQMKEIPESWPFHEPVNKK--RVPDYYKKIKNPMDLETILKNIPPHKYDSRSEFLDDVNLIYVNSVEYNGAES 1462 (1563)
T ss_pred             hhhhhHHHHHHhcchhcccccccchh--hchHHHHHhcChhhHHHHhhcCCccccccHHHHhhhhHhhcccceeecCccc
Confidence            67777888888889999999999976  6899999999999999999999999999999999999999999999999877


Q ss_pred             HHHHHHHHHHHHHHHHH
Q psy14234        207 DVVLMAQNLEQLFLTKI  223 (779)
Q Consensus       207 ~i~~~A~~Le~~f~~~~  223 (779)
                      ....-|+.+-.+.+..|
T Consensus      1463 ~y~~k~~k~~ev~~~~~ 1479 (1563)
T KOG0008|consen 1463 AYTKKARKIGEVGLANL 1479 (1563)
T ss_pred             cccHHHHHHHHHHHHHH
Confidence            76666665555544433

>cd05494 Bromodomain_1 Bromodomain; uncharacterized subfamily

Probab=99.20  E-value=9.6e-12  Score=115.50  Aligned_cols=77  Identities=25%  Similarity=0.315  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCC-------CCCHHHHHHHHHHHhhhhhh
Q psy14234        128 IVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNY-------YWSGKEAIQDFTTMFTNCYV  200 (779)
Q Consensus       128 ~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~-------Y~s~~ef~~D~~lmf~Na~~  200 (779)
                      .|..+|..+.+|+.+|||..||++.+.++||||.+|++||||+||+++|..+.       |..-..+..++..++.||..
T Consensus         7 ~~l~~l~~~~~~~~~~pF~~PVd~~~~~~pdY~~iIK~PMDL~ti~~kl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (114)
T cd05494           7 RVLRELKRHRRNEDAWPFLEPVNPPRRGAPDYRDVIKRPMSFGTKVNNIVETGARDLEDLQIVQEDPADKQIDDEGRRSP   86 (114)
T ss_pred             HHHHHHHHhhhCCCCCCcCCCCCchhcCCCChhhhcCCCCChHHHHHHHHccccccccccccccccccccccccccccCc
Confidence            45566777778889999999999977899999999999999999999999874       44444445666666677666


Q ss_pred             hCCC
Q psy14234        201 YNKP  204 (779)
Q Consensus       201 yN~~  204 (779)
                      ||..
T Consensus        87 ~~~~   90 (114)
T cd05494          87 SNIY   90 (114)
T ss_pred             cccc
Confidence            6654

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

>KOG1827|consensus

Probab=99.18  E-value=3.1e-11  Score=138.13  Aligned_cols=231  Identities=16%  Similarity=0.120  Sum_probs=154.2

Q ss_pred             HHHHHHHHHHHHHcC------CCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhh
Q psy14234        125 LQYIVKNVMKAVWKH------PHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNC  198 (779)
Q Consensus       125 l~~~~~~il~~L~~~------~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na  198 (779)
                      ++..+..||..|..+      .....|.+..+.  ...|+||.+|..||+|..|++|+..+.|.+.+.|..||.+||.||
T Consensus        53 ~~~~f~~il~~~~~~~d~~gk~~~d~feklp~~--~~~p~yy~~i~~pisl~~ik~kv~k~~y~~~~~f~~D~~lm~ena  130 (629)
T KOG1827|consen   53 LIPKFKTILASLLDLKDDEGKQLFDKFEKLPSR--KEFPEYYYVIQQPISLDQIKRKVKKGRYKRLSFFQLDFLLMTENA  130 (629)
T ss_pred             HHHHHHHHHHHHHhhccccCcccchhHhhcccc--ccCCCcceeecCcccHHHHHHHHHhcccccHHHHHHHHHHHHHHH
Confidence            333444555555543      346678888774  479999999999999999999999999999999999999999999


Q ss_pred             hhhCCCCCHHHHHHHHHHHHHHHHHhCCCCcccccCCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCC
Q psy14234        199 YVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATSTPKPRP  278 (779)
Q Consensus       199 ~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~~e~~~~~~~~k~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~  278 (779)
                      +.||..++.||.++..|+..|.....+....+....    ..          .           .+..    ...+....
T Consensus       131 ~~~n~~ds~~~~~s~~l~~~~~~~~~~~~d~e~s~~----~~----------~-----------~l~~----~~l~~~~~  181 (629)
T KOG1827|consen  131 RLYNRPDSLIYKDSGELEKYFISLEDEKKDGELSME----SN----------E-----------ELKA----GGLHYHEL  181 (629)
T ss_pred             HHhcCcchhhhhhhhhhhcchhhhhccccchhhccc----cc----------c-----------cccc----CCCCcccC
Confidence            999999999999999999999876543110000000    00          0           0000    00000000


Q ss_pred             CCCCCCCCCCCCCCccccccCCCCCCCChhHHHhhhhccCCCCCCCCCCCCCCCcchhhhcccccccCCCCCCCCCCCcC
Q psy14234        279 PNPVLGSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQRISEE  358 (779)
Q Consensus       279 ~~~~~~~~~~~~~~~~s~~~~~~~~p~~~~~kk~~krkadtt~d~tPt~~~~~~~~~~~~~~~rres~R~~k~p~~~l~~  358 (779)
                      .+                                      ...+.+.-                       ..+-..+-.
T Consensus       182 ~~--------------------------------------~~i~~~~~-----------------------~~gd~vlv~  200 (629)
T KOG1827|consen  182 GP--------------------------------------VEIDGTKY-----------------------IVGDYVLVQ  200 (629)
T ss_pred             CC--------------------------------------ccccCccc-----------------------ccCceeeec
Confidence            00                                      00000000                       000000000


Q ss_pred             CCCCCCCCCCCcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHH
Q psy14234        359 GGGGSGLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEF  438 (779)
Q Consensus       359 ~~~~~~~~~~~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF  438 (779)
                      .  .....+.                    +-.....|+.-+|.+.  +++||.+++-+|-+..+.+++..++|.....|
T Consensus       201 ~--~~d~~~p--------------------~v~~Ier~w~~~dg~k--~~~~~w~~rP~~T~H~a~r~F~k~Evfkt~~~  256 (629)
T KOG1827|consen  201 N--PADNLKP--------------------IVAQIERLWKLPDGEK--WPQGCWIYRPEETVHRADRKFYKQEVFKTSLY  256 (629)
T ss_pred             C--cccccCC--------------------ceeeecccccCccccc--ccceeEeeCCccCccccccchhcccceecccc
Confidence            0  0000000                    0011234666666665  79999999999999999999999999999999


Q ss_pred             HHHHHHhhhhhcccCCCCChHHHHHHHHHHHHH
Q psy14234        439 ADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFE  471 (779)
Q Consensus       439 ~~Dv~Lmf~Na~~yN~~~s~v~~~A~~Lq~~Fe  471 (779)
                      ..|+.++|.|+..||....-++.++..|...+.
T Consensus       257 ~~~~~q~l~g~c~v~~~~~yi~~~p~~ls~~dv  289 (629)
T KOG1827|consen  257 RDDLVQRLLGKCYVMKPTEYISGDPENLSEEDV  289 (629)
T ss_pred             cccHHHHhhcceEEeehhHhhhcCcccccccce
Confidence            999999999999999999999999988866443

>KOG1827|consensus

Probab=99.04  E-value=2.9e-10  Score=130.26  Aligned_cols=90  Identities=21%  Similarity=0.334  Sum_probs=81.4

Q ss_pred             HHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccCCCCChHHHHH
Q psy14234        384 LFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMA  463 (779)
Q Consensus       384 l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN~~~s~v~~~A  463 (779)
                      ++...+..+...|.+..+...  .++||.+|..||+|..|++|+..+.|.+.+.|..|++|||.||+.||.+++.+|+++
T Consensus        67 ~~d~~gk~~~d~feklp~~~~--~p~yy~~i~~pisl~~ik~kv~k~~y~~~~~f~~D~~lm~ena~~~n~~ds~~~~~s  144 (629)
T KOG1827|consen   67 LKDDEGKQLFDKFEKLPSRKE--FPEYYYVIQQPISLDQIKRKVKKGRYKRLSFFQLDFLLMTENARLYNRPDSLIYKDS  144 (629)
T ss_pred             hccccCcccchhHhhcccccc--CCCcceeecCcccHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhcCcchhhhhhh
Confidence            334445567888988887766  799999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy14234        464 RQLSAVFEDRFA  475 (779)
Q Consensus       464 ~~Lq~~Fe~~~~  475 (779)
                      ..|+..|..+..
T Consensus       145 ~~l~~~~~~~~~  156 (629)
T KOG1827|consen  145 GELEKYFISLED  156 (629)
T ss_pred             hhhhcchhhhhc
Confidence            999999998664

>cd05491 Bromo_TBP7_like Bromodomain; TBP7_like subfamily, limited to fungi

Probab=98.96  E-value=4.1e-10  Score=103.44  Aligned_cols=42  Identities=26%  Similarity=0.468  Sum_probs=39.8

Q ss_pred             CCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccCCCCC
Q psy14234        416 KPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDH  457 (779)
Q Consensus       416 ~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN~~~s  457 (779)
                      .||||+||++||.+|.|.++.+|++||+|||.||++||.++.
T Consensus        63 y~MDL~tIe~RL~ng~Y~tp~~F~~DiklI~~Nc~~ynd~dr  104 (119)
T cd05491          63 YNMDLDTIEERLWNGYYATPKDFLKDIKRIVRDAKTIGDRER  104 (119)
T ss_pred             eccCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCHHH
Confidence            589999999999999999999999999999999999998743

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.

>cd05491 Bromo_TBP7_like Bromodomain; TBP7_like subfamily, limited to fungi

Probab=98.91  E-value=1.8e-09  Score=99.26  Aligned_cols=41  Identities=29%  Similarity=0.447  Sum_probs=39.3

Q ss_pred             CCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCC
Q psy14234        165 QPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPG  205 (779)
Q Consensus       165 ~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~  205 (779)
                      .||||+||++||.+|+|.++.+|+.||+|||.||+.||.++
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            68999999999999999999999999999999999999763

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=98.90  E-value=1.8e-09  Score=130.55  Aligned_cols=107  Identities=26%  Similarity=0.398  Sum_probs=98.8

Q ss_pred             HHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhC
Q psy14234        123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYN  202 (779)
Q Consensus       123 ~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN  202 (779)
                      +.++.+|..+++.|...+-...|..|||..  ++|||+++|++||||.||+.+++.+.|.++++|.+|+.+|+.||+.||
T Consensus       564 ~p~~kLl~~~l~~lq~kD~~gif~~pvd~~--e~pdy~~iik~pmd~~t~~~kl~s~~y~tle~ieed~~l~~~nc~~yn  641 (1051)
T KOG0955|consen  564 NPFKKLLQKSLDKLQKKDSYGIFAEPVDPS--ELPDYIDIIKKPMDFFTMRLKLESGAYSTLEPIEEDVNLIVSNCMEYN  641 (1051)
T ss_pred             chHHHHHHHHHHHhhcccccCceeeccChh--hcccHHHHhcCccchhhhhhhccccchhhhhHHHHhHhHhHhHHHHhh
Confidence            456677888899999999999999999987  799999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHhCCCCccc
Q psy14234        203 KPGEDVVLMAQNLEQLFLTKITGMPSEEV  231 (779)
Q Consensus       203 ~~~s~i~~~A~~Le~~f~~~~~~~~~~e~  231 (779)
                      ..+..+|..|..++......+.....+..
T Consensus       642 ~~dtv~~r~av~~~e~~~~~~~~arke~e  670 (1051)
T KOG0955|consen  642 AKDTVYYRAAVRLRELIKKDFRNARKEPE  670 (1051)
T ss_pred             ccCeehHhhhHHHHhhhhhHHHhcccchh
Confidence            99999999999999999888887766544

>KOG0955|consensus

Probab=98.86  E-value=3.3e-09  Score=128.42  Aligned_cols=106  Identities=35%  Similarity=0.518  Sum_probs=92.8

Q ss_pred             HHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcc
Q psy14234        372 LWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYK  451 (779)
Q Consensus       372 ~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~  451 (779)
                      ...+.++.+|..|....-   ...|..|||...  +|||+++|++||||.||+.+++++.|.++++|.+|+.||..||+.
T Consensus       565 p~~kLl~~~l~~lq~kD~---~gif~~pvd~~e--~pdy~~iik~pmd~~t~~~kl~s~~y~tle~ieed~~l~~~nc~~  639 (1051)
T KOG0955|consen  565 PFKKLLQKSLDKLQKKDS---YGIFAEPVDPSE--LPDYIDIIKKPMDFFTMRLKLESGAYSTLEPIEEDVNLIVSNCME  639 (1051)
T ss_pred             hHHHHHHHHHHHhhcccc---cCceeeccChhh--cccHHHHhcCccchhhhhhhccccchhhhhHHHHhHhHhHhHHHH
Confidence            344556677777766543   456999999987  899999999999999999999999999999999999999999999


Q ss_pred             cCCCCChHHHHHHHHHHHHHHHHhcCCCchh
Q psy14234        452 YNPPDHNVVTMARQLSAVFEDRFAKMPDESN  482 (779)
Q Consensus       452 yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~~~  482 (779)
                      ||..+..+|..|..|++.-...+.....+.+
T Consensus       640 yn~~dtv~~r~av~~~e~~~~~~~~arke~e  670 (1051)
T KOG0955|consen  640 YNAKDTVYYRAAVRLRELIKKDFRNARKEPE  670 (1051)
T ss_pred             hhccCeehHhhhHHHHhhhhhHHHhcccchh
Confidence            9999999999999999999988887766543

>KOG0386|consensus

Probab=98.75  E-value=1.1e-08  Score=120.82  Aligned_cols=99  Identities=28%  Similarity=0.387  Sum_probs=87.3

Q ss_pred             HHHHHHHHHHc------CCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        128 IVKNVMKAVWK------HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       128 ~~~~il~~L~~------~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      .|..|+....+      +..+..|...+...  .+||||.||+.||++..|+++|.++.|.+..+...||.+||.||++|
T Consensus      1028 ~~~~i~~~~~~~~~~~~r~~~~~~~~~~s~k--~~~d~~~~i~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~na~~~ 1105 (1157)
T KOG0386|consen 1028 QALKIASTSIKYKDSAGRELSEVFLKLPSRK--EYPDYYEIIKKPVAIDKIKKRIENHKYNSLKELEKDFMLLFNNARTY 1105 (1157)
T ss_pred             HHHHHHHHHHhcccccccccchhcccCcccc--cccchHHHhcchhhHHHHhhhccccccchHHHHHHHHHhhcchhhhh
Confidence            45556655554      34577898877744  79999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHhCCCC
Q psy14234        202 NKPGEDVVLMAQNLEQLFLTKITGMPS  228 (779)
Q Consensus       202 N~~~s~i~~~A~~Le~~f~~~~~~~~~  228 (779)
                      |..||.||.+|..|+.+|......+..
T Consensus      1106 ~~egs~~y~d~~~l~~~~~~~~~~~~~ 1132 (1157)
T KOG0386|consen 1106 NEEGSRVYEDAIVLQSVFKSARQEISK 1132 (1157)
T ss_pred             ccCCceechhHHHHHHHHhhhHHHHhc
Confidence            999999999999999999998888764

>KOG0386|consensus

Probab=98.74  E-value=1.3e-08  Score=120.09  Aligned_cols=103  Identities=26%  Similarity=0.449  Sum_probs=91.8

Q ss_pred             HHHHHHHHHHHhccC---CCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcc
Q psy14234        375 KYCSEIIAELFHKKH---QNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYK  451 (779)
Q Consensus       375 k~c~~iL~~l~~~k~---~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~  451 (779)
                      +.|..|+.....+.+   +.....|........  +||||+||+.||++..|+++|.++.|.+..+...||.++|.||+.
T Consensus      1027 ~~~~~i~~~~~~~~~~~~r~~~~~~~~~~s~k~--~~d~~~~i~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~na~~ 1104 (1157)
T KOG0386|consen 1027 KQALKIASTSIKYKDSAGRELSEVFLKLPSRKE--YPDYYEIIKKPVAIDKIKKRIENHKYNSLKELEKDFMLLFNNART 1104 (1157)
T ss_pred             HHHHHHHHHHHhcccccccccchhcccCccccc--ccchHHHhcchhhHHHHhhhccccccchHHHHHHHHHhhcchhhh
Confidence            568888877776554   346678888776665  899999999999999999999999999999999999999999999


Q ss_pred             cCCCCChHHHHHHHHHHHHHHHHhcCCC
Q psy14234        452 YNPPDHNVVTMARQLSAVFEDRFAKMPD  479 (779)
Q Consensus       452 yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~  479 (779)
                      ||..||.||.+|..|+.+|......|..
T Consensus      1105 ~~~egs~~y~d~~~l~~~~~~~~~~~~~ 1132 (1157)
T KOG0386|consen 1105 YNEEGSRVYEDAIVLQSVFKSARQEISK 1132 (1157)
T ss_pred             hccCCceechhHHHHHHHHhhhHHHHhc
Confidence            9999999999999999999999888754

>KOG1828|consensus

Probab=97.83  E-value=1.2e-05  Score=86.87  Aligned_cols=89  Identities=16%  Similarity=0.029  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCC
Q psy14234        126 QYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPG  205 (779)
Q Consensus       126 ~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~  205 (779)
                      +.++...++.|.+-.....|..++-..  ..|.|..+|++|+|++|++.+..++.|.| -+|..|+.+||.||++||.+.
T Consensus       210 ~~l~~~q~~kl~~~~p~~~lnyg~tas--~aP~YSm~Ik~~~~~~Tygdk~~andy~S-~~f~~D~kl~~l~amT~gehs  286 (418)
T KOG1828|consen  210 QQLQTLQEDKLNRVDPVAYLNYGPTAS--FAPGYSMTITEVEPPGTYGDKSSANDYES-LSFTQDRKLIALKAVTNGEHS  286 (418)
T ss_pred             HHHHHHHHHHhcccCchhhhcccchhh--hcccccccccccCCCcchhhhhhhhhhhh-hhhhcccchhhHHHHhcCCcc
Confidence            344445567777777788888888865  68999999999999999999999999999 899999999999999999999


Q ss_pred             CHHHHHHHHHHH
Q psy14234        206 EDVVLMAQNLEQ  217 (779)
Q Consensus       206 s~i~~~A~~Le~  217 (779)
                      ..+|..|+.+..
T Consensus       287 k~yyelank~lh  298 (418)
T KOG1828|consen  287 KSYYELANKQLH  298 (418)
T ss_pred             hHHHHHHHhhhh
Confidence            999999887765

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

Probab=95.43  E-value=0.02  Score=54.39  Aligned_cols=65  Identities=18%  Similarity=0.260  Sum_probs=51.6

Q ss_pred             CCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccCCCCChHHHHHHHHHHHHHHHHhcCCCch
Q psy14234        417 PMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDES  481 (779)
Q Consensus       417 PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~~  481 (779)
                      |.||.-|++||+.|.|+++.+|.+||-.|+.-++.-.+...++-+....+.-+|-+.+..+-...
T Consensus        59 p~dL~~V~kkl~~G~Y~sv~~F~~DvvkIiqa~l~~e~~~pe~~ka~s~~Ksf~ik~me~vf~Wf  123 (131)
T cd05493          59 PLDLEAVGKKLEAGFYTSVLDFSDDIVKIIQAALNSEGGQPEIKKANSMAKSFFIKLMESVFPWF  123 (131)
T ss_pred             cccHHHHHHHHhccceehHHHHHHHHHHHHHHHHhhccCCccccCcchHHHHHHHHHHHHhcccc
Confidence            88999999999999999999999999999999887666555554444455566777777665544

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=95.43  E-value=0.024  Score=53.85  Aligned_cols=65  Identities=15%  Similarity=0.228  Sum_probs=50.5

Q ss_pred             CCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCcc
Q psy14234        166 PMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE  230 (779)
Q Consensus       166 PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~~e  230 (779)
                      |-||.-|++||+.|.|.++.+|..||..|+.-++.=-+....+-+.-..+.-+|.+.|..+....
T Consensus        59 p~dL~~V~kkl~~G~Y~sv~~F~~DvvkIiqa~l~~e~~~pe~~ka~s~~Ksf~ik~me~vf~Wf  123 (131)
T cd05493          59 PLDLEAVGKKLEAGFYTSVLDFSDDIVKIIQAALNSEGGQPEIKKANSMAKSFFIKLMESVFPWF  123 (131)
T ss_pred             cccHHHHHHHHhccceehHHHHHHHHHHHHHHHHhhccCCccccCcchHHHHHHHHHHHHhcccc
Confidence            88999999999999999999999999999987765544434444444455667888888776543

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=92.74  E-value=0.1  Score=61.99  Aligned_cols=61  Identities=28%  Similarity=0.461  Sum_probs=53.5

Q ss_pred             cCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCCHHHHHHHHHHHHHHHHH
Q psy14234        163 ITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI  223 (779)
Q Consensus       163 Ik~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~s~i~~~A~~Le~~f~~~~  223 (779)
                      ..-|..|..|..||++++|++.+.|..|+..|..||.+|.+.+--+...+..|...|...+
T Consensus      1050 fpvpls~evi~~rlEn~yYrs~e~~~hdvs~mlsnae~~fg~~~~~~~ki~~l~~~~~~Tl 1110 (1113)
T KOG0644|consen 1050 FPVPLSLEVIRSRLENNYYRSQEALRHDVSVMLSNAETFFGRNKNVAIKISFLSPWFDRTL 1110 (1113)
T ss_pred             CCCcccHHHHHHHHHhhhhhhhHhhhcchhhhhcccceeecccccHHHHhhhcchhhhhhc
Confidence            5568899999999999999999999999999999999999988877777777777776554

>KOG0644|consensus

Probab=91.53  E-value=0.13  Score=61.21  Aligned_cols=62  Identities=23%  Similarity=0.437  Sum_probs=55.1

Q ss_pred             hcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcccCCCCChHHHHHHHHHHHHHHHHh
Q psy14234        414 IKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFA  475 (779)
Q Consensus       414 Ik~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~  475 (779)
                      ..-|+.|..|+.+|++++|++.+.|..||-.|.+||.+|..-+.-+...+..|..+|..-+.
T Consensus      1050 fpvpls~evi~~rlEn~yYrs~e~~~hdvs~mlsnae~~fg~~~~~~~ki~~l~~~~~~Tlp 1111 (1113)
T KOG0644|consen 1050 FPVPLSLEVIRSRLENNYYRSQEALRHDVSVMLSNAETFFGRNKNVAIKISFLSPWFDRTLP 1111 (1113)
T ss_pred             CCCcccHHHHHHHHHhhhhhhhHhhhcchhhhhcccceeecccccHHHHhhhcchhhhhhcc
Confidence            45689999999999999999999999999999999999999988777777888888876553

>KOG3116|consensus

Probab=87.71  E-value=0.48  Score=45.46  Aligned_cols=6  Identities=0%  Similarity=0.241  Sum_probs=2.8

Q ss_pred             hhcCCC
Q psy14234        716 VTSQID  721 (779)
Q Consensus       716 ~~g~~~  721 (779)
                      +.|..+
T Consensus        75 ~~g~~e   80 (177)
T KOG3116|consen   75 TNGKAE   80 (177)
T ss_pred             hcchhH
Confidence            455444

>PHA03308 transcriptional regulator ICP4; Provisional

Probab=83.21  E-value=0.82  Score=53.61  Aligned_cols=40  Identities=18%  Similarity=0.160  Sum_probs=20.7

Q ss_pred             HHHHHHHcCCCCCCCCCCCCccccCCCCchh-hcCCCCCHHHHHH
Q psy14234        131 NVMKAVWKHPHAWPFHEPVDAINLNLPDYHK-VITQPMDLGTIKK  174 (779)
Q Consensus       131 ~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~-iIk~PmDL~tIk~  174 (779)
                      .+|.+|-....-..|+.|..    .-||.|. .-+.|-.|-+-++
T Consensus       579 ~l~~a~~a~~~p~~~i~~~~----rr~dl~~a~~r~pk~~~twer  619 (1463)
T PHA03308        579 DLMAALTAIDCPPVTINPAK----RRPDLYQALSRAPKTVFTWER  619 (1463)
T ss_pred             HHHHhhhccCCCceeechhh----cChhHHHHHHhCchhhhhHhh
Confidence            35555555555566666433    2466444 3445555555443

>KOG0732|consensus

Probab=83.01  E-value=0.59  Score=58.16  Aligned_cols=64  Identities=19%  Similarity=0.212  Sum_probs=55.7

Q ss_pred             ccCccccCCcccc---CCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHH--HHHHhhhhhcccCCCC
Q psy14234        393 AWPFYTPVDVEKL---GLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFAD--DVRLIFSNCYKYNPPD  456 (779)
Q Consensus       393 a~pF~~PVd~~~~---~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~--Dv~Lmf~Na~~yN~~~  456 (779)
                      ...|..|+.....   .+.+|..+|+.+||+...-.++..+.|.++.+|..  +++|||.|++.||+..
T Consensus       533 ~~~~s~Pl~~~~~~ll~~~~~~~~iq~~~~va~~~~k~~e~~~~~v~~~e~~~~i~lic~~~lli~~~~  601 (1080)
T KOG0732|consen  533 SVIFSRPLSTYLKPLLPFQDALEDIQGLMDVASSMAKIEEHLKLLVRSFESNFAIRLICRPRLLINGGK  601 (1080)
T ss_pred             ccCCCCCCCcceecccchHHHHHHhhcchhHHhhhhhHHHHhHHHHHhhhcccchhhhcCcHHhcCCCc
Confidence            4567888775322   24599999999999999999999999999999999  9999999999999975

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	779
4a9e_A	154	N-Terminal Bromodomain Of Human Brd2 With 3-Methyl-		1e-47
4a9e_A	154	N-Terminal Bromodomain Of Human Brd2 With 3-Methyl-		3e-21
2ydw_A	153	Crystal Structure Of The First Bromodomain Of Human		1e-47
2ydw_A	153	Crystal Structure Of The First Bromodomain Of Human		3e-21
2yw5_A	138	Solution Structure Of The Bromodomain From Human Br		2e-47
2yw5_A	138	Solution Structure Of The Bromodomain From Human Br		9e-22
2l5e_A	128	Complex Between Bd1 Of Brd3 And Gata-1 C-Tail Lengt		2e-47
2l5e_A	128	Complex Between Bd1 Of Brd3 And Gata-1 C-Tail Lengt		8e-22
2nxb_A	123	Crystal Structure Of Human Bromodomain Containing P		7e-47
2nxb_A	123	Crystal Structure Of Human Bromodomain Containing P		1e-21
2oss_A	127	Crystal Structure Of The Bromo Domain 1 In Human Br		1e-46
2oss_A	127	Crystal Structure Of The Bromo Domain 1 In Human Br		1e-19
3jvj_A	131	Crystal Structure Of The Bromodomain 1 In Mouse Brd		1e-46
3jvj_A	131	Crystal Structure Of The Bromodomain 1 In Mouse Brd		8e-20
4hbw_A	127	Crystal Structure Of The First Bromodomain Of Human		1e-46
4hbw_A	127	Crystal Structure Of The First Bromodomain Of Human		1e-19
4don_A	145	Brd4 Bromodomain 1 Complex With A Fragment 3,4-dihy		2e-45
4don_A	145	Brd4 Bromodomain 1 Complex With A Fragment 3,4-dihy		3e-19
3aqa_A	128	Crystal Structure Of The Human Brd2 Bd1 Bromodomain		4e-42
3aqa_A	128	Crystal Structure Of The Human Brd2 Bd1 Bromodomain		4e-18
1x0j_A	122	Crystal Structure Analysis Of The N-Terminal Bromod		6e-42
1x0j_A	122	Crystal Structure Analysis Of The N-Terminal Bromod		8e-18
2rfj_A	119	Crystal Structure Of The Bromo Domain 1 In Human Br		1e-40
2rfj_A	119	Crystal Structure Of The Bromo Domain 1 In Human Br		6e-20
2ouo_A	130	Crystal Structure Of The Bromo Domain 2 In Human Br		6e-40
2lsp_B	128	Solution Structures Of Brd4 Second Bromodomain With		8e-40
2wp2_A	120	Structure Of Brdt Bromodomain Bd1 Bound To A Diacet		9e-40
2wp2_A	120	Structure Of Brdt Bromodomain Bd1 Bound To A Diacet		3e-19
3oni_A	114	Crystal Structure Of The Second Bromodomain Of Huma		2e-39
2dvv_A	112	Crystal Structure Of The Second Bromodomain Of The		3e-39
2g4a_A	116	Solution Structure Of A Bromodomain From Ring3 Prot		4e-39
3jvl_A	120	Crystal Structure Of Bromodomain 2 Of Mouse Brd4 Le		4e-38
2wp1_A	126	Structure Of Brdt Bromodomain 2 Bound To An Acetyla		6e-38
2i8n_A	114	Solution Structure Of The Second Bromodomain Of Brd		8e-37
2oo1_A	113	Crystal Structure Of The Bromo Domain 2 Of Human Br		5e-35
2e7n_A	117	Solution Structure Of The Second Bromodomain From H		2e-34
2dww_A	114	Crystal Structure Of Bromodomain-Containing Protein		7e-34
2jns_A	90	Solution Structure Of The Bromodomain-Containing Pr		4e-30
3gg3_A	119	Crystal Structure Of The Bromodomain Of Human Pcaf		7e-16
3gg3_A	119	Crystal Structure Of The Bromodomain Of Human Pcaf		5e-11
1n72_A	118	Structure And Ligand Of A Histone Acetyltransferase		9e-16
1n72_A	118	Structure And Ligand Of A Histone Acetyltransferase		5e-11
3uv2_A	126	Crystal Structure Of The Bromodomain Of Human Nucle		1e-14
3uv2_A	126	Crystal Structure Of The Bromodomain Of Human Nucle		2e-10
3qzs_A	115	Crystal Structure Of Bptf Bromo In Complex With His		1e-14
3qzs_A	115	Crystal Structure Of Bptf Bromo In Complex With His		1e-10
3qzt_A	115	Crystal Structure Of Bptf Bromo In Complex With His		2e-14
3qzt_A	115	Crystal Structure Of Bptf Bromo In Complex With His		2e-10
3qzv_A	174	Crystal Structure Of Bptf Phd-Linker-Bromo In Compl		3e-14
3qzv_A	174	Crystal Structure Of Bptf Phd-Linker-Bromo In Compl		9e-11
2ri7_A	174	Crystal Structure Of Phd Finger-Linker-Bromodomain		3e-14
2ri7_A	174	Crystal Structure Of Phd Finger-Linker-Bromodomain		1e-10
3d7c_A	112	Crystal Structure Of The Bromodomain Of Human Gcn5,		7e-14
3d7c_A	112	Crystal Structure Of The Bromodomain Of Human Gcn5,		7e-11
1f68_A	103	Nmr Solution Structure Of The Bromodomain From Huma		1e-13
1f68_A	103	Nmr Solution Structure Of The Bromodomain From Huma		8e-11
3i3j_A	124	Crystal Structure Of The Bromodomain Of Human Ep300		2e-13
1jsp_B	121	Nmr Structure Of Cbp Bromodomain In Complex With P5		4e-13
3dwy_A	119	Crystal Structure Of The Bromodomain Of Human Crebb		4e-13
2f6j_A	174	Crystal Structure Of Phd Finger-Linker-Bromodomain		6e-13
2f6j_A	174	Crystal Structure Of Phd Finger-Linker-Bromodomain		2e-09
1e6i_A	121	Bromodomain From Gcn5 Complexed With Acetylated H4		9e-13
3q2e_A	123	Crystal Structure Of The Second Bromodomain Of Huma		1e-12
3nxb_A	116	Crystal Structure Of The Bromodomain Of Human Cecr2		2e-12
3nxb_A	116	Crystal Structure Of The Bromodomain Of Human Cecr2		4e-09
3g0l_A	117	Crystal Structure Of Human Bromodomain Adjacent To		3e-11
3mb3_A	135	Crystal Structure Of The Second Bromodomain Of Plec		3e-11
2e7o_A	112	Solution Structure Of The Bromodomain From Human Br		4e-11
2yyn_A	135	Crystal Sturcture Of Human Bromodomain Protein Leng		2e-10
2yyn_A	135	Crystal Sturcture Of Human Bromodomain Protein Leng		3e-09
3o33_A	184	Crystal Structure Of Trim24 Phd-Bromo In The Free S		6e-10
3o33_A	184	Crystal Structure Of Trim24 Phd-Bromo In The Free S		6e-09
3aad_A	292	Structure Of The Histone Chaperone Cia/asf1-double		7e-10
1eqf_A	280	Crystal Structure Of The Double Bromodomain Module		9e-10
3uv5_A	265	Crystal Structure Of The Tandem Bromodomains Of Hum		1e-09
3uv4_A	158	Crystal Structure Of The Second Bromodomain Of Huma		1e-09
3hmh_A	155	Crystal Structure Of The Second Bromodomain Of Huma		1e-08
3lxj_A	136	Crystal Structure Of The Bromodomain Of Human Aaa D		2e-08
3rcw_A	135	Crystal Structure Of The Bromodomain Of Human Brd1		2e-07
3fkm_X	166	Plasmodium Falciparum Bromodomain-Containing Protei		2e-07
3u5m_A	207	Crystal Structure Of Trim33 Phd-Bromo In The Free S		2e-07
2ktb_B	121	Solution Structure Of The Second Bromodomain Of Hum		1e-06
2dkw_A	131	Solution Structure Of The Bromodomain Of Human Prot		1e-06
3ljw_A	120	Crystal Structure Of The Second Bromodomain Of Huma		1e-06
3hmf_A	116	Crystal Structure Of The Second Bromodomain Of Huma		2e-06
3tlp_A	150	Crystal Structure Of The Fourth Bromodomain Of Huma		2e-06
3tlp_A	150	Crystal Structure Of The Fourth Bromodomain Of Huma		7e-04
2d9e_A	121	Solution Structure Of The Bromodomain Of Peregrin L		1e-05
2i7k_A	117	Solution Structure Of The Bromodomain Of Human Brd7		2e-05
2i7k_A	117	Solution Structure Of The Bromodomain Of Human Brd7		3e-04
3dai_A	130	Crystal Structure Of The Bromodomain Of The Human A		3e-05
3hme_A	123	Crystal Structure Of Human Bromodomain Containing 9		6e-05
3hme_A	123	Crystal Structure Of Human Bromodomain Containing 9		1e-04
3g0j_A	124	Crystal Structure Of The Fifth Bromodomain Of Human		2e-04
3k2j_A	130	Crystal Structure Of The 3rd Bromodomain Of Human P		2e-04
2yqd_A	120	Solution Structure Of The Fifth Bromodomain From Mo		2e-04

>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 =  188 bits (477), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 79/114 (69%), Positives = 95/114 (83%)
Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRL 176
           +PGR TNQLQY+ K VMKA+WKH  AWPF +PVDA+ L LPDYHK+I QPMD+GTIK+RL
Sbjct: 25  KPGRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRL 84
Query: 177 ENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
           ENNYYW+  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP EE
Sbjct: 85  ENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQEE 138

>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 =  100 bits (249), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 45/93 (48%), Positives = 60/93 (64%), Gaps = 1/93 (1%)
Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           KHQ +AWPF  PVD  KLGL DY  IIK+PMD+GT+++++ N  Y  A E   D   +F+
Sbjct: 46  KHQ-FAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFT 104
Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           NCY YN P  ++V MA+ L  +F  + A MP E
Sbjct: 105 NCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQE 137

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

Iteration: 1
 Score =  187 bits (476), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 79/114 (69%), Positives = 95/114 (83%)
Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRL 176
           +PGR TNQLQY+ K VMKA+WKH  AWPF +PVDA+ L LPDYHK+I QPMD+GTIK+RL
Sbjct: 25  KPGRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRL 84
Query: 177 ENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
           ENNYYW+  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP EE
Sbjct: 85  ENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQEE 138

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

Iteration: 1
 Score =  100 bits (249), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 45/93 (48%), Positives = 60/93 (64%), Gaps = 1/93 (1%)
Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           KHQ +AWPF  PVD  KLGL DY  IIK+PMD+GT+++++ N  Y  A E   D   +F+
Sbjct: 46  KHQ-FAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFT 104
Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           NCY YN P  ++V MA+ L  +F  + A MP E
Sbjct: 105 NCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQE 137

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

Iteration: 1
 Score =  187 bits (475), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 81/117 (69%), Positives = 96/117 (82%)
Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRL 176
           +PGR TNQLQY+   V+K +WKH  AWPF++PVDAI LNLPDYHK+I  PMD+GTIKKRL
Sbjct: 14  KPGRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRL 73
Query: 177 ENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVL 233
           ENNYYWS  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP EEV L
Sbjct: 74  ENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALEKIFLQKVAQMPQEEVEL 130

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

Iteration: 1
 Score =  102 bits (254), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 46/93 (49%), Positives = 61/93 (65%), Gaps = 1/93 (1%)
Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           KHQ +AWPFY PVD  KL L DY  IIK PMD+GT++K++ N  Y +A E   D   +F+
Sbjct: 35  KHQ-FAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFT 93
Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           NCY YN P  ++V MA+ L  +F  + A+MP E
Sbjct: 94  NCYIYNKPTDDIVLMAQALEKIFLQKVAQMPQE 126

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

Iteration: 1
 Score =  187 bits (475), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 81/117 (69%), Positives = 96/117 (82%)
Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRL 176
           +PGR TNQLQY+   V+K +WKH  AWPF++PVDAI LNLPDYHK+I  PMD+GTIKKRL
Sbjct: 12  KPGRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRL 71
Query: 177 ENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVL 233
           ENNYYWS  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP EEV L
Sbjct: 72  ENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALEKIFLQKVAQMPQEEVEL 128

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

Iteration: 1
 Score =  102 bits (254), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 46/93 (49%), Positives = 61/93 (65%), Gaps = 1/93 (1%)
Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           KHQ +AWPFY PVD  KL L DY  IIK PMD+GT++K++ N  Y +A E   D   +F+
Sbjct: 33  KHQ-FAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFT 91
Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           NCY YN P  ++V MA+ L  +F  + A+MP E
Sbjct: 92  NCYIYNKPTDDIVLMAQALEKIFLQKVAQMPQE 124

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

Iteration: 1
 Score =  185 bits (470), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 79/114 (69%), Positives = 94/114 (82%)
Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRL 176
           +PGR TNQLQY+   V+K +WKH  AWPF++PVDAI LNLPDYHK+I  PMD+GTIKKRL
Sbjct: 10  KPGRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRL 69
Query: 177 ENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
           ENNYYWS  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP EE
Sbjct: 70  ENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALEKIFLQKVAQMPQEE 123

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

Iteration: 1
 Score =  102 bits (253), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 46/93 (49%), Positives = 61/93 (65%), Gaps = 1/93 (1%)
Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           KHQ +AWPFY PVD  KL L DY  IIK PMD+GT++K++ N  Y +A E   D   +F+
Sbjct: 31  KHQ-FAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFT 89
Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           NCY YN P  ++V MA+ L  +F  + A+MP E
Sbjct: 90  NCYIYNKPTDDIVLMAQALEKIFLQKVAQMPQE 122

>pdb|2OSS|A Chain A, Crystal Structure Of The Bromo Domain 1 In Human Bromodomain Containing Protein 4 (Brd4) Length = 127

Iteration: 1
 Score =  185 bits (469), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 79/122 (64%), Positives = 100/122 (81%)
Query: 109 PPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMD 168
           PP     ++P R TNQLQY+++ V+K +WKH  AWPF +PVDA+ LNLPDY+K+I  PMD
Sbjct: 6   PPETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMD 65
Query: 169 LGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
           +GTIKKRLENNYYW+ +E IQDF TMFTNCY+YNKPG+D+VLMA+ LE+LFL KI  +P+
Sbjct: 66  MGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELPT 125
Query: 229 EE 230
           EE
Sbjct: 126 EE 127

>pdb|2OSS|A Chain A, Crystal Structure Of The Bromo Domain 1 In Human Bromodomain Containing Protein 4 (Brd4) Length = 127

Iteration: 1
 Score = 95.5 bits (236), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 43/93 (46%), Positives = 59/93 (63%), Gaps = 1/93 (1%)
Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           KHQ +AWPF  PVD  KL L DY+ IIK PMD+GT++K++ N  Y  A+E   D   +F+
Sbjct: 35  KHQ-FAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFT 93
Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           NCY YN P  ++V MA  L  +F  +  ++P E
Sbjct: 94  NCYIYNKPGDDIVLMAEALEKLFLQKINELPTE 126

>pdb|3JVJ|A Chain A, Crystal Structure Of The Bromodomain 1 In Mouse Brd4 Length = 131

Iteration: 1
 Score =  184 bits (468), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 79/122 (64%), Positives = 100/122 (81%)
Query: 109 PPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMD 168
           PP     ++P R TNQLQY+++ V+K +WKH  AWPF +PVDA+ LNLPDY+K+I  PMD
Sbjct: 10  PPETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMD 69
Query: 169 LGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
           +GTIKKRLENNYYW+ +E IQDF TMFTNCY+YNKPG+D+VLMA+ LE+LFL KI  +P+
Sbjct: 70  MGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELPT 129
Query: 229 EE 230
           EE
Sbjct: 130 EE 131

>pdb|3JVJ|A Chain A, Crystal Structure Of The Bromodomain 1 In Mouse Brd4 Length = 131

Iteration: 1
 Score = 95.9 bits (237), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 43/93 (46%), Positives = 59/93 (63%), Gaps = 1/93 (1%)
Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           KHQ +AWPF  PVD  KL L DY+ IIK PMD+GT++K++ N  Y  A+E   D   +F+
Sbjct: 39  KHQ-FAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFT 97
Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           NCY YN P  ++V MA  L  +F  +  ++P E
Sbjct: 98  NCYIYNKPGDDIVLMAEALEKLFLQKINELPTE 130

>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 =  184 bits (468), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 79/122 (64%), Positives = 100/122 (81%)
Query: 109 PPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMD 168
           PP     ++P R TNQLQY+++ V+K +WKH  AWPF +PVDA+ LNLPDY+K+I  PMD
Sbjct: 6   PPETSNPNKPKRETNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMD 65
Query: 169 LGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
           +GTIKKRLENNYYW+ +E IQDF TMFTNCY+YNKPG+D+VLMA+ LE+LFL KI  +P+
Sbjct: 66  MGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELPT 125
Query: 229 EE 230
           EE
Sbjct: 126 EE 127

>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 = 95.5 bits (236), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 43/93 (46%), Positives = 59/93 (63%), Gaps = 1/93 (1%)
Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           KHQ +AWPF  PVD  KL L DY+ IIK PMD+GT++K++ N  Y  A+E   D   +F+
Sbjct: 35  KHQ-FAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFT 93
Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           NCY YN P  ++V MA  L  +F  +  ++P E
Sbjct: 94  NCYIYNKPGDDIVLMAEALEKLFLQKINELPTE 126

>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 =  181 bits (458), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 77/120 (64%), Positives = 98/120 (81%)
Query: 109 PPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMD 168
           PP     ++P R TNQLQY+++ V+K +WKH  AWPF +PVDA+ LNLPDY+K+I  PMD
Sbjct: 26  PPETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMD 85
Query: 169 LGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
           +GTIKKRLENNYYW+ +E IQDF TMFTNCY+YNKPG+D+VLMA+ LE+LFL KI  +P+
Sbjct: 86  MGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELPT 145

>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 = 94.0 bits (232), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 42/91 (46%), Positives = 58/91 (63%), Gaps = 1/91 (1%)
Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           KHQ +AWPF  PVD  KL L DY+ IIK PMD+GT++K++ N  Y  A+E   D   +F+
Sbjct: 55  KHQ-FAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFT 113
Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMP 478
           NCY YN P  ++V MA  L  +F  +  ++P
Sbjct: 114 NCYIYNKPGDDIVLMAEALEKLFLQKINELP 144

>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 =  169 bits (429), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 73/112 (65%), Positives = 86/112 (76%)
Query: 119 GRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLEN 178
           GR TNQLQY+ K V KA+WKH  AWPF +PVDA+ L LPDYHK+I QP D GTIK+RLEN
Sbjct: 7   GRVTNQLQYLHKVVXKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLEN 66
Query: 179 NYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
           NYYW+  E  QDF T FTNCY+YNKP +D+VL AQ LE++FL K+   P EE
Sbjct: 67  NYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTLEKIFLQKVASXPQEE 118

>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 = 90.1 bits (222), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 42/93 (45%), Positives = 55/93 (59%), Gaps = 1/93 (1%)
Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           KHQ +AWPF  PVD  KLGL DY  IIK+P D GT+++++ N  Y  A E   D    F+
Sbjct: 26  KHQ-FAWPFRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFT 84
Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           NCY YN P  ++V  A+ L  +F  + A  P E
Sbjct: 85  NCYIYNKPTDDIVLXAQTLEKIFLQKVASXPQE 117

>pdb|1X0J|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain Of Human Brd2 Length = 122

Iteration: 1
 Score =  169 bits (427), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 73/112 (65%), Positives = 86/112 (76%)
Query: 119 GRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLEN 178
           GR TNQLQY+ K V KA+WKH  AWPF +PVDA+ L LPDYHK+I QP D GTIK+RLEN
Sbjct: 1   GRVTNQLQYLHKVVXKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLEN 60
Query: 179 NYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
           NYYW+  E  QDF T FTNCY+YNKP +D+VL AQ LE++FL K+   P EE
Sbjct: 61  NYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTLEKIFLQKVASXPQEE 112

>pdb|1X0J|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain Of Human Brd2 Length = 122

Iteration: 1
 Score = 89.0 bits (219), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 42/93 (45%), Positives = 55/93 (59%), Gaps = 1/93 (1%)
Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           KHQ +AWPF  PVD  KLGL DY  IIK+P D GT+++++ N  Y  A E   D    F+
Sbjct: 20  KHQ-FAWPFRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFT 78
Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           NCY YN P  ++V  A+ L  +F  + A  P E
Sbjct: 79  NCYIYNKPTDDIVLXAQTLEKIFLQKVASXPQE 111

>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 =  165 bits (417), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 71/112 (63%), Positives = 87/112 (77%)
Query: 119 GRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLEN 178
           GR TNQLQY+ K V+K +WKH  +WPF  PVDA+ L LPDY+ +I  PMDL TIKKRLEN
Sbjct: 8   GRLTNQLQYLQKVVLKDLWKHSFSWPFQRPVDAVKLQLPDYYTIIKNPMDLNTIKKRLEN 67
Query: 179 NYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
            YY    E I+DF TMF+NCY+YNKPG+D+VLMAQ LE+LF+ K++ MP EE
Sbjct: 68  KYYAKASECIEDFNTMFSNCYLYNKPGDDIVLMAQALEKLFMQKLSQMPQEE 119

>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 = 96.3 bits (238), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 43/93 (46%), Positives = 61/93 (65%), Gaps = 1/93 (1%)
Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           KH +++WPF  PVD  KL L DY+ IIK PMDL T++K++ N+ Y  A E  +D   +FS
Sbjct: 27  KH-SFSWPFQRPVDAVKLQLPDYYTIIKNPMDLNTIKKRLENKYYAKASECIEDFNTMFS 85
Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           NCY YN P  ++V MA+ L  +F  + ++MP E
Sbjct: 86  NCYLYNKPGDDIVLMAQALEKLFMQKLSQMPQE 118

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

Iteration: 1
 Score =  162 bits (410), Expect = 6e-40,   Method: Compositional matrix adjust.
 Identities = 72/106 (67%), Positives = 82/106 (77%)
Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
           K CS I+ E+F KKH  YAWPFY PVDVE LGL DY DIIK PMD+ T++ K+  R Y+ 
Sbjct: 25  KCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRD 84
Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           A+EF  DVRL+FSNCYKYNPPDH VV MAR+L  VFE RFAKMPDE
Sbjct: 85  AQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDE 130

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

Iteration: 1
 Score =  162 bits (409), Expect = 8e-40,   Method: Compositional matrix adjust.
 Identities = 72/106 (67%), Positives = 82/106 (77%)
Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
           K CS I+ E+F KKH  YAWPFY PVDVE LGL DY DIIK PMD+ T++ K+  R Y+ 
Sbjct: 23  KCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRD 82
Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           A+EF  DVRL+FSNCYKYNPPDH VV MAR+L  VFE RFAKMPDE
Sbjct: 83  AQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDE 128

>pdb|2WP2|A Chain A, Structure Of Brdt Bromodomain Bd1 Bound To A Diacetylated Histone H4 Peptide. Length = 120

Iteration: 1
 Score =  162 bits (409), Expect = 9e-40,   Method: Compositional matrix adjust.
 Identities = 68/114 (59%), Positives = 89/114 (78%)
Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRL 176
           + GR TNQLQ++ + V+KA+WKH  +WPF +PVDA+ L LPDY+ +I  PMDL TIKKRL
Sbjct: 7   KSGRLTNQLQFLQRVVLKALWKHGFSWPFQQPVDAVKLKLPDYYTIIKTPMDLNTIKKRL 66
Query: 177 ENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
           EN YY    E I+DF TMF+NCY+YNK G+D+V+MAQ LE+LF+ K++ MP EE
Sbjct: 67  ENKYYEKASECIEDFNTMFSNCYLYNKTGDDIVVMAQALEKLFMQKLSQMPQEE 120

>pdb|2WP2|A Chain A, Structure Of Brdt Bromodomain Bd1 Bound To A Diacetylated Histone H4 Peptide. Length = 120

Iteration: 1
 Score = 94.0 bits (232), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 42/93 (45%), Positives = 60/93 (64%), Gaps = 1/93 (1%)
Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS 447
           KH  ++WPF  PVD  KL L DY+ IIK PMDL T++K++ N+ Y+ A E  +D   +FS
Sbjct: 28  KH-GFSWPFQQPVDAVKLKLPDYYTIIKTPMDLNTIKKRLENKYYEKASECIEDFNTMFS 86
Query: 448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           NCY YN    ++V MA+ L  +F  + ++MP E
Sbjct: 87  NCYLYNKTGDDIVVMAQALEKLFMQKLSQMPQE 119

>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 =  160 bits (405), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 72/105 (68%), Positives = 83/105 (79%)
Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
           K+C+ I+ EL  KKH  YAWPFY PVD   LGL DY DIIK PMDL TV++KM NR Y+ 
Sbjct: 10  KHCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRD 69
Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPD 479
           A+EFA DVRL+FSNCYKYNPPDH+VV MAR+L  VFE R+AKMPD
Sbjct: 70  AQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKMPD 114

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

Iteration: 1
 Score =  160 bits (405), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 72/105 (68%), Positives = 83/105 (79%)
Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
           K+C+ I+ EL  KKH  YAWPFY PVD   LGL DY DIIK PMDL TV++KM NR Y+ 
Sbjct: 8   KHCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRD 67
Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPD 479
           A+EFA DVRL+FSNCYKYNPPDH+VV MAR+L  VFE R+AKMPD
Sbjct: 68  AQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKMPD 112

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

Iteration: 1
 Score =  160 bits (404), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 72/105 (68%), Positives = 83/105 (79%)
Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
           K+C+ I+ EL  KKH  YAWPFY PVD   LGL DY DIIK PMDL TV++KM NR Y+ 
Sbjct: 4   KHCNVILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRD 63
Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPD 479
           A+EFA DVRL+FSNCYKYNPPDH+VV MAR+L  VFE R+AKMPD
Sbjct: 64  AQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKMPD 108

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

Iteration: 1
 Score =  156 bits (395), Expect = 4e-38,   Method: Composition-based stats.
 Identities = 72/106 (67%), Positives = 83/106 (78%)
Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
           K CS I+ E+F KKH  YAWPFY PVDVE LGL DY DIIK PMD+ T++ K+ +R Y+ 
Sbjct: 12  KCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLESREYRD 71
Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           A+EF  DVRL+FSNCYKYNPPDH VV MAR+L  VFE RFAKMPDE
Sbjct: 72  AQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDE 117

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

Iteration: 1
 Score =  155 bits (393), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 69/106 (65%), Positives = 82/106 (77%)
Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
           K+CSEI+ E+  KKH  YAWPFY PVD + LGL +Y+D++K PMDLGT++ KM N+ YK 
Sbjct: 17  KHCSEILKEMLAKKHLPYAWPFYNPVDADALGLHNYYDVVKNPMDLGTIKGKMDNQEYKD 76
Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           A EFA DVRL+F NCYKYNPPDH VV MAR L  VFE  FAK+PDE
Sbjct: 77  AYEFAADVRLMFMNCYKYNPPDHEVVAMARTLQDVFELHFAKIPDE 122

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

Iteration: 1
 Score =  152 bits (383), Expect = 8e-37,   Method: Composition-based stats.
 Identities = 69/103 (66%), Positives = 79/103 (76%)
Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
           K CS I+ E+F KKH  YAWPFY PVDVE LGL DY DIIK PMD+ T++ K+  R Y+ 
Sbjct: 4   KCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRD 63
Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM 477
           A+EF  DVRL+FSNCYKYNPPDH VV MAR+L  VFE RFAKM
Sbjct: 64  AQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKM 106

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

Iteration: 1
 Score =  146 bits (368), Expect = 5e-35,   Method: Composition-based stats.
 Identities = 69/104 (66%), Positives = 77/104 (74%)
Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
           +YC  I+ E+  KKH  YAWPFY PVD E L L DY DIIK PMDL TV++KM  R Y  
Sbjct: 10  RYCDSILREMLSKKHAAYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKMDGREYPD 69
Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMP 478
           A+ FA DVRL+FSNCYKYNPPDH VV MAR+L  VFE RFAKMP
Sbjct: 70  AQGFAADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMP 113

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

Iteration: 1
 Score =  144 bits (363), Expect = 2e-34,   Method: Composition-based stats.
 Identities = 68/103 (66%), Positives = 76/103 (73%)
Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
           +YC  I+ E+  KKH  YAWPFY PVD E L L DY DIIK PMDL TV++KM  R Y  
Sbjct: 15  RYCDSILREMLSKKHAAYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKMDGREYPD 74
Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM 477
           A+ FA DVRL+FSNCYKYNPPDH VV MAR+L  VFE RFAKM
Sbjct: 75  AQGFAADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKM 117

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

Iteration: 1
 Score =  142 bits (358), Expect = 7e-34,   Method: Composition-based stats.
 Identities = 68/105 (64%), Positives = 76/105 (72%)
Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
           K CS I+ E F KKH  YAWPFY PVDVE LGL DY DIIK P D  T++ K+ +R Y+ 
Sbjct: 10  KCCSGILKEXFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPXDXSTIKSKLESREYRD 69
Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPD 479
           A+EF  DVRL FSNCYKYNPPDH VV  AR+L  VFE RFAK PD
Sbjct: 70  AQEFGADVRLXFSNCYKYNPPDHEVVAXARKLQDVFEXRFAKXPD 114

>pdb|2JNS|A Chain A, Solution Structure Of The Bromodomain-Containing Protein 4 Et Domain Length = 90

Iteration: 1
 Score =  130 bits (326), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 61/71 (85%), Positives = 67/71 (94%)
Query: 616 DVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTL 675
           D  KPMSY+EKRQLSLDINKLPG+KLG+VVHIIQSREPSL+  NPDEIEIDFETLKPSTL
Sbjct: 13  DKCKPMSYEEKRQLSLDINKLPGEKLGRVVHIIQSREPSLKNSNPDEIEIDFETLKPSTL 72
Query: 676 RELEQYVSSCL 686
           RELE+YV+SCL
Sbjct: 73  RELERYVTSCL 83

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

Iteration: 1
 Score = 82.8 bits (203), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 44/109 (40%), Positives = 62/109 (56%), Gaps = 2/109 (1%)
Query: 115 KHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKK 174
           K +  R+ +QL   +K++++ V  H  AWPF EPV       P Y++VI  PMDL T+ +
Sbjct: 6   KSKEPRDPDQLYSTLKSILQQVKSHQSAWPFMEPVK--RTEAPGYYEVIRFPMDLKTMSE 63
Query: 175 RLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI 223
           RL+N YY S K  + D   +FTNC  YN P  +    A  LE+ F +KI
Sbjct: 64  RLKNRYYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKI 112

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

Iteration: 1
 Score = 66.6 bits (161), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 32/84 (38%), Positives = 51/84 (60%), Gaps = 3/84 (3%)
Query: 387 KKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIF 446
           K HQ+ AWPF  PV  ++     Y+++I+ PMDL T+ ++++NR Y + K F  D++ +F
Sbjct: 28  KSHQS-AWPFMEPV--KRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVF 84
Query: 447 SNCYKYNPPDHNVVTMARQLSAVF 470
           +NC +YNPP+      A  L   F
Sbjct: 85  TNCKEYNPPESEYYKCANILEKFF 108

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

Iteration: 1
 Score = 82.4 bits (202), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 43/104 (41%), Positives = 60/104 (57%), Gaps = 2/104 (1%)
Query: 120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENN 179
           R+ +QL   +K++++ V  H  AWPF EPV       P Y++VI  PMDL T+ +RL+N 
Sbjct: 9   RDPDQLYSTLKSILQQVKSHQSAWPFMEPVK--RTEAPGYYEVIRFPMDLKTMSERLKNR 66
Query: 180 YYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI 223
           YY S K  + D   +FTNC  YN P  +    A  LE+ F +KI
Sbjct: 67  YYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKI 110

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

Iteration: 1
 Score = 66.6 bits (161), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 32/84 (38%), Positives = 51/84 (60%), Gaps = 3/84 (3%)
Query: 387 KKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIF 446
           K HQ+ AWPF  PV  ++     Y+++I+ PMDL T+ ++++NR Y + K F  D++ +F
Sbjct: 26  KSHQS-AWPFMEPV--KRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVF 82
Query: 447 SNCYKYNPPDHNVVTMARQLSAVF 470
           +NC +YNPP+      A  L   F
Sbjct: 83  TNCKEYNPPESEYYKCANILEKFF 106

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

Iteration: 1
 Score = 79.0 bits (193), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 38/98 (38%), Positives = 56/98 (57%), Gaps = 2/98 (2%)
Query: 129 VKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAI 188
           +K V++++  H  AWPF EPVD  +   PDY+ VI +PMDL T+++R++  YY    E +
Sbjct: 25  LKRVLRSLQAHKMAWPFLEPVDPNDA--PDYYGVIKEPMDLATMEERVQRRYYEKLTEFV 82
Query: 189 QDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGM 226
            D T +F NC  YN         A+ LE  F+ K+ G 
Sbjct: 83  ADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGF 120

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

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 32/78 (41%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           AWPF  PVD       DY+ +IK+PMDL T+ ++++ R Y+   EF  D+  IF NC  Y
Sbjct: 38  AWPFLEPVDPN--DAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYY 95
Query: 453 NPPDHNVVTMARQLSAVF 470
           NP D      A  L + F
Sbjct: 96  NPSDSPFYQCAEVLESFF 113

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

Iteration: 1
 Score = 78.6 bits (192), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 38/98 (38%), Positives = 56/98 (57%), Gaps = 2/98 (2%)
Query: 129 VKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAI 188
           +K V++++  H  AWPF EPVD  +   PDY+ VI +PMDL T+++R++  YY    E +
Sbjct: 18  LKRVLRSLQAHKMAWPFLEPVDPNDA--PDYYGVIKEPMDLATMEERVQRRYYEKLTEFV 75
Query: 189 QDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGM 226
            D T +F NC  YN         A+ LE  F+ K+ G 
Sbjct: 76  ADMTAIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGF 113

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

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/78 (41%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           AWPF  PVD       DY+ +IK+PMDL T+ ++++ R Y+   EF  D+  IF NC  Y
Sbjct: 31  AWPFLEPVDPNDA--PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTAIFDNCRYY 88
Query: 453 NPPDHNVVTMARQLSAVF 470
           NP D      A  L + F
Sbjct: 89  NPSDSPFYQCAEVLESFF 106

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

Iteration: 1
 Score = 78.2 bits (191), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 38/98 (38%), Positives = 56/98 (57%), Gaps = 2/98 (2%)
Query: 129 VKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAI 188
           +K V++++  H  AWPF EPVD  +   PDY+ VI +PMDL T+++R++  YY    E +
Sbjct: 18  LKRVLRSLQAHKMAWPFLEPVDPNDA--PDYYGVIKEPMDLATMEERVQRRYYEKLTEFV 75
Query: 189 QDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGM 226
            D T +F NC  YN         A+ LE  F+ K+ G 
Sbjct: 76  ADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGF 113

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

Iteration: 1
 Score = 64.3 bits (155), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 32/78 (41%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           AWPF  PVD       DY+ +IK+PMDL T+ ++++ R Y+   EF  D+  IF NC  Y
Sbjct: 31  AWPFLEPVDPNDA--PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYY 88
Query: 453 NPPDHNVVTMARQLSAVF 470
           NP D      A  L + F
Sbjct: 89  NPSDSPFYQCAEVLESFF 106

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

Iteration: 1
 Score = 77.4 bits (189), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 38/100 (38%), Positives = 57/100 (57%), Gaps = 2/100 (2%)
Query: 129 VKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAI 188
           +K V++++  H  AWPF EPVD  +   PDY+ VI +PMDL T+++R++  YY    E +
Sbjct: 77  LKRVLRSLQAHKMAWPFLEPVDPNDA--PDYYGVIKEPMDLATMEERVQRRYYEKLTEFV 134
Query: 189 QDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
            D T +F NC  YN         A+ LE  F+ K+ G  +
Sbjct: 135 ADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGFKA 174

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

Iteration: 1
 Score = 65.9 bits (159), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 32/78 (41%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           AWPF  PVD       DY+ +IK+PMDL T+ ++++ R Y+   EF  D+  IF NC  Y
Sbjct: 90  AWPFLEPVDPNDA--PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYY 147
Query: 453 NPPDHNVVTMARQLSAVF 470
           NP D      A  L + F
Sbjct: 148 NPSDSPFYQCAEVLESFF 165

>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 = 77.0 bits (188), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 38/100 (38%), Positives = 57/100 (57%), Gaps = 2/100 (2%)
Query: 129 VKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAI 188
           +K V++++  H  AWPF EPVD  +   PDY+ VI +PMDL T+++R++  YY    E +
Sbjct: 77  LKRVLRSLQAHKMAWPFLEPVDPNDA--PDYYGVIKEPMDLATMEERVQRRYYEKLTEFV 134
Query: 189 QDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
            D T +F NC  YN         A+ LE  F+ K+ G  +
Sbjct: 135 ADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGFKA 174

>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 = 65.5 bits (158), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 32/78 (41%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           AWPF  PVD       DY+ +IK+PMDL T+ ++++ R Y+   EF  D+  IF NC  Y
Sbjct: 90  AWPFLEPVDPNDA--PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYY 147
Query: 453 NPPDHNVVTMARQLSAVF 470
           NP D      A  L + F
Sbjct: 148 NPSDSPFYQCAEVLESFF 165

>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 = 75.9 bits (185), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 38/101 (37%), Positives = 55/101 (54%), Gaps = 2/101 (1%)
Query: 123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYW 182
           +QL   +KN++  +  HP AWPF EPV       PDY++VI  P+DL T+ +RL + YY 
Sbjct: 6   DQLYTTLKNLLAQIKSHPSAWPFMEPVK--KSEAPDYYEVIRFPIDLKTMTERLRSRYYV 63
Query: 183 SGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI 223
           + K  + D   +  NC  YN P  +    A  LE+ F  K+
Sbjct: 64  TRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFKL 104

>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 = 66.2 bits (160), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 31/78 (39%), Positives = 47/78 (60%), Gaps = 2/78 (2%)
Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           AWPF  PV  +K    DY+++I+ P+DL T+ +++R+R Y T K F  D++ + +NC +Y
Sbjct: 25  AWPFMEPV--KKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREY 82
Query: 453 NPPDHNVVTMARQLSAVF 470
           NPPD      A  L   F
Sbjct: 83  NPPDSEYCRCASALEKFF 100

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

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 38/101 (37%), Positives = 55/101 (54%), Gaps = 2/101 (1%)
Query: 123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYW 182
           +QL   +KN++  +  HP AWPF EPV       PDY++VI  P+DL T+ +RL + YY 
Sbjct: 2   DQLYTTLKNLLAQIKSHPSAWPFMEPVK--KSEAPDYYEVIRFPIDLKTMTERLRSRYYV 59
Query: 183 SGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI 223
           + K  + D   +  NC  YN P  +    A  LE+ F  K+
Sbjct: 60  TRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFKL 100

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

Iteration: 1
 Score = 65.9 bits (159), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 31/78 (39%), Positives = 47/78 (60%), Gaps = 2/78 (2%)
Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           AWPF  PV  +K    DY+++I+ P+DL T+ +++R+R Y T K F  D++ + +NC +Y
Sbjct: 21  AWPFMEPV--KKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREY 78
Query: 453 NPPDHNVVTMARQLSAVF 470
           NPPD      A  L   F
Sbjct: 79  NPPDSEYCRCASALEKFF 96

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

Iteration: 1
 Score = 74.3 bits (181), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 33/77 (42%), Positives = 48/77 (62%)
Query: 395 PFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNP 454
           PF  PVD + LG+ DYFDI+K PMDL T+++K+    Y+   ++ DD+ L+F+N + YN 
Sbjct: 37  PFRQPVDPQLLGIPDYFDIVKSPMDLSTIKRKLDTGQYQEPWQYVDDIWLMFNNAWLYNR 96
Query: 455 PDHNVVTMARQLSAVFE 471
               V     +LS VFE
Sbjct: 97  KTSRVYKYCSKLSEVFE 113

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

Iteration: 1
 Score = 73.6 bits (179), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 33/77 (42%), Positives = 48/77 (62%)
Query: 395 PFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNP 454
           PF  PVD + LG+ DYFDI+K PMDL T+++K+    Y+   ++ DDV L+F+N + YN 
Sbjct: 34  PFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNR 93
Query: 455 PDHNVVTMARQLSAVFE 471
               V     +L+ VFE
Sbjct: 94  KTSRVYKFCSKLAEVFE 110

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

Iteration: 1
 Score = 73.6 bits (179), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 33/77 (42%), Positives = 48/77 (62%)
Query: 395 PFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNP 454
           PF  PVD + LG+ DYFDI+K PMDL T+++K+    Y+   ++ DDV L+F+N + YN 
Sbjct: 32  PFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNR 91
Query: 455 PDHNVVTMARQLSAVFE 471
               V     +L+ VFE
Sbjct: 92  KTSRVYKFCSKLAEVFE 108

>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 = 73.2 bits (178), Expect = 6e-13,   Method: Composition-based stats.
 Identities = 37/100 (37%), Positives = 55/100 (55%), Gaps = 2/100 (2%)
Query: 129 VKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAI 188
           +K V++++  H  AWPF EPVD  +   PDY+ VI +P DL T ++R++  YY    E +
Sbjct: 77  LKRVLRSLQAHKXAWPFLEPVDPNDA--PDYYGVIKEPXDLATXEERVQRRYYEKLTEFV 134
Query: 189 QDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
            D T +F NC  YN         A+ LE  F+ K+ G  +
Sbjct: 135 ADXTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGFKA 174

>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 = 61.2 bits (147), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 31/78 (39%), Positives = 40/78 (51%), Gaps = 2/78 (2%)
Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           AWPF  PVD       DY+ +IK+P DL T  ++++ R Y+   EF  D   IF NC  Y
Sbjct: 90  AWPFLEPVDPNDA--PDYYGVIKEPXDLATXEERVQRRYYEKLTEFVADXTKIFDNCRYY 147
Query: 453 NPPDHNVVTMARQLSAVF 470
           NP D      A  L + F
Sbjct: 148 NPSDSPFYQCAEVLESFF 165

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

Iteration: 1
 Score = 72.4 bits (176), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 34/91 (37%), Positives = 56/91 (61%), Gaps = 2/91 (2%)
Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           AWPF  PV+ E++   DY+D IK+PMDL T+  K+ +  Y+  ++F  D RL+F+NC  Y
Sbjct: 31  AWPFLQPVNKEEV--PDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMY 88
Query: 453 NPPDHNVVTMARQLSAVFEDRFAKMPDESNL 483
           N  + +    A +L   F ++  ++P+ S+L
Sbjct: 89  NGENTSYYKYANRLEKFFNNKVKEIPEYSHL 119

>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 = 72.0 bits (175), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 41/106 (38%), Positives = 59/106 (55%), Gaps = 6/106 (5%)
Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
           W K C E++  +F  +      PF  PVD+  +   DY DII  PMD GTVR+ +    Y
Sbjct: 11  WKKQCKELVNLIFQCEDSE---PFRQPVDL--VEYPDYRDIIDTPMDFGTVRETLDAGNY 65
Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHN-VVTMARQLSAVFEDRFAKM 477
            +  EF  D+RLIFSN   Y P   + + +M  +LSA+FE++  K+
Sbjct: 66  DSPLEFCKDIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEEKMKKI 111

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

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 36/93 (38%), Positives = 54/93 (58%), Gaps = 5/93 (5%)
Query: 127 YIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKE 186
           Y V +V+KA   H  +WPF EPVD      P+Y+++I  PMD+ +++K+L    Y + +E
Sbjct: 22  YKVLDVVKA---HKDSWPFLEPVDESYA--PNYYQIIKAPMDISSMEKKLNGGLYCTKEE 76
Query: 187 AIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLF 219
            + D  TMF NC  YN    +   M+ NLE+ F
Sbjct: 77  FVNDMKTMFRNCRKYNGESSEYTKMSDNLERCF 109

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

Iteration: 1
 Score = 60.5 bits (145), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 31/84 (36%), Positives = 47/84 (55%), Gaps = 3/84 (3%)
Query: 387 KKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIF 446
           K H++ +WPF  PVD  +    +Y+ IIK PMD+ ++ KK+    Y T +EF +D++ +F
Sbjct: 29  KAHKD-SWPFLEPVD--ESYAPNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMF 85
Query: 447 SNCYKYNPPDHNVVTMARQLSAVF 470
            NC KYN        M+  L   F
Sbjct: 86  RNCRKYNGESSEYTKMSDNLERCF 109

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

Iteration: 1
 Score = 67.4 bits (163), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 35/99 (35%), Positives = 57/99 (57%), Gaps = 5/99 (5%)
Query: 377 CSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAK 436
           CS I+ E+  + H++ AWPF  PV+++ +    Y  +IKKPMD  T+R+K+ +  Y   +
Sbjct: 18  CSMILTEM--ETHED-AWPFLLPVNLKLV--PGYKKVIKKPMDFSTIREKLSSGQYPNLE 72
Query: 437 EFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFA 475
            FA DVRL+F NC  +N  D ++      +   FE ++ 
Sbjct: 73  TFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKKWT 111

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

Iteration: 1
 Score = 67.4 bits (163), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 40/106 (37%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
           W K C E++  +F  +      PF  PVD+  L   DY DII  PMD  TVR+ +    Y
Sbjct: 22  WKKQCEELLNLIFQCEDSE---PFRQPVDL--LEYPDYRDIIDTPMDFATVRETLEAGNY 76
Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHN-VVTMARQLSAVFEDRFAKM 477
           ++  E   DVRLIFSN   Y P   + + +M+ +LSA FE+  + +
Sbjct: 77  ESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEEHISSV 122

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

Iteration: 1
 Score = 67.0 bits (162), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 35/99 (35%), Positives = 57/99 (57%), Gaps = 5/99 (5%)
Query: 377 CSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAK 436
           CS I+ E+  + H++ AWPF  PV+++ +    Y  +IKKPMD  T+R+K+ +  Y   +
Sbjct: 15  CSMILTEM--ETHED-AWPFLLPVNLKLV--PGYKKVIKKPMDFSTIREKLSSGQYPNLE 69
Query: 437 EFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFA 475
            FA DVRL+F NC  +N  D ++      +   FE ++ 
Sbjct: 70  TFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKKWT 108

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

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/93 (35%), Positives = 52/93 (55%), Gaps = 5/93 (5%)
Query: 129 VKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNY--YWSGKE 186
            + ++  ++ H  +  F +PV    L +PDY+K+I  PMDL TIKKRL+ +Y  Y   ++
Sbjct: 25  CERLLLFLYCHEMSLAFQDPVP---LTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPED 81
Query: 187 AIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLF 219
            + DF  +F NC  +N+P  +V      LE  F
Sbjct: 82  FVADFRLIFQNCAEFNEPDSEVANAGIKLENYF 114

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

Iteration: 1
 Score = 60.5 bits (145), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 37/105 (35%), Positives = 56/105 (53%), Gaps = 8/105 (7%)
Query: 370 TPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRN 429
           TP+  + C  ++  LF   H+  +  F  PV    L + DY+ IIK PMDL T++K+++ 
Sbjct: 18  TPIDKRKCERLL--LFLYCHE-MSLAFQDPV---PLTVPDYYKIIKNPMDLSTIKKRLQE 71
Query: 430 --RTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFED 472
               Y   ++F  D RLIF NC ++N PD  V     +L   FE+
Sbjct: 72  DYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEE 116

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

Iteration: 1
 Score = 63.2 bits (152), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 33/93 (35%), Positives = 52/93 (55%), Gaps = 5/93 (5%)
Query: 129 VKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNY--YWSGKE 186
            + ++  ++ H  +  F +PV    L +PDY+K+I  PMDL TIKKRL+ +Y  Y   ++
Sbjct: 86  CERLLLFLYCHEMSLAFQDPVP---LTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPED 142
Query: 187 AIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLF 219
            + DF  +F NC  +N+P  +V      LE  F
Sbjct: 143 FVADFRLIFQNCAEFNEPDSEVANAGIKLENYF 175

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

Iteration: 1
 Score = 59.7 bits (143), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 37/105 (35%), Positives = 56/105 (53%), Gaps = 8/105 (7%)
Query: 370 TPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRN 429
           TP+  + C  ++  LF   H+  +  F  PV    L + DY+ IIK PMDL T++K+++ 
Sbjct: 79  TPIDKRKCERLL--LFLYCHE-MSLAFQDPV---PLTVPDYYKIIKNPMDLSTIKKRLQE 132
Query: 430 --RTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFED 472
               Y   ++F  D RLIF NC ++N PD  V     +L   FE+
Sbjct: 133 DYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEE 177

>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 = 62.8 bits (151), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 46/77 (59%), Gaps = 2/77 (2%)
Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           +WPF+ PV+  K  + DY+ +I  PMDL T+RK +    Y++ + F DDV LI +N  KY
Sbjct: 188 SWPFHHPVN--KKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKY 245
Query: 453 NPPDHNVVTMARQLSAV 469
           N P+      A+++  V
Sbjct: 246 NGPESQYTKTAQEIVNV 262

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

Iteration: 1
 Score = 62.4 bits (150), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 46/77 (59%), Gaps = 2/77 (2%)
Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           +WPF+ PV+  K  + DY+ +I  PMDL T+RK +    Y++ + F DDV LI +N  KY
Sbjct: 167 SWPFHHPVN--KKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKY 224
Query: 453 NPPDHNVVTMARQLSAV 469
           N P+      A+++  V
Sbjct: 225 NGPESQYTKTAQEIVNV 241

>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 = 62.4 bits (150), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 46/77 (59%), Gaps = 2/77 (2%)
Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           +WPF+ PV+  K  + DY+ +I  PMDL T+RK +    Y++ + F DDV LI +N  KY
Sbjct: 155 SWPFHHPVN--KKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKY 212
Query: 453 NPPDHNVVTMARQLSAV 469
           N P+      A+++  V
Sbjct: 213 NGPESQYTKTAQEIVNV 229

>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 = 61.6 bits (148), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 46/77 (59%), Gaps = 2/77 (2%)
Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           +WPF+ PV+  K  + DY+ +I  PMDL T+RK +    Y++ + F DDV LI +N  KY
Sbjct: 48  SWPFHHPVN--KKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKY 105
Query: 453 NPPDHNVVTMARQLSAV 469
           N P+      A+++  V
Sbjct: 106 NGPESQYTKTAQEIVNV 122

>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 = 58.9 bits (141), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 28/74 (37%), Positives = 45/74 (60%), Gaps = 2/74 (2%)
Query: 393 AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY 452
           +WPF+ PV+  K  + DY+ +I  P+DL T+RK +    Y++ + F DDV LI +N  KY
Sbjct: 45  SWPFHHPVN--KKFVPDYYKMIVNPVDLETIRKNISKHKYQSRESFLDDVNLILANSVKY 102
Query: 453 NPPDHNVVTMARQL 466
           N P+      A+++
Sbjct: 103 NGPESQYTKTAQEI 116

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

Iteration: 1
 Score = 57.8 bits (138), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 29/59 (49%), Positives = 40/59 (67%), Gaps = 2/59 (3%)
Query: 396 FYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNP 454
           F  PVD+E++  +DY ++IK+PMDL TV  K+    Y TAK+F  D+ LI SN  +YNP
Sbjct: 33  FSKPVDIEEV--SDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNP 89

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

Iteration: 1
 Score = 54.7 bits (130), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 27/61 (44%), Positives = 36/61 (59%), Gaps = 2/61 (3%)
Query: 396 FYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPP 455
           F  PV ++++   DY D IK PMD  T+RK++  + YK   EF +D  LI  NC KYN  
Sbjct: 34  FAQPVSLKEV--PDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNAR 91
Query: 456 D 456
           D
Sbjct: 92  D 92

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

Iteration: 1
 Score = 54.7 bits (130), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 30/102 (29%), Positives = 48/102 (47%), Gaps = 3/102 (2%)
Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
           WY   +++I  L   K++     F   VD +K    DY+D+IK P     ++ K++   Y
Sbjct: 22  WYLLANQLILSL--SKYEG-GHIFEKLVDAKKQNCPDYYDVIKNPXSFSCIKTKLKKGQY 78
Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRF 474
               EF  DV+LIF NC  YN  +  V    + +   F ++ 
Sbjct: 79  AYPSEFVKDVQLIFDNCSLYNTSNSVVAITGKNIETYFNNQL 120

>pdb|3U5M|A Chain A, Crystal Structure Of Trim33 Phd-Bromo In The Free State Length = 207

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 38/126 (30%), Positives = 57/126 (45%), Gaps = 35/126 (27%)
Query: 372 LWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR--- 428
           L Y YC E+  E            F  PV      + +Y+ IIKKPMDL TV+KK++   
Sbjct: 90  LLYLYCHELSIE------------FQEPVPA---SIPNYYKIIKKPMDLSTVKKKLQKKH 134
Query: 429 NRTYKTAKEFADDVRLIFSNCYKYNP-----------------PDHNVVTMARQLSAVFE 471
           ++ Y+   +F  DVRLIF NC ++N                   D  V    + ++  FE
Sbjct: 135 SQHYQIPDDFVADVRLIFKNCERFNEMMKVVQVYADTQEINLKADSEVAQAGKAVALYFE 194
Query: 472 DRFAKM 477
           D+  ++
Sbjct: 195 DKLTEI 200

>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 = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 28/91 (30%), Positives = 45/91 (49%), Gaps = 13/91 (14%)
Query: 380 IIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFA 439
           +I+ELF K      +P             DY+ IIK+P+DL T+ ++++N +YK+    A
Sbjct: 31  LISELFQKLPSKVQYP-------------DYYAIIKEPIDLKTIAQRIQNGSYKSIHAMA 77
Query: 440 DDVRLIFSNCYKYNPPDHNVVTMARQLSAVF 470
            D+ L+  N   YN P   V   A  +  +F
Sbjct: 78  KDIDLLAKNAKTYNEPGSQVFKDANSIKKIF 108

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/48 (50%), Positives = 33/48 (68%)
Query: 407 LTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNP 454
           ++DY ++IK+PMDL TV  K+    Y TAK+F  D+ LI SN  +YNP
Sbjct: 37  VSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNP 84

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 28/91 (30%), Positives = 45/91 (49%), Gaps = 13/91 (14%)
Query: 380 IIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFA 439
           +I+ELF K      +P             DY+ IIK+P+DL T+ ++++N +YK+    A
Sbjct: 30  LISELFQKLPSKVQYP-------------DYYAIIKEPIDLKTIAQRIQNGSYKSIHAMA 76
Query: 440 DDVRLIFSNCYKYNPPDHNVVTMARQLSAVF 470
            D+ L+  N   YN P   V   A  +  +F
Sbjct: 77  KDIDLLAKNAKTYNEPGSQVFKDANSIKKIF 107

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

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/91 (30%), Positives = 45/91 (49%), Gaps = 13/91 (14%)
Query: 380 IIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFA 439
           +I+ELF K      +P             DY+ IIK+P+DL T+ ++++N +YK+    A
Sbjct: 28  LISELFQKLPSKVQYP-------------DYYAIIKEPIDLKTIAQRIQNGSYKSIHAMA 74
Query: 440 DDVRLIFSNCYKYNPPDHNVVTMARQLSAVF 470
            D+ L+  N   YN P   V   A  +  +F
Sbjct: 75  KDIDLLAKNAKTYNEPGSQVFKDANSIKKIF 105

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

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/68 (38%), Positives = 37/68 (54%)
Query: 155 NLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQN 214
           + PDY+K+I +PMDL  I+  + N+ Y   +  I+D   MF N   YN+ G  V   A  
Sbjct: 60  DYPDYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHI 119
Query: 215 LEQLFLTK 222
           LE+L   K
Sbjct: 120 LEKLLKEK 127

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 22/78 (28%), Positives = 39/78 (50%), Gaps = 3/78 (3%)
Query: 409 DYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSA 468
           DY+ II +PMDL  +   +RN  Y   +   +D++L+F N   YN     V   A  L  
Sbjct: 63  DYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEK 122
Query: 469 VFEDR---FAKMPDESNL 483
           + +++      +PD+ ++
Sbjct: 123 LLKEKRKELGPLPDDDDM 140

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/61 (40%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 396 FYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPP 455
           F  PV + ++   DY D IKKPMD  T+++ +    Y    +F +D  LI SNC KYN  
Sbjct: 28  FSEPVPLSEV--PDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYNAK 85
Query: 456 D 456
           D
Sbjct: 86  D 86

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 30/81 (37%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 125 LQYIVKNVMKAVW-KHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWS 183
           LQ  +  +M+ +  K P A+ F  PV   +   P Y  +I  PMD  T+K++++NN Y S
Sbjct: 9   LQEALNQLMRQLQRKDPSAF-FSFPVT--DFIAPGYSMIIKHPMDFSTMKEKIKNNDYQS 65
Query: 184 GKEAIQDFTTMFTNCYVYNKP 204
            +E   +F  M TN  +YNKP
Sbjct: 66  IEELKDNFKLMCTNAMIYNKP 86

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/57 (35%), Positives = 35/57 (61%)
Query: 410 YFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQL 466
           Y  IIK PMD  T+++K++N  Y++ +E  D+ +L+ +N   YN P+      A++L
Sbjct: 41  YSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKL 97

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/59 (42%), Positives = 36/59 (61%), Gaps = 2/59 (3%)
Query: 396 FYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNP 454
           F  PVD +++   DY  +IK+PMDL +V  K+    Y T K++  D+ LI SN  +YNP
Sbjct: 31  FTKPVDPDEV--PDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYNP 87

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 30/82 (36%), Positives = 44/82 (53%), Gaps = 6/82 (7%)
Query: 125 LQYIVKNVMKAVW-KHPHAWPFHEPV-DAINLNLPDYHKVITQPMDLGTIKKRLENNYYW 182
           +Q ++++ ++ +  K PH + F  PV DAI    P Y  +I  PMD GT+K ++  N Y 
Sbjct: 14  IQQLLEHFLRQLQRKDPHGF-FAFPVTDAIA---PGYSMIIKHPMDFGTMKDKIVANEYK 69
Query: 183 SGKEAIQDFTTMFTNCYVYNKP 204
           S  E   DF  M  N   YN+P
Sbjct: 70  SVTEFKADFKLMCDNAMTYNRP 91

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/57 (38%), Positives = 32/57 (56%)
Query: 410 YFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQL 466
           Y  IIK PMD GT++ K+    YK+  EF  D +L+  N   YN PD     +A+++
Sbjct: 46  YSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKI 102

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 27/49 (55%)
Query: 156 LPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKP 204
           LPDY+  I +PMD+  I+  +  N Y      ++DF  MF N   YN+P
Sbjct: 51  LPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEP 99

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 34/63 (53%)
Query: 409 DYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSA 468
           DY+  IK P+ L  +R K++N+ Y+T      D+ L+F N  +YN P+  +     +L  
Sbjct: 55  DYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQ 114
Query: 469 VFE 471
           V +
Sbjct: 115 VMQ 117

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 27/49 (55%)
Query: 156 LPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKP 204
           LPDY+  I +PMD+  I+  +  N Y      ++DF  MF N   YN+P
Sbjct: 51  LPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEP 99

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	779
3jvl_A	120	Bromodomain-containing protein 4; alpha helical, N	3e-57
3jvl_A	120	Bromodomain-containing protein 4; alpha helical, N	9e-43
4alg_A	154	Bromodomain-containing protein 2; signaling protei	7e-56
4alg_A	154	Bromodomain-containing protein 2; signaling protei	7e-44
2ouo_A	130	HUNK1 protein, bromodomain-containing protein 4; B	4e-55
2ouo_A	130	HUNK1 protein, bromodomain-containing protein 4; B	4e-42
2oss_A	127	HUNK1 protein, bromodomain-containing protein 4; B	8e-55
2oss_A	127	HUNK1 protein, bromodomain-containing protein 4; B	2e-46
3p1f_A	119	CREB-binding protein; structural genomics consorti	1e-51
3p1f_A	119	CREB-binding protein; structural genomics consorti	3e-41
3fkm_X	166	Signaling protein; bromodomain, malaria, structura	1e-48
3fkm_X	166	Signaling protein; bromodomain, malaria, structura	2e-46
3g0l_A	117	Hwalp4, bromodomain adjacent to zinc finger domain	6e-47
3g0l_A	117	Hwalp4, bromodomain adjacent to zinc finger domain	1e-40
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	1e-46
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	2e-39
3q2e_A	123	Bromodomain and WD repeat-containing protein 1; st	2e-46
3q2e_A	123	Bromodomain and WD repeat-containing protein 1; st	2e-36
3d7c_A	112	General control of amino acid synthesis protein 5;	2e-46
3d7c_A	112	General control of amino acid synthesis protein 5;	7e-41
1e6i_A	121	Transcriptional activator GCN5; gene regulation, b	9e-46
1e6i_A	121	Transcriptional activator GCN5; gene regulation, b	1e-43
3mb3_A	135	PH-interacting protein; PHIP, pleckstrin homology	4e-44
3mb3_A	135	PH-interacting protein; PHIP, pleckstrin homology	2e-36
2yyn_A	135	Transcription intermediary factor 1-alpha; bromo d	6e-44
2yyn_A	135	Transcription intermediary factor 1-alpha; bromo d	5e-42
3nxb_A	116	CAT eye syndrome critical region protein 2; struct	7e-42
3nxb_A	116	CAT eye syndrome critical region protein 2; struct	7e-41
3uv4_A	158	Second bromodomain of human transcription initiat	8e-41
3uv4_A	158	Second bromodomain of human transcription initiat	3e-39
2i7k_A	117	Bromodomain-containing protein 7; helix, LEFT-hand	1e-39
2i7k_A	117	Bromodomain-containing protein 7; helix, LEFT-hand	1e-36
2dkw_A	131	Hypothetical protein KIAA1240; bromodomain-like, f	7e-39
2dkw_A	131	Hypothetical protein KIAA1240; bromodomain-like, f	6e-34
3ljw_A	120	Protein polybromo-1; alpha helix, alternative spli	2e-38
3ljw_A	120	Protein polybromo-1; alpha helix, alternative spli	3e-34
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	2e-38
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	4e-38
2d9e_A	121	Peregrin; four-helix bundle, transcription activat	8e-38
2d9e_A	121	Peregrin; four-helix bundle, transcription activat	3e-37
3hme_A	123	Bromodomain-containing protein 9; BRD9, bromodomai	1e-37
3hme_A	123	Bromodomain-containing protein 9; BRD9, bromodomai	2e-37
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	1e-37
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	2e-34
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	4e-31
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	2e-29
3rcw_A	135	Bromodomain-containing protein 1; transcription, s	9e-37
3rcw_A	135	Bromodomain-containing protein 1; transcription, s	3e-35
3dai_A	130	ATPase family AAA domain-containing protein 2; anc	2e-36
3dai_A	130	ATPase family AAA domain-containing protein 2; anc	3e-32
3k2j_A	130	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	2e-35
3k2j_A	130	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	2e-32
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	2e-35
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	1e-31
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	2e-30
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	4e-27
3tlp_A	150	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	2e-35
3tlp_A	150	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	4e-30
3mb4_A	124	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	4e-35
3mb4_A	124	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	5e-31
3iu5_A	116	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	3e-34
3iu5_A	116	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	1e-29
2dat_A	123	Possible global transcription activator SNF2L2; br	1e-33
2dat_A	123	Possible global transcription activator SNF2L2; br	7e-33
3mqm_A	126	Probable histone-lysine N-methyltransferase ASH1L;	2e-33
3mqm_A	126	Probable histone-lysine N-methyltransferase ASH1L;	4e-29
2grc_A	129	Probable global transcription activator SNF2L4; br	2e-33
2grc_A	129	Probable global transcription activator SNF2L4; br	8e-33
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	1e-29
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	1e-27
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	6e-23
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	2e-22
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	3e-28
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	2e-25
2jns_A	90	Bromodomain-containing protein 4; ET-domain, struc	6e-28
2r10_A	361	Chromatin structure-remodeling complex protein RSC	8e-27
2r10_A	361	Chromatin structure-remodeling complex protein RSC	6e-25
2r10_A	361	Chromatin structure-remodeling complex protein RSC	6e-21
2r10_A	361	Chromatin structure-remodeling complex protein RSC	2e-19
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	4e-23
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	7e-16
3iu6_A	147	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	3e-22
3iu6_A	147	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	4e-19
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	2e-15
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	2e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-07

>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 =  190 bits (484), Expect = 3e-57
 Identities = 75/114 (65%), Positives = 86/114 (75%)

Query: 367 GSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKK 426
           GSK     K CS I+ E+F KKH  YAWPFY PVDVE LGL DY DIIK PMD+ T++ K
Sbjct: 4   GSKISEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSK 63

Query: 427 MRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           + +R Y+ A+EF  DVRL+FSNCYKYNPPDH VV MAR+L  VFE RFAKMPDE
Sbjct: 64  LESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDE 117

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

 Score =  150 bits (380), Expect = 9e-43
 Identities = 44/117 (37%), Positives = 64/117 (54%), Gaps = 4/117 (3%)

Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPH---AWPFHEPVDAINLNLPDYHKVITQPMDLGTIK 173
              + + QL+     ++K ++   H   AWPF++PVD   L L DY  +I  PMD+ TIK
Sbjct: 3   MGSKISEQLKCC-SGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIK 61

Query: 174 KRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
            +LE+  Y   +E   D   MF+NCY YN P  +VV MA+ L+ +F  +   MP E 
Sbjct: 62  SKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDEP 118

>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 =  187 bits (477), Expect = 7e-56
 Identities = 84/137 (61%), Positives = 104/137 (75%)

Query: 108 QPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPM 167
           +   +    +PGR TNQLQY+ K VMKA+WKH  AWPF +PVDA+ L LPDYHK+I QPM
Sbjct: 16  RGSHMSNPKKPGRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPM 75

Query: 168 DLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP 227
           D+GTIK+RLENNYYW+  E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+  MP
Sbjct: 76  DMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMP 135

Query: 228 SEEVVLDAPQPRSSKKK 244
            EE  L    P++S KK
Sbjct: 136 QEEQELVVTIPKNSHKK 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 =  154 bits (391), Expect = 7e-44
 Identities = 48/114 (42%), Positives = 65/114 (57%), Gaps = 3/114 (2%)

Query: 367 GSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKK 426
           G  T         ++  L   KHQ +AWPF  PVD  KLGL DY  IIK+PMD+GT++++
Sbjct: 27  GRVTNQLQYLHKVVMKAL--WKHQ-FAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRR 83

Query: 427 MRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           + N  Y  A E   D   +F+NCY YN P  ++V MA+ L  +F  + A MP E
Sbjct: 84  LENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQE 137

>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 =  184 bits (469), Expect = 4e-55
 Identities = 74/113 (65%), Positives = 84/113 (74%)

Query: 368 SKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKM 427
           SK     K CS I+ E+F KKH  YAWPFY PVDVE LGL DY DIIK PMD+ T++ K+
Sbjct: 18  SKVSEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKL 77

Query: 428 RNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
             R Y+ A+EF  DVRL+FSNCYKYNPPDH VV MAR+L  VFE RFAKMPDE
Sbjct: 78  EAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDE 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 =  148 bits (376), Expect = 4e-42
 Identities = 45/128 (35%), Positives = 66/128 (51%), Gaps = 4/128 (3%)

Query: 105 GIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPH---AWPFHEPVDAINLNLPDYHK 161
            +      P   +  + + QL+     ++K ++   H   AWPF++PVD   L L DY  
Sbjct: 4   DVPDSQQHPAPEKSSKVSEQLKCC-SGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCD 62

Query: 162 VITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLT 221
           +I  PMD+ TIK +LE   Y   +E   D   MF+NCY YN P  +VV MA+ L+ +F  
Sbjct: 63  IIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEM 122

Query: 222 KITGMPSE 229
           +   MP E
Sbjct: 123 RFAKMPDE 130

>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 =  183 bits (467), Expect = 8e-55
 Identities = 79/122 (64%), Positives = 100/122 (81%)

Query: 109 PPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMD 168
           PP     ++P R TNQLQY+++ V+K +WKH  AWPF +PVDA+ LNLPDY+K+I  PMD
Sbjct: 6   PPETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMD 65

Query: 169 LGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
           +GTIKKRLENNYYW+ +E IQDF TMFTNCY+YNKPG+D+VLMA+ LE+LFL KI  +P+
Sbjct: 66  MGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELPT 125

Query: 229 EE 230
           EE
Sbjct: 126 EE 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 =  160 bits (407), Expect = 2e-46
 Identities = 45/114 (39%), Positives = 64/114 (56%), Gaps = 3/114 (2%)

Query: 367 GSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKK 426
             +T         ++  L   KHQ +AWPF  PVD  KL L DY+ IIK PMD+GT++K+
Sbjct: 16  KRQTNQLQYLLRVVLKTL--WKHQ-FAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKR 72

Query: 427 MRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           + N  Y  A+E   D   +F+NCY YN P  ++V MA  L  +F  +  ++P E
Sbjct: 73  LENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELPTE 126

>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 =  174 bits (444), Expect = 1e-51
 Identities = 34/108 (31%), Positives = 55/108 (50%), Gaps = 2/108 (1%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
             +     +  L+  +    + PF  PVD + LG+ DYFDI+K PMDL T+++K+    Y
Sbjct: 12  LRQALMPTLEALY--RQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQY 69

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           +   ++ DDV L+F+N + YN     V     +L+ VFE     +   
Sbjct: 70  QEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQS 117

>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 =  145 bits (368), Expect = 3e-41
 Identities = 31/116 (26%), Positives = 57/116 (49%), Gaps = 1/116 (0%)

Query: 115 KHRPGRNTNQLQYIVKNVMKAVWK-HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIK 173
             +      +L+  +   ++A+++  P + PF +PVD   L +PDY  ++  PMDL TIK
Sbjct: 2   MRKKIFKPEELRQALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIK 61

Query: 174 KRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSE 229
           ++L+   Y    + + D   MF N ++YN+    V      L ++F  +I  +   
Sbjct: 62  RKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQS 117

>3fkm_X Signaling protein; bromodomain, malaria, structural genomics, structural genomi consortium, SGC; 2.50A {Plasmodium falciparum 3D7} Length = 166

 Score =  168 bits (426), Expect = 1e-48
 Identities = 32/132 (24%), Positives = 56/132 (42%)

Query: 115 KHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKK 174
           ++   +   Q   +   ++ ++ K+     F + VDA   N PDY+ VI  PM    IK 
Sbjct: 12  ENLYFQGNKQWYLLANQLILSLSKYEGGHIFEKLVDAKKQNCPDYYDVIKNPMSFSCIKT 71

Query: 175 RLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLD 234
           +L+   Y    E ++D   +F NC +YN     V +  +N+E  F  ++  M     +L 
Sbjct: 72  KLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVAITGKNIETYFNNQLIVMGYNNFILK 131

Query: 235 APQPRSSKKKPP 246
             +     K   
Sbjct: 132 EKKINDMLKLVE 143

>3fkm_X Signaling protein; bromodomain, malaria, structural genomics, structural genomi consortium, SGC; 2.50A {Plasmodium falciparum 3D7} Length = 166

 Score =  162 bits (411), Expect = 2e-46
 Identities = 38/160 (23%), Positives = 65/160 (40%), Gaps = 9/160 (5%)

Query: 361 GGSGLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDL 420
           G   L       WY   +++I  L   K++     F   VD +K    DY+D+IK PM  
Sbjct: 10  GRENLYFQGNKQWYLLANQLILSL--SKYE-GGHIFEKLVDAKKQNCPDYYDVIKNPMSF 66

Query: 421 GTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMP-- 478
             ++ K++   Y    EF  DV+LIF NC  YN  +  V    + +   F ++   M   
Sbjct: 67  SCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVAITGKNIETYFNNQLIVMGYN 126

Query: 479 ----DESNLASRAAASVSSDDDSEDERQNQLKYLQEQLKS 514
                E  +          +     E+++Q++ + E   +
Sbjct: 127 NFILKEKKINDMLKLVEEENIKWSKEKEDQIEEIDELENN 166

>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 =  161 bits (410), Expect = 6e-47
 Identities = 35/113 (30%), Positives = 55/113 (48%), Gaps = 5/113 (4%)

Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
                   CS I+ E+   +    AWPF  PV+++ +    Y  +IKKPMD  T+R+K+ 
Sbjct: 10  DDSKDLALCSMILTEMETHED---AWPFLLPVNLKLVP--GYKKVIKKPMDFSTIREKLS 64

Query: 429 NRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDES 481
           +  Y   + FA DVRL+F NC  +N  D ++      +   FE ++      S
Sbjct: 65  SGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKKWTDTFKVS 117

>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 =  144 bits (365), Expect = 1e-40
 Identities = 31/112 (27%), Positives = 54/112 (48%), Gaps = 2/112 (1%)

Query: 116 HRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKR 175
            +P R+ ++   +   ++  +  H  AWPF  PV+   +  P Y KVI +PMD  TI+++
Sbjct: 5   KKPKRDDSKDLALCSMILTEMETHEDAWPFLLPVNLKLV--PGYKKVIKKPMDFSTIREK 62

Query: 176 LENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP 227
           L +  Y + +    D   +F NC  +N+   D+     N+ + F  K T   
Sbjct: 63  LSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKKWTDTF 114

>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 =  163 bits (413), Expect = 1e-46
 Identities = 40/139 (28%), Positives = 63/139 (45%), Gaps = 2/139 (1%)

Query: 90  VEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPV 149
           V     +   ++                    T +    +K V++++  H  AWPF EPV
Sbjct: 38  VGILQSEAELIDEYVCPQCQSTEDAMTVLTPLTEKDYEGLKRVLRSLQAHKMAWPFLEPV 97

Query: 150 DAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVV 209
           D  +   PDY+ VI +PMDL T+++R++  YY    E + D T +F NC  YN       
Sbjct: 98  DPNDA--PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFY 155

Query: 210 LMAQNLEQLFLTKITGMPS 228
             A+ LE  F+ K+ G  +
Sbjct: 156 QCAEVLESFFVQKLKGFKA 174

>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 =  143 bits (361), Expect = 2e-39
 Identities = 36/110 (32%), Positives = 51/110 (46%), Gaps = 5/110 (4%)

Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
            T   Y+    ++  L   K    AWPF  PVD       DY+ +IK+PMDL T+ ++++
Sbjct: 69  LTEKDYEGLKRVLRSLQAHKM---AWPFLEPVDPNDA--PDYYGVIKEPMDLATMEERVQ 123

Query: 429 NRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMP 478
            R Y+   EF  D+  IF NC  YNP D      A  L + F  +     
Sbjct: 124 RRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGFK 173

>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 =  160 bits (407), Expect = 2e-46
 Identities = 41/115 (35%), Positives = 62/115 (53%), Gaps = 6/115 (5%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
           W K C E++  +F  +    + PF  PVD   +   DY DII  PMD GTVR+ +    Y
Sbjct: 11  WKKQCKELVNLIFQCED---SEPFRQPVD--LVEYPDYRDIIDTPMDFGTVRETLDAGNY 65

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHN-VVTMARQLSAVFEDRFAKMPDESNLASR 486
            +  EF  D+RLIFSN   Y P   + + +M  +LSA+FE++  K+  +  +  +
Sbjct: 66  DSPLEFCKDIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEEKMKKISSDFKIGQK 120

>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 =  132 bits (333), Expect = 2e-36
 Identities = 29/101 (28%), Positives = 49/101 (48%), Gaps = 3/101 (2%)

Query: 130 KNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQ 189
           K ++  +++   + PF +PVD   +  PDY  +I  PMD GT+++ L+   Y S  E  +
Sbjct: 16  KELVNLIFQCEDSEPFRQPVDL--VEYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCK 73

Query: 190 DFTTMFTNCYVYN-KPGEDVVLMAQNLEQLFLTKITGMPSE 229
           D   +F+N   Y       +  M   L  LF  K+  + S+
Sbjct: 74  DIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEEKMKKISSD 114

>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 =  159 bits (405), Expect = 2e-46
 Identities = 38/108 (35%), Positives = 56/108 (51%), Gaps = 2/108 (1%)

Query: 120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENN 179
            + +QL   +KN++  +  HP AWPF EPV       PDY++VI  P+DL T+ +RL + 
Sbjct: 3   EDPDQLYTTLKNLLAQIKSHPSAWPFMEPVKK--SEAPDYYEVIRFPIDLKTMTERLRSR 60

Query: 180 YYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP 227
           YY + K  + D   +  NC  YN P  +    A  LE+ F  K+    
Sbjct: 61  YYVTRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFKLKEGG 108

>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 =  144 bits (365), Expect = 7e-41
 Identities = 35/106 (33%), Positives = 56/106 (52%), Gaps = 5/106 (4%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
            Y     ++A++  K H   AWPF  PV   K    DY+++I+ P+DL T+ +++R+R Y
Sbjct: 8   LYTTLKNLLAQI--KSHP-SAWPFMEPVK--KSEAPDYYEVIRFPIDLKTMTERLRSRYY 62

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMP 478
            T K F  D++ + +NC +YNPPD      A  L   F  +  +  
Sbjct: 63  VTRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFKLKEGG 108

>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 =  158 bits (402), Expect = 9e-46
 Identities = 38/118 (32%), Positives = 61/118 (51%), Gaps = 4/118 (3%)

Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRL 176
           RP R  +      +N++  +  H  AWPF +PV+   +  PDY+  I +PMDL T++ +L
Sbjct: 8   RPKRGPHDAAI--QNILTELQNHAAAWPFLQPVNKEEV--PDYYDFIKEPMDLSTMEIKL 63

Query: 177 ENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLD 234
           E+N Y   ++ I D   +F NC +YN         A  LE+ F  K+  +P    ++D
Sbjct: 64  ESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEIPEYSHLID 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 =  152 bits (386), Expect = 1e-43
 Identities = 38/110 (34%), Positives = 61/110 (55%), Gaps = 5/110 (4%)

Query: 374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYK 433
                 I+ EL  + H   AWPF  PV+  K  + DY+D IK+PMDL T+  K+ +  Y+
Sbjct: 15  DAAIQNILTEL--QNHA-AAWPFLQPVN--KEEVPDYYDFIKEPMDLSTMEIKLESNKYQ 69

Query: 434 TAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNL 483
             ++F  D RL+F+NC  YN  + +    A +L   F ++  ++P+ S+L
Sbjct: 70  KMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEIPEYSHL 119

>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 =  154 bits (391), Expect = 4e-44
 Identities = 42/119 (35%), Positives = 60/119 (50%), Gaps = 6/119 (5%)

Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
               W K C E++  +F  +    + PF  PVD   L   DY DII  PMD  TVR+ + 
Sbjct: 18  DIQAWKKQCEELLNLIFQCED---SEPFRQPVD--LLEYPDYRDIIDTPMDFATVRETLE 72

Query: 429 NRTYKTAKEFADDVRLIFSNCYKYNPPDHN-VVTMARQLSAVFEDRFAKMPDESNLASR 486
              Y++  E   DVRLIFSN   Y P   + + +M+ +LSA FE+  + +  +   A R
Sbjct: 73  AGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEEHISSVLSDYKSALR 131

>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 =  132 bits (334), Expect = 2e-36
 Identities = 30/124 (24%), Positives = 54/124 (43%), Gaps = 4/124 (3%)

Query: 108 QPPVVPPKHRP-GRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQP 166
             P    ++R    +    +   + ++  +++   + PF +PVD   L  PDY  +I  P
Sbjct: 4   HQPRRRLRNRAQSYDIQAWKKQCEELLNLIFQCEDSEPFRQPVDL--LEYPDYRDIIDTP 61

Query: 167 MDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKP-GEDVVLMAQNLEQLFLTKITG 225
           MD  T+++ LE   Y S  E  +D   +F+N   Y       +  M+  L   F   I+ 
Sbjct: 62  MDFATVRETLEAGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEEHISS 121

Query: 226 MPSE 229
           + S+
Sbjct: 122 VLSD 125

>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural genomics, NPPSFA; 2.50A {Homo sapiens} Length = 135

 Score =  154 bits (390), Expect = 6e-44
 Identities = 37/124 (29%), Positives = 59/124 (47%), Gaps = 8/124 (6%)

Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
            TP+  + C  ++  L+  +    +  F  PV    L + DY+ IIK PMDL T++K+++
Sbjct: 17  LTPIDKRKCERLLLFLYCHEM---SLAFQDPVP---LTVPDYYKIIKNPMDLSTIKKRLQ 70

Query: 429 NRT--YKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASR 486
                Y   ++F  D RLIF NC ++N PD  V     +L   FE+    +  E      
Sbjct: 71  EDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNLYPEKRFPKS 130

Query: 487 AAAS 490
             +S
Sbjct: 131 GPSS 134

>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural genomics, NPPSFA; 2.50A {Homo sapiens} Length = 135

 Score =  148 bits (376), Expect = 5e-42
 Identities = 35/119 (29%), Positives = 59/119 (49%), Gaps = 5/119 (4%)

Query: 114 PKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIK 173
                 + T   +   + ++  ++ H  +  F +PV    L +PDY+K+I  PMDL TIK
Sbjct: 10  KTEGLVKLTPIDKRKCERLLLFLYCHEMSLAFQDPVP---LTVPDYYKIIKNPMDLSTIK 66

Query: 174 KRLENNY--YWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
           KRL+ +Y  Y   ++ + DF  +F NC  +N+P  +V      LE  F   +  +  E+
Sbjct: 67  KRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNLYPEK 125

>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 =  147 bits (373), Expect = 7e-42
 Identities = 34/109 (31%), Positives = 55/109 (50%), Gaps = 2/109 (1%)

Query: 115 KHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKK 174
           K +     +     +  V+  V  H  +WPF EPVD      P+Y+++I  PMD+ +++K
Sbjct: 7   KTKDLFELDDDFTAMYKVLDVVKAHKDSWPFLEPVDE--SYAPNYYQIIKAPMDISSMEK 64

Query: 175 RLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI 223
           +L    Y + +E + D  TMF NC  YN    +   M+ NLE+ F   +
Sbjct: 65  KLNGGLYCTKEEFVNDMKTMFRNCRKYNGESSEYTKMSDNLERCFHRAM 113

>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 =  144 bits (365), Expect = 7e-41
 Identities = 32/104 (30%), Positives = 52/104 (50%), Gaps = 5/104 (4%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
            +    +++  +  K H+  +WPF  PVD  +    +Y+ IIK PMD+ ++ KK+    Y
Sbjct: 17  DFTAMYKVLDVV--KAHK-DSWPFLEPVD--ESYAPNYYQIIKAPMDISSMEKKLNGGLY 71

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAK 476
            T +EF +D++ +F NC KYN        M+  L   F     K
Sbjct: 72  CTKEEFVNDMKTMFRNCRKYNGESSEYTKMSDNLERCFHRAMMK 115

>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 =  146 bits (369), Expect = 8e-41
 Identities = 34/136 (25%), Positives = 55/136 (40%), Gaps = 3/136 (2%)

Query: 109 PPVVPPKHRPGRNTNQLQYIVKN-VMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPM 167
                       +     +I+ N V + +   P +WPFH PV+     +PDY+KVI  PM
Sbjct: 14  GTENLYFQSMDDDQVAFSFILDNIVTQKMMAVPDSWPFHHPVNK--KFVPDYYKVIVNPM 71

Query: 168 DLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP 227
           DL TI+K +  + Y S +  + D   +  N   YN P       AQ +  +    +T   
Sbjct: 72  DLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYD 131

Query: 228 SEEVVLDAPQPRSSKK 243
                L+     + + 
Sbjct: 132 EHLTQLEKDICTAKEA 147

>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 =  141 bits (357), Expect = 3e-39
 Identities = 35/134 (26%), Positives = 63/134 (47%), Gaps = 9/134 (6%)

Query: 374 YKYCSEIIAELFHKKHQN--YAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRT 431
               S I+  +  +K      +WPF+ PV+  K  + DY+ +I  PMDL T+RK +    
Sbjct: 27  QVAFSFILDNIVTQKMMAVPDSWPFHHPVN--KKFVPDYYKVIVNPMDLETIRKNISKHK 84

Query: 432 YKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPD-----ESNLASR 486
           Y++ + F DDV LI +N  KYN P+      A+++  V      +  +     E ++ + 
Sbjct: 85  YQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTA 144

Query: 487 AAASVSSDDDSEDE 500
             A++   +    +
Sbjct: 145 KEAALEEAELESLD 158

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

 Score =  141 bits (357), Expect = 1e-39
 Identities = 30/106 (28%), Positives = 49/106 (46%), Gaps = 2/106 (1%)

Query: 125 LQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSG 184
           LQ  +  +M+ + +   +  F  PV       P Y  +I  PMD  T+K++++NN Y S 
Sbjct: 9   LQEALNQLMRQLQRKDPSAFFSFPVTD--FIAPGYSMIIKHPMDFSTMKEKIKNNDYQSI 66

Query: 185 KEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
           +E   +F  M TN  +YNKP       A+ L    +  ++    E 
Sbjct: 67  EELKDNFKLMCTNAMIYNKPETIYYKAAKKLLHSGMKILSQERLEH 112

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

 Score =  132 bits (335), Expect = 1e-36
 Identities = 29/113 (25%), Positives = 54/113 (47%), Gaps = 6/113 (5%)

Query: 368 SKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKM 427
            +TPL  +  ++++ +L  K     +  F  PV         Y  IIK PMD  T+++K+
Sbjct: 5   EQTPL-QEALNQLMRQLQRKDP---SAFFSFPVT--DFIAPGYSMIIKHPMDFSTMKEKI 58

Query: 428 RNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           +N  Y++ +E  D+ +L+ +N   YN P+      A++L        ++   E
Sbjct: 59  KNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKLLHSGMKILSQERLE 111

>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 131

 Score =  139 bits (352), Expect = 7e-39
 Identities = 35/120 (29%), Positives = 50/120 (41%), Gaps = 10/120 (8%)

Query: 361 GGSGLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDL 420
           G SG  G+       +  ++   L   K       F  PV        DY ++IK+PMDL
Sbjct: 1   GSSGSSGNTLRELRLFLRDVTKRLATDKR---FNIFSKPVS-------DYLEVIKEPMDL 50

Query: 421 GTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
            TV  K+    Y TAK+F  D+ LI SN  +YNP       + R  +   +D    +   
Sbjct: 51  STVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKIIRHRACTLKDTAHAIIAA 110

>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 131

 Score =  125 bits (316), Expect = 6e-34
 Identities = 23/116 (19%), Positives = 49/116 (42%), Gaps = 7/116 (6%)

Query: 115 KHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKK 174
               G    +L+  +++V K +        F +PV        DY +VI +PMDL T+  
Sbjct: 3   SGSSGNTLRELRLFLRDVTKRLATDKRFNIFSKPVS-------DYLEVIKEPMDLSTVIT 55

Query: 175 RLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
           +++ + Y + K+ ++D   + +N   YN   +    + ++           + + E
Sbjct: 56  KIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKIIRHRACTLKDTAHAIIAAE 111

>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 =  138 bits (349), Expect = 2e-38
 Identities = 28/117 (23%), Positives = 54/117 (46%), Gaps = 4/117 (3%)

Query: 117 RPGRNTNQLQYIVKNVMKAVWK--HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKK 174
            P      L+ +++ ++ A        +  F +      +  PDY+ +I +P+DL TI +
Sbjct: 5   SPAYLKEILEQLLEAIVVATNPSGRLISELFQKLPSK--VQYPDYYAIIKEPIDLKTIAQ 62

Query: 175 RLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEV 231
           R++N  Y S     +D   +  N   YN+PG  V   A +++++F  K   +   E+
Sbjct: 63  RIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEHHEM 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 =  125 bits (317), Expect = 3e-34
 Identities = 27/117 (23%), Positives = 53/117 (45%), Gaps = 5/117 (4%)

Query: 367 GSKTPLWYKYCSEIIAELFHKKHQN---YAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTV 423
           GS      +   +++  +    + +    +  F       K+   DY+ IIK+P+DL T+
Sbjct: 3   GSSPAYLKEILEQLLEAIVVATNPSGRLISELFQKLPS--KVQYPDYYAIIKEPIDLKTI 60

Query: 424 RKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
            ++++N +YK+    A D+ L+  N   YN P   V   A  +  +F  + A++   
Sbjct: 61  AQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEHH 117

>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 =  140 bits (353), Expect = 2e-38
 Identities = 35/112 (31%), Positives = 55/112 (49%), Gaps = 8/112 (7%)

Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
            TP+  + C  ++  L+       +  F  PV    L + DY+ IIK PMDL T++K+++
Sbjct: 78  LTPIDKRKCERLLLFLYC---HEMSLAFQDPVP---LTVPDYYKIIKNPMDLSTIKKRLQ 131

Query: 429 NRT--YKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMP 478
                Y   ++F  D RLIF NC ++N PD  V     +L   FE+    + 
Sbjct: 132 EDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNLY 183

>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 =  139 bits (351), Expect = 4e-38
 Identities = 35/138 (25%), Positives = 58/138 (42%), Gaps = 5/138 (3%)

Query: 92  PPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDA 151
                       D               + T   +   + ++  ++ H  +  F +PV  
Sbjct: 49  RDLSKPEVEYDCDAPSHNSEKKKTEGLVKLTPIDKRKCERLLLFLYCHEMSLAFQDPVP- 107

Query: 152 INLNLPDYHKVITQPMDLGTIKKRLENNY--YWSGKEAIQDFTTMFTNCYVYNKPGEDVV 209
             L +PDY+K+I  PMDL TIKKRL+ +Y  Y   ++ + DF  +F NC  +N+P  +V 
Sbjct: 108 --LTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVA 165

Query: 210 LMAQNLEQLFLTKITGMP 227
                LE  F   +  + 
Sbjct: 166 NAGIKLENYFEELLKNLY 183

>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 =  135 bits (343), Expect = 8e-38
 Identities = 31/117 (26%), Positives = 49/117 (41%), Gaps = 5/117 (4%)

Query: 366 GGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRK 425
           G S +  +     + + +L  K        F  PV + ++   DY D IKKPMD  T+++
Sbjct: 1   GSSGSSGFLILLRKTLEQLQEKDT---GNIFSEPVPLSEV--PDYLDHIKKPMDFFTMKQ 55

Query: 426 KMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESN 482
            +    Y    +F +D  LI SNC KYN  D      A +L         +   ++ 
Sbjct: 56  NLEAYRYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLREQGGAVLRQARRQAE 112

>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 =  134 bits (340), Expect = 3e-37
 Identities = 24/119 (20%), Positives = 47/119 (39%), Gaps = 2/119 (1%)

Query: 120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENN 179
             ++    +++  ++ + +      F EPV    +  PDY   I +PMD  T+K+ LE  
Sbjct: 3   SGSSGFLILLRKTLEQLQEKDTGNIFSEPVPLSEV--PDYLDHIKKPMDFFTMKQNLEAY 60

Query: 180 YYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQP 238
            Y +  +  +DF  + +NC  YN         A  L +     +     +   + +   
Sbjct: 61  RYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLREQGGAVLRQARRQAEKMGSGPS 119

>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 =  135 bits (342), Expect = 1e-37
 Identities = 30/107 (28%), Positives = 45/107 (42%), Gaps = 6/107 (5%)

Query: 370 TPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRN 429
           TP+  +     + +L  K        F  PV         Y  IIK PMD GT++ K+  
Sbjct: 12  TPI-QQLLEHFLRQLQRKDP---HGFFAFPVTDAIA--PGYSMIIKHPMDFGTMKDKIVA 65

Query: 430 RTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAK 476
             YK+  EF  D +L+  N   YN PD     +A+++        +K
Sbjct: 66  NEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKILHAGFKMMSK 112

>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 =  135 bits (341), Expect = 2e-37
 Identities = 25/102 (24%), Positives = 44/102 (43%), Gaps = 2/102 (1%)

Query: 122 TNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYY 181
           +  +Q ++++ ++ + +      F  PV       P Y  +I  PMD GT+K ++  N Y
Sbjct: 11  STPIQQLLEHFLRQLQRKDPHGFFAFPVTD--AIAPGYSMIIKHPMDFGTMKDKIVANEY 68

Query: 182 WSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI 223
            S  E   DF  M  N   YN+P      +A+ +       +
Sbjct: 69  KSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKILHAGFKMM 110

>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 =  140 bits (354), Expect = 1e-37
 Identities = 35/167 (20%), Positives = 62/167 (37%), Gaps = 2/167 (1%)

Query: 77  NESNSGNSTKAASVEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAV 136
           N      +  + S+     ++ + +          + P             +   V + +
Sbjct: 90  NGPKHSLTQISQSMLDLCDEKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKM 149

Query: 137 WKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFT 196
              P +WPFH PV+     +PDY+KVI  PMDL TI+K +  + Y S +  + D   +  
Sbjct: 150 MAVPDSWPFHHPVNK--KFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILA 207

Query: 197 NCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKK 243
           N   YN P       AQ +  +    +T        L+     + + 
Sbjct: 208 NSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTAKEA 254

>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 =  131 bits (331), Expect = 2e-34
 Identities = 34/133 (25%), Positives = 64/133 (48%), Gaps = 11/133 (8%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
            +   + +  ++        +WPF+ PV+  K  + DY+ +I  PMDL T+RK +    Y
Sbjct: 138 SFILDNIVTQKMMAVPD---SWPFHHPVN--KKFVPDYYKVIVNPMDLETIRKNISKHKY 192

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPD-----ESNLASRA 487
           ++ + F DDV LI +N  KYN P+      A+++  V      +  +     E ++ +  
Sbjct: 193 QSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTAK 252

Query: 488 AASVSSDD-DSED 499
            A++   + +S D
Sbjct: 253 EAALEEAELESLD 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 =  121 bits (306), Expect = 4e-31
 Identities = 30/116 (25%), Positives = 57/116 (49%), Gaps = 2/116 (1%)

Query: 114 PKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIK 173
              R       L  I+++++  +   P+ +PFH PV+A    + DY+K+IT+PMDL T++
Sbjct: 4   IHRRRTDPMVTLSSILESIINDMRDLPNTYPFHTPVNA--KVVKDYYKIITRPMDLQTLR 61

Query: 174 KRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSE 229
           + +    Y S +E  +    +  N   YN P   +  ++Q++  L   K+     +
Sbjct: 62  ENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDK 117

>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 =  116 bits (293), Expect = 2e-29
 Identities = 35/144 (24%), Positives = 72/144 (50%), Gaps = 5/144 (3%)

Query: 374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYK 433
                 II ++   +     +PF+TPV+ + +   DY+ II +PMDL T+R+ +R R Y 
Sbjct: 16  SSILESIINDM---RDLPNTYPFHTPVNAKVV--KDYYKIITRPMDLQTLRENVRKRLYP 70

Query: 434 TAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASRAAASVSS 493
           + +EF + + LI  N   YN P H++  +++ +  + +++  +  D+     +A   +  
Sbjct: 71  SREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDKLARLEKAINPLLD 130

Query: 494 DDDSEDERQNQLKYLQEQLKSLTD 517
           DDD           + +++ ++ D
Sbjct: 131 DDDQVAFSFILDNIVTQKMMAVPD 154

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

 Score =  133 bits (337), Expect = 9e-37
 Identities = 31/141 (21%), Positives = 54/141 (38%), Gaps = 10/141 (7%)

Query: 107 VQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQP 166
           ++   +  +  P      L  ++++V+  +     A  F +PV      +PDY   I  P
Sbjct: 2   MEQVAMELRLTP------LTVLLRSVLDQLQDKDPARIFAQPVSL--KEVPDYLDHIKHP 53

Query: 167 MDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGM 226
           MD  T++KRLE   Y +  E  +DF  +  NC  YN         A  L       +   
Sbjct: 54  MDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNARDTVFYRAAVRLRDQGGVVLRQA 113

Query: 227 P--SEEVVLDAPQPRSSKKKP 245
               + + L+        ++P
Sbjct: 114 RREVDSIGLEEASGMHLPERP 134

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

 Score =  129 bits (326), Expect = 3e-35
 Identities = 38/121 (31%), Positives = 53/121 (43%), Gaps = 6/121 (4%)

Query: 370 TPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRN 429
           TPL       ++ +L  K     A  F  PV ++++   DY D IK PMD  T+RK++  
Sbjct: 12  TPL-TVLLRSVLDQLQDKDP---ARIFAQPVSLKEV--PDYLDHIKHPMDFATMRKRLEA 65

Query: 430 RTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASRAAA 489
           + YK   EF +D  LI  NC KYN  D      A +L         +   E +      A
Sbjct: 66  QGYKNLHEFEEDFDLIIDNCMKYNARDTVFYRAAVRLRDQGGVVLRQARREVDSIGLEEA 125

Query: 490 S 490
           S
Sbjct: 126 S 126

>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 =  132 bits (335), Expect = 2e-36
 Identities = 30/107 (28%), Positives = 46/107 (42%), Gaps = 5/107 (4%)

Query: 374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYK 433
             +   +   L   K       F  PVD +++   DY  +IK+PMDL +V  K+    Y 
Sbjct: 12  RIFLRNVTHRLAIDKR---FRVFTKPVDPDEV--PDYVTVIKQPMDLSSVISKIDLHKYL 66

Query: 434 TAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           T K++  D+ LI SN  +YNP       + R  +    D    +  E
Sbjct: 67  TVKDYLRDIDLICSNALEYNPDRDPGDRLIRHRACALRDTAYAIIKE 113

>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 =  120 bits (303), Expect = 3e-32
 Identities = 27/114 (23%), Positives = 49/114 (42%), Gaps = 6/114 (5%)

Query: 123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYW 182
            +L+  ++NV   +        F +PVD     +PDY  VI QPMDL ++  +++ + Y 
Sbjct: 9   RELRIFLRNVTHRLAIDKRFRVFTKPVDP--DEVPDYVTVIKQPMDLSSVISKIDLHKYL 66

Query: 183 SGKEAIQDFTTMFTNCYVYNKPGED----VVLMAQNLEQLFLTKITGMPSEEVV 232
           + K+ ++D   + +N   YN   +     +   A  L       I     E+  
Sbjct: 67  TVKDYLRDIDLICSNALEYNPDRDPGDRLIRHRACALRDTAYAIIKEELDEDFE 120

>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 =  129 bits (327), Expect = 2e-35
 Identities = 29/126 (23%), Positives = 52/126 (41%), Gaps = 2/126 (1%)

Query: 358 EGGGGSGLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKP 417
               G  LG            + +    + + Q  A PFY      K    DY+  IK P
Sbjct: 6   HHSSGVDLGTENLYFQSMQLYDTVRSCRNNQGQLIAEPFYHLPS--KKKYPDYYQQIKMP 63

Query: 418 MDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM 477
           + L  +R K++N+ Y+T      D+ L+F N  +YN P+  +     +L  V + +  ++
Sbjct: 64  ISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKEL 123

Query: 478 PDESNL 483
               ++
Sbjct: 124 ARRDDI 129

>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 =  121 bits (305), Expect = 2e-32
 Identities = 25/111 (22%), Positives = 39/111 (35%), Gaps = 4/111 (3%)

Query: 122 TNQLQYIVKNVMKAV--WKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENN 179
             Q   +   V           A PF+          PDY++ I  P+ L  I+ +L+N 
Sbjct: 19  YFQSMQLYDTVRSCRNNQGQLIAEPFYHLPSK--KKYPDYYQQIKMPISLQQIRTKLKNQ 76

Query: 180 YYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
            Y +      D   MF N   YN P   +      L+Q+   K   +   +
Sbjct: 77  EYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARRD 127

>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 =  135 bits (340), Expect = 2e-35
 Identities = 35/167 (20%), Positives = 62/167 (37%), Gaps = 2/167 (1%)

Query: 77  NESNSGNSTKAASVEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAV 136
           N      +  + S+     ++ + +          + P             +   V + +
Sbjct: 123 NGPKHSLTQISQSMLDLCDEKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKM 182

Query: 137 WKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFT 196
              P +WPFH PV+     +PDY+KVI  PMDL TI+K +  + Y S +  + D   +  
Sbjct: 183 MAVPDSWPFHHPVNK--KFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILA 240

Query: 197 NCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKK 243
           N   YN P       AQ +  +    +T        L+     + + 
Sbjct: 241 NSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTAKEA 287

>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 =  124 bits (312), Expect = 1e-31
 Identities = 30/108 (27%), Positives = 53/108 (49%), Gaps = 5/108 (4%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
            +   + +  ++        +WPF+ PV+  K  + DY+ +I  PMDL T+RK +    Y
Sbjct: 171 SFILDNIVTQKMMAVPD---SWPFHHPVN--KKFVPDYYKVIVNPMDLETIRKNISKHKY 225

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           ++ + F DDV LI +N  KYN P+      A+++  V      +  + 
Sbjct: 226 QSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEH 273

>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 =  121 bits (304), Expect = 2e-30
 Identities = 32/140 (22%), Positives = 61/140 (43%), Gaps = 2/140 (1%)

Query: 88  ASVEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHE 147
             + P  +           +  P      R       L  I+++++  +   P+ +PFH 
Sbjct: 11  QQLPPKKKRRVGTTVHCDYLNRPHKSIHRRRTDPMVTLSSILESIINDMRDLPNTYPFHT 70

Query: 148 PVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGED 207
           PV+A    + DY+K+IT+PMDL T+++ +    Y S +E  +    +  N   YN P   
Sbjct: 71  PVNA--KVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHS 128

Query: 208 VVLMAQNLEQLFLTKITGMP 227
           +  ++Q++  L   K+    
Sbjct: 129 LTQISQSMLDLCDEKLKEKE 148

>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 =  111 bits (278), Expect = 4e-27
 Identities = 38/176 (21%), Positives = 77/176 (43%), Gaps = 6/176 (3%)

Query: 342 RRESGSITKKPQRISEEGGGGSGLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVD 401
           +R  G+                        L       II ++   +     +PF+TPV+
Sbjct: 18  KRRVGTTVHCDYLNRPHKSIHRRRTDPMVTL-SSILESIINDM---RDLPNTYPFHTPVN 73

Query: 402 VEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVT 461
            + +   DY+ II +PMDL T+R+ +R R Y + +EF + + LI  N   YN P H++  
Sbjct: 74  AKVV--KDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQ 131

Query: 462 MARQLSAVFEDRFAKMPDESNLASRAAASVSSDDDSEDERQNQLKYLQEQLKSLTD 517
           +++ +  + +++  +  D+     +A   +  DDD           + +++ ++ D
Sbjct: 132 ISQSMLDLCDEKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKMMAVPD 187

>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 =  130 bits (328), Expect = 2e-35
 Identities = 32/137 (23%), Positives = 52/137 (37%), Gaps = 5/137 (3%)

Query: 108 QPPVVPPKHRPGRNTNQLQYIVKNVMKAVWK---HPHAWPFHEPVDAINLNLPDYHKVIT 164
                  K +      +++ +   V++A            F         + PDY+K+I 
Sbjct: 12  DTGSAKRKSKKNIRKQRMKILFNVVLEAREPGSGRRLCDLFMVKPSK--KDYPDYYKIIL 69

Query: 165 QPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKIT 224
           +PMDL  I+  + N+ Y   +  I+D   MF N   YN+ G  V   A  LE+L   K  
Sbjct: 70  EPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEKLLKEKRK 129

Query: 225 GMPSEEVVLDAPQPRSS 241
            +       D   P  +
Sbjct: 130 ELGPLPDDDDMASPAEN 146

>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 =  115 bits (289), Expect = 4e-30
 Identities = 29/117 (24%), Positives = 50/117 (42%), Gaps = 6/117 (5%)

Query: 375 KYCSEIIAELFHKKH-QNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYK 433
           K    ++ E       +     F       K    DY+ II +PMDL  +   +RN  Y 
Sbjct: 30  KILFNVVLEAREPGSGRRLCDLFMVKPS--KKDYPDYYKIILEPMDLKIIEHNIRNDKYA 87

Query: 434 TAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM---PDESNLASRA 487
             +   +D++L+F N   YN     V   A  L  + +++  ++   PD+ ++AS A
Sbjct: 88  GEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEKLLKEKRKELGPLPDDDDMASPA 144

>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 (324), Expect = 4e-35
 Identities = 27/122 (22%), Positives = 46/122 (37%), Gaps = 8/122 (6%)

Query: 114 PKHRPGRNTNQLQYIVKNVMKAVWK------HPHAWPFHEPVDAINLNLPDYHKVITQPM 167
              +  +    +Q  +  V +AV           +  F          LPDY+  I +PM
Sbjct: 5   ISPKKSKYMTPMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSR--SELPDYYLTIKKPM 62

Query: 168 DLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP 227
           D+  I+  +  N Y      ++DF  MF N   YN+P   +   A  L ++ L     + 
Sbjct: 63  DMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETRRDLE 122

Query: 228 SE 229
            +
Sbjct: 123 GD 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 =  116 bits (293), Expect = 5e-31
 Identities = 24/106 (22%), Positives = 42/106 (39%), Gaps = 2/106 (1%)

Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
               E +     K+ +  +  F       +  L DY+  IKKPMD+  +R  M    Y+ 
Sbjct: 21  NEVYEAVKNYTDKRGRRLSAIFLRLPS--RSELPDYYLTIKKPMDMEKIRSHMMANKYQD 78

Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
                +D  ++F+N   YN P+  +   A  L  V  +    +  +
Sbjct: 79  IDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETRRDLEGD 124

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

 Score =  125 bits (317), Expect = 3e-34
 Identities = 22/116 (18%), Positives = 45/116 (38%), Gaps = 5/116 (4%)

Query: 368 SKTPLWYKYCSEIIAELFHKKHQN---YAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVR 424
           S T      C E+   +   K +        F       +    DY++++ +P+DL  ++
Sbjct: 1   SMTVDPIAVCHELYNTIRDYKDEQGRLLCELFIRAPK--RRNQPDYYEVVSQPIDLMKIQ 58

Query: 425 KKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           +K++   Y        D +L+F+N   Y  PD      A +L  ++     +   +
Sbjct: 59  QKLKMEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTRNEFVQK 114

>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 =  112 bits (282), Expect = 1e-29
 Identities = 24/111 (21%), Positives = 38/111 (34%), Gaps = 4/111 (3%)

Query: 122 TNQLQYIVKNVMKAV--WKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENN 179
                 +   +              F         N PDY++V++QP+DL  I+++L+  
Sbjct: 7   IAVCHELYNTIRDYKDEQGRLLCELFIRAPKR--RNQPDYYEVVSQPIDLMKIQQKLKME 64

Query: 180 YYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
            Y        DF  +F N   Y KP       A  L  L+L        + 
Sbjct: 65  EYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTRNEFVQKG 115

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

 Score =  124 bits (313), Expect = 1e-33
 Identities = 26/119 (21%), Positives = 50/119 (42%), Gaps = 4/119 (3%)

Query: 113 PPKHRPGRNTNQLQYIVKNVMKAV--WKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLG 170
                P + T Q+  I+  V+          +  F +        LP+Y+++I +P+D  
Sbjct: 6   SGSPNPPKLTKQMNAIIDTVINYKDSSGRQLSEVFIQLPSR--KELPEYYELIRKPVDFK 63

Query: 171 TIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSE 229
            IK+R+ N+ Y S  +  +D   +  N   +N  G  +   +  L+ +F +     PS 
Sbjct: 64  KIKERIRNHKYRSLGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVFKSARQSGPSS 122

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

 Score =  122 bits (307), Expect = 7e-33
 Identities = 26/124 (20%), Positives = 52/124 (41%), Gaps = 5/124 (4%)

Query: 360 GGGSGLGGSKTPLWYKYCSEIIAELFHKK---HQNYAWPFYTPVDVEKLGLTDYFDIIKK 416
           G     G    P   K  + II  + + K    +  +  F       +  L +Y+++I+K
Sbjct: 1   GSSGSSGSPNPPKLTKQMNAIIDTVINYKDSSGRQLSEVFIQLPS--RKELPEYYELIRK 58

Query: 417 PMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAK 476
           P+D   +++++RN  Y++  +   DV L+  N   +N     +   +  L +VF+     
Sbjct: 59  PVDFKKIKERIRNHKYRSLGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVFKSARQS 118

Query: 477 MPDE 480
            P  
Sbjct: 119 GPSS 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 =  124 bits (312), Expect = 2e-33
 Identities = 22/116 (18%), Positives = 40/116 (34%), Gaps = 4/116 (3%)

Query: 117 RPGRNTNQLQYIVKNVMKAV--WKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKK 174
           R  R     + I   ++      +   A P             DY++ I+ P+DL TI+K
Sbjct: 6   RAARLAQIFKEICDGIISYKDSSRQALAAPLLNLPPK--KKNADYYEKISDPLDLITIEK 63

Query: 175 RLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
           ++   YY + +    D   +F N   Y      V      L + +        ++ 
Sbjct: 64  QILTGYYKTVEAFDADMLKVFRNAEKYYGRKSPVGRDVCRLRKAYYNARHEASAQI 119

>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 =  111 bits (280), Expect = 4e-29
 Identities = 25/109 (22%), Positives = 42/109 (38%), Gaps = 2/109 (1%)

Query: 374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYK 433
           +K   + I        Q  A P        K    DY++ I  P+DL T+ K++    YK
Sbjct: 14  FKEICDGIISYKDSSRQALAAPLLNLPP--KKKNADYYEKISDPLDLITIEKQILTGYYK 71

Query: 434 TAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESN 482
           T + F  D+  +F N  KY      V     +L   + +   +   + +
Sbjct: 72  TVEAFDADMLKVFRNAEKYYGRKSPVGRDVCRLRKAYYNARHEASAQID 120

>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 =  123 bits (311), Expect = 2e-33
 Identities = 26/120 (21%), Positives = 53/120 (44%), Gaps = 5/120 (4%)

Query: 114 PKHRPGRNTNQLQYIVKNVMK---AVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLG 170
               P   T +++ IV  V+K   +      +  F +        LP+Y+++I +P+D  
Sbjct: 5   LSPNPPNLTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSR--KELPEYYELIRKPVDFK 62

Query: 171 TIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
            IK+R+ N+ Y S  +  +D   +  N   +N  G  +   +  L+ +F +    +  E+
Sbjct: 63  KIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKED 122

>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 =  122 bits (307), Expect = 8e-33
 Identities = 22/114 (19%), Positives = 48/114 (42%), Gaps = 2/114 (1%)

Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
           K    +I        +  +  F       +  L +Y+++I+KP+D   +++++RN  Y++
Sbjct: 18  KIVDAVIKYKDSSSGRQLSEVFIQLPS--RKELPEYYELIRKPVDFKKIKERIRNHKYRS 75

Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASRAA 488
             +   DV L+  N   +N     +   +  L +VF     K+  E +     +
Sbjct: 76  LNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDDSEGEES 129

>2r0y_A Chromatin structure-remodeling complex protein RSC4; bromodomain, chromatin, remodeler, RSC, acetylation, transcription, chromatin regulator, nucleus, phosphorylation; HET: ALY; 1.75A {Saccharomyces cerevisiae} PDB: 2r0s_A Length = 311

 Score =  119 bits (298), Expect = 1e-29
 Identities = 28/131 (21%), Positives = 50/131 (38%), Gaps = 4/131 (3%)

Query: 374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYK 433
            +      +          + PF   VD  K  L +Y++I+  PM L  V++ +    Y 
Sbjct: 162 NQALLGASSPKNLDDKVKLSEPFMELVD--KDELPEYYEIVHSPMALSIVKQNLEIGQYS 219

Query: 434 TAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM--PDESNLASRAAASV 491
              +F  D+ L+F N + +N P   +   A  L+  F     K   P+  +L  R   ++
Sbjct: 220 KIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEFFPELQDLNERGEINL 279

Query: 492 SSDDDSEDERQ 502
             D    +   
Sbjct: 280 EFDKFEFENYL 290

>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 =  113 bits (283), Expect = 1e-27
 Identities = 33/165 (20%), Positives = 54/165 (32%), Gaps = 2/165 (1%)

Query: 108 QPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPM 167
              +        +  NQ      +      K   + PF E VD     LP+Y++++  PM
Sbjct: 147 LHYLNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFMELVDK--DELPEYYEIVHSPM 204

Query: 168 DLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP 227
            L  +K+ LE   Y    + I D   +F N +++N P   +   A  L   F   I    
Sbjct: 205 ALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEF 264

Query: 228 SEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATS 272
             E+     +   + +         L      P        SA  
Sbjct: 265 FPELQDLNERGEINLEFDKFEFENYLAIGGGGPAAAGALAISALD 309

>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 = 99.4 bits (247), Expect = 6e-23
 Identities = 24/139 (17%), Positives = 44/139 (31%), Gaps = 11/139 (7%)

Query: 90  VEPPPRDEPR-LEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEP 148
           ++P   D    L P   +       PK         + + +  ++           F + 
Sbjct: 2   IDPFTVDYNAPLNPKSELFLDDWHIPKFN-----RFISFTLDVLIDK--YKDIFKDFIKL 54

Query: 149 VDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDV 208
                   P Y+  I QPM +  IK R +  Y       + D   +  NC  YN+    +
Sbjct: 55  PSR--KFHPQYYYKIQQPMSINEIKSR-DYEYEDGPSNFLLDVELLTKNCQAYNEYDSLI 111

Query: 209 VLMAQNLEQLFLTKITGMP 227
           V  +  +  L   ++    
Sbjct: 112 VKNSMQVVMLIEFEVLKAK 130

>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 = 97.8 bits (243), Expect = 2e-22
 Identities = 23/143 (16%), Positives = 50/143 (34%), Gaps = 4/143 (2%)

Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
             P + ++ S  +  L   K+++    F       +     Y+  I++PM +  ++ +  
Sbjct: 25  HIPKFNRFISFTLDVLI-DKYKDIFKDFIKLPS--RKFHPQYYYKIQQPMSINEIKSR-D 80

Query: 429 NRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASRAA 488
                    F  DV L+  NC  YN  D  +V  + Q+  + E    K  +        +
Sbjct: 81  YEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVMLIEFEVLKAKNLKRNYLINS 140

Query: 489 ASVSSDDDSEDERQNQLKYLQEQ 511
              +      ++  +  +    Q
Sbjct: 141 EVKAKLLHYLNKLVDATEKKINQ 163

>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 =  111 bits (279), Expect = 3e-28
 Identities = 41/177 (23%), Positives = 65/177 (36%), Gaps = 23/177 (12%)

Query: 328 LHPTPVKSAKQLNTRRESGSITKKPQRISEEGGGGSGLGGSKTPLWYKYCSEIIAELFHK 387
             PT +              I K       +    S  G +   L      +    L + 
Sbjct: 34  HVPTLLSFPSGDWICTFCRDIGKPEVEYDCDNLQHSKKGKTAQGLSPVDQRKCERLLLYL 93

Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRT---YKTAKEFADDVRL 444
                +  F  PV      + +Y+ IIKKPMDL TV+KK++ +    Y+   +F  DVRL
Sbjct: 94  YCHELSIEFQEPVP---ASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRL 150

Query: 445 IFSNCYKYNPP-----------------DHNVVTMARQLSAVFEDRFAKMPDESNLA 484
           IF NC ++N                   D  V    + ++  FED+  ++  +   A
Sbjct: 151 IFKNCERFNEMMKVVQVYADTQEINLKADSEVAQAGKAVALYFEDKLTEIYSDRTFA 207

>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 =  103 bits (257), Expect = 2e-25
 Identities = 30/136 (22%), Positives = 57/136 (41%), Gaps = 6/136 (4%)

Query: 90  VEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPV 149
           +    RD  + E                    +   Q   + ++  ++ H  +  F EPV
Sbjct: 47  ICTFCRDIGKPEVEYDCDNLQHSKKGKTAQGLSPVDQRKCERLLLYLYCHELSIEFQEPV 106

Query: 150 DAINLNLPDYHKVITQPMDLGTIKKRLE---NNYYWSGKEAIQDFTTMFTNCYVYNKPGE 206
                ++P+Y+K+I +PMDL T+KK+L+   + +Y    + + D   +F NC  +N+  +
Sbjct: 107 P---ASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKNCERFNEMMK 163

Query: 207 DVVLMAQNLEQLFLTK 222
            V + A   E      
Sbjct: 164 VVQVYADTQEINLKAD 179

>2jns_A Bromodomain-containing protein 4; ET-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 90

 Score =  106 bits (267), Expect = 6e-28
 Identities = 66/86 (76%), Positives = 77/86 (89%)

Query: 608 RTFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDF 667
            + +SE+ED  KPMSY+EKRQLSLDINKLPG+KLG+VVHIIQSREPSL+  NPDEIEIDF
Sbjct: 5   SSGESEEEDKCKPMSYEEKRQLSLDINKLPGEKLGRVVHIIQSREPSLKNSNPDEIEIDF 64

Query: 668 ETLKPSTLRELEQYVSSCLRKRTYKK 693
           ETLKPSTLRELE+YV+SCLRK+   +
Sbjct: 65  ETLKPSTLRELERYVTSCLRKKRKPQ 90

>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 =  111 bits (279), Expect = 8e-27
 Identities = 28/132 (21%), Positives = 50/132 (37%), Gaps = 4/132 (3%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
             +      +          + PF   VD  K  L +Y++I+  PM L  V++ +    Y
Sbjct: 211 INQALLGASSPKNLDDKVKLSEPFMELVD--KDELPEYYEIVHSPMALSIVKQNLEIGQY 268

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM--PDESNLASRAAAS 490
               +F  D+ L+F N + +N P   +   A  L+  F     K   P+  +L  R   +
Sbjct: 269 SKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEFFPELQDLNERGEIN 328

Query: 491 VSSDDDSEDERQ 502
           +  D    +   
Sbjct: 329 LEFDKFEFENYL 340

>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 =  106 bits (265), Expect = 6e-25
 Identities = 33/166 (19%), Positives = 54/166 (32%), Gaps = 2/166 (1%)

Query: 108 QPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPM 167
              +        +  NQ      +      K   + PF E VD     LP+Y++++  PM
Sbjct: 197 LHYLNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFMELVDK--DELPEYYEIVHSPM 254

Query: 168 DLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP 227
            L  +K+ LE   Y    + I D   +F N +++N P   +   A  L   F   I    
Sbjct: 255 ALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEF 314

Query: 228 SEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATST 273
             E+     +   + +         L      P        SA   
Sbjct: 315 FPELQDLNERGEINLEFDKFEFENYLAIGGGGPAAAGALAISALDN 360

>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 = 94.5 bits (234), Expect = 6e-21
 Identities = 24/172 (13%), Positives = 50/172 (29%), Gaps = 7/172 (4%)

Query: 48  PPSSTEVTPVKKSPAPPSSSSSAPAPSHHNESNSGNSTKAASVEPPPRDEPRLEPVDGIV 107
           P ++   +   K+P            +   E+   +          P+++ +   VD   
Sbjct: 4   PFTTARKSTGGKAPRKGGMVVKKRKLA--TEAGGSDERPKYLPGKHPKNQEKTPHVDYNA 61

Query: 108 QPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKH--PHAWPFHEPVDAINLNLPDYHKVITQ 165
                        +  +    +   +  +          F +         P Y+  I Q
Sbjct: 62  PLNPKSELFLDDWHIPKFNRFISFTLDVLIDKYKDIFKDFIKLPSR--KFHPQYYYKIQQ 119

Query: 166 PMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQ 217
           PM +  IK R +  Y       + D   +  NC  YN+    +V  +  +  
Sbjct: 120 PMSINEIKSR-DYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVM 170

>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 = 89.5 bits (221), Expect = 2e-19
 Identities = 30/178 (16%), Positives = 60/178 (33%), Gaps = 14/178 (7%)

Query: 289 TTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAKQLNTRRESGSI 348
            TTA K     +         K+ +  +A GS +         P    K  +    +   
Sbjct: 5   FTTARKSTGGKAPRKGGMVVKKRKLATEAGGSDERPKYLPGKHPKNQEKTPHVDYNAPLN 64

Query: 349 TKKPQRISEEGGGGSGLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLT 408
            K    + +             P + ++ S  + ++   K+++    F       +    
Sbjct: 65  PKSELFLDD----------WHIPKFNRFISFTL-DVLIDKYKDIFKDFIKLPS--RKFHP 111

Query: 409 DYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQL 466
            Y+  I++PM +  ++ +           F  DV L+  NC  YN  D  +V  + Q+
Sbjct: 112 QYYYKIQQPMSINEIKSR-DYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQV 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 = 96.5 bits (239), Expect = 4e-23
 Identities = 20/120 (16%), Positives = 36/120 (30%), Gaps = 8/120 (6%)

Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
              L      +    L          P +              D     +DL  +R +++
Sbjct: 70  VAKLSPANQRKCERVLLALFCHEPCRPLHQLATDST----FSLDQPGGTLDLTLIRARLQ 125

Query: 429 NRT---YKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLAS 485
            +    Y + +EFA DV  +F    K        V     L   FE R  +   ++  ++
Sbjct: 126 EKLSPPYSSPQEFAQDVGRMFKQFNKLTEDKA-DVQSIIGLQRFFETRMNEAFGDTKFSA 184

>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 = 75.7 bits (185), Expect = 7e-16
 Identities = 23/117 (19%), Positives = 42/117 (35%), Gaps = 9/117 (7%)

Query: 126 QYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLE---NNYYW 182
           Q   + V+ A++ H    P H+       +           +DL  I+ RL+   +  Y 
Sbjct: 78  QRKCERVLLALFCHEPCRPLHQLAT----DSTFSLDQPGGTLDLTLIRARLQEKLSPPYS 133

Query: 183 SGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGM-PSEEVVLDAPQP 238
           S +E  QD   MF       +  +  V     L++ F T++       +      +P
Sbjct: 134 SPQEFAQDVGRMFKQFNKLTED-KADVQSIIGLQRFFETRMNEAFGDTKFSAVLVEP 189

>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 = 92.6 bits (230), Expect = 3e-22
 Identities = 21/144 (14%), Positives = 47/144 (32%), Gaps = 10/144 (6%)

Query: 371 PLWYKYCSEIIAELFHKKHQN---YAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKM 427
            L  +    +   +   +      Y+               D     K P+    +RK +
Sbjct: 6   LLIQELIHNLFVSVMSHQDDEGRCYSDSLAEIPA------VDPNFPNKPPLTFDIIRKNV 59

Query: 428 RNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM-PDESNLASR 486
            N  Y+    F + +  +     + N  D  +   A +L   F     ++  +   L S 
Sbjct: 60  ENNRYRRLDLFQEHMFEVLERARRMNRTDSEIYEDAVELQQFFIKIRDELCKNGEILLSP 119

Query: 487 AAASVSSDDDSEDERQNQLKYLQE 510
           A +  +    ++ E++ + K  +E
Sbjct: 120 ALSYTTKHLHNDVEKERKEKLPKE 143

>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 = 83.8 bits (207), Expect = 4e-19
 Identities = 21/122 (17%), Positives = 45/122 (36%), Gaps = 4/122 (3%)

Query: 125 LQYIVKNVMKAVWKHPHAW--PFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYW 182
           +Q ++ N+  +V  H       + + +  I    P++      P+    I+K +ENN Y 
Sbjct: 8   IQELIHNLFVSVMSHQDDEGRCYSDSLAEIPAVDPNFPNK--PPLTFDIIRKNVENNRYR 65

Query: 183 SGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSK 242
                 +    +       N+   ++   A  L+Q F+     +     +L +P    + 
Sbjct: 66  RLDLFQEHMFEVLERARRMNRTDSEIYEDAVELQQFFIKIRDELCKNGEILLSPALSYTT 125

Query: 243 KK 244
           K 
Sbjct: 126 KH 127

>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 = 74.2 bits (181), Expect = 2e-15
 Identities = 15/105 (14%), Positives = 33/105 (31%), Gaps = 9/105 (8%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
                 E+   L             + +              ++P+DL  V++KM    Y
Sbjct: 69  RLALEKELQISLKQVLTALLNSRTTSHL---------LRYRQQQPLDLEGVKRKMDQGNY 119

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM 477
            +  EF+DD+  I       +     +      + + F  +  ++
Sbjct: 120 TSVLEFSDDIVKIIQAAINSDGGQPEIKKANSMVKSFFIRQMERV 164

>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 = 62.3 bits (150), Expect = 2e-11
 Identities = 11/104 (10%), Positives = 35/104 (33%), Gaps = 1/104 (0%)

Query: 120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENN 179
             T +     +  ++   +          +++   +         QP+DL  +K++++  
Sbjct: 59  NCTERHPAEWRLALEKELQISLKQVLTALLNSRTTS-HLLRYRQQQPLDLEGVKRKMDQG 117

Query: 180 YYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI 223
            Y S  E   D   +       +    ++      ++  F+ ++
Sbjct: 118 NYTSVLEFSDDIVKIIQAAINSDGGQPEIKKANSMVKSFFIRQM 161

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 53.3 bits (127), Expect = 3e-07
 Identities = 69/479 (14%), Positives = 139/479 (29%), Gaps = 144/479 (30%)

Query: 324 TPSSLHPTPVKSAKQLNTRRESGSITKKPQRISEEGGGGSGLGGSKTPL----------- 372
                    V   +     R++    +  + +  +G  GSG    KT +           
Sbjct: 122 DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSG----KTWVALDVCLSYKVQ 177

Query: 373 --------W--YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGT 422
                   W   K C+     L  +  Q         +D      +D+   IK  +    
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVL--EMLQK----LLYQIDPNWTSRSDHSSNIKLRIHSIQ 231

Query: 423 VRKK--MRNRTYKTAKEFADDV---RLI--FS-NCYKYNPPDHNVVTMARQLSAVFEDRF 474
              +  ++++ Y+       +V   +    F+ +C K       ++T           RF
Sbjct: 232 AELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC-KI------LLTT----------RF 274

Query: 475 AKMPDESNLASRAAASVSSDDDS----EDERQNQL-KYLQEQLKSLTDQIRLLVEDSTKP 529
            ++ D   L++     +S D  S     DE ++ L KYL  + + L             P
Sbjct: 275 KQVTDF--LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL-------------P 319

Query: 530 KKKKKKNRDQPKSKMPMGQNSAMMNDHVN------KMNKAPAPLNNGQKPKSLNNVRKPQ 583
           ++    N   P     +   +  + D +        +N     L    +  SLN +    
Sbjct: 320 REVLTTN---P---RRLSIIAESIRDGLATWDNWKHVNC--DKLTTIIE-SSLNVL---- 366

Query: 584 ASNPQQAKK--------PKPNNANTVAAKKQVRTFDSEDEDVAKPMSYDEKRQLSLDINK 635
              P + +K        P   +A+       +  FD    DV   ++   K  L   + K
Sbjct: 367 --EPAEYRKMFDRLSVFPP--SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL---VEK 419

Query: 636 LPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLREL-EQYVSSCLRKRTYKKT 694
            P  +    +  I      L+    +E  +          R + + Y  +  +       
Sbjct: 420 QP-KESTISIPSIYLE---LKVKLENEYALH---------RSIVDHY--NIPKTFDSDDL 464

Query: 695 PKPKDEKF--------------AEKKHELEKRLQDVTSQIDSTNKKLKKPKPTTSAAGP 739
             P  +++               E+         D         +K++      +A+G 
Sbjct: 465 IPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLD----FRFLEQKIRHDSTAWNASGS 519

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	779
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	100.0
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	100.0
2r10_A	361	Chromatin structure-remodeling complex protein RSC	100.0
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	100.0
4alg_A	154	Bromodomain-containing protein 2; signaling protei	99.97
2ouo_A	130	HUNK1 protein, bromodomain-containing protein 4; B	99.97
2oss_A	127	HUNK1 protein, bromodomain-containing protein 4; B	99.97
3jvl_A	120	Bromodomain-containing protein 4; alpha helical, N	99.96
2ouo_A	130	HUNK1 protein, bromodomain-containing protein 4; B	99.94
2oss_A	127	HUNK1 protein, bromodomain-containing protein 4; B	99.94
2dat_A	123	Possible global transcription activator SNF2L2; br	99.94
4alg_A	154	Bromodomain-containing protein 2; signaling protei	99.94
3g0l_A	117	Hwalp4, bromodomain adjacent to zinc finger domain	99.93
3g0l_A	117	Hwalp4, bromodomain adjacent to zinc finger domain	99.93
3d7c_A	112	General control of amino acid synthesis protein 5;	99.93
3jvl_A	120	Bromodomain-containing protein 4; alpha helical, N	99.93
2grc_A	129	Probable global transcription activator SNF2L4; br	99.93
2dat_A	123	Possible global transcription activator SNF2L2; br	99.93
3d7c_A	112	General control of amino acid synthesis protein 5;	99.93
3mb4_A	124	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.93
1e6i_A	121	Transcriptional activator GCN5; gene regulation, b	99.93
3fkm_X	166	Signaling protein; bromodomain, malaria, structura	99.93
3p1f_A	119	CREB-binding protein; structural genomics consorti	99.92
3p1f_A	119	CREB-binding protein; structural genomics consorti	99.92
3fkm_X	166	Signaling protein; bromodomain, malaria, structura	99.92
3iu5_A	116	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.92
1e6i_A	121	Transcriptional activator GCN5; gene regulation, b	99.92
2yyn_A	135	Transcription intermediary factor 1-alpha; bromo d	99.92
2d9e_A	121	Peregrin; four-helix bundle, transcription activat	99.92
3nxb_A	116	CAT eye syndrome critical region protein 2; struct	99.92
2d9e_A	121	Peregrin; four-helix bundle, transcription activat	99.92
2i7k_A	117	Bromodomain-containing protein 7; helix, LEFT-hand	99.92
3mb4_A	124	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.92
2i7k_A	117	Bromodomain-containing protein 7; helix, LEFT-hand	99.92
3mb3_A	135	PH-interacting protein; PHIP, pleckstrin homology	99.92
3q2e_A	123	Bromodomain and WD repeat-containing protein 1; st	99.92
3ljw_A	120	Protein polybromo-1; alpha helix, alternative spli	99.92
3mqm_A	126	Probable histone-lysine N-methyltransferase ASH1L;	99.92
3nxb_A	116	CAT eye syndrome critical region protein 2; struct	99.92
2yyn_A	135	Transcription intermediary factor 1-alpha; bromo d	99.92
3q2e_A	123	Bromodomain and WD repeat-containing protein 1; st	99.92
3mb3_A	135	PH-interacting protein; PHIP, pleckstrin homology	99.91
3k2j_A	130	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.91
2grc_A	129	Probable global transcription activator SNF2L4; br	99.91
3hme_A	123	Bromodomain-containing protein 9; BRD9, bromodomai	99.91
3ljw_A	120	Protein polybromo-1; alpha helix, alternative spli	99.91
3rcw_A	135	Bromodomain-containing protein 1; transcription, s	99.91
3hme_A	123	Bromodomain-containing protein 9; BRD9, bromodomai	99.91
3mqm_A	126	Probable histone-lysine N-methyltransferase ASH1L;	99.91
3rcw_A	135	Bromodomain-containing protein 1; transcription, s	99.91
3uv4_A	158	Second bromodomain of human transcription initiat	99.91
2jns_A	90	Bromodomain-containing protein 4; ET-domain, struc	99.9
3iu5_A	116	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.9
3k2j_A	130	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.9
3uv4_A	158	Second bromodomain of human transcription initiat	99.9
3tlp_A	150	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.89
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	99.89
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	99.89
3dai_A	130	ATPase family AAA domain-containing protein 2; anc	99.89
3tlp_A	150	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.88
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	99.87
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	99.87
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	99.87
3dai_A	130	ATPase family AAA domain-containing protein 2; anc	99.87
2dkw_A	131	Hypothetical protein KIAA1240; bromodomain-like, f	99.87
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	99.86
2dkw_A	131	Hypothetical protein KIAA1240; bromodomain-like, f	99.86
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	99.85
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	99.85
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	99.85
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	99.82
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	99.81
2r10_A	361	Chromatin structure-remodeling complex protein RSC	99.8
3iu6_A	147	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.73
3iu6_A	147	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.71
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	99.45
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	99.4
2lm0_A	125	AF4/FMR2 family member 1/protein AF-9 chimera; int	93.82

>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=5.8e-45  Score=385.16  Aligned_cols=225  Identities=28%  Similarity=0.501  Sum_probs=190.5

Q ss_pred             hHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        122 TNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      ...|..+|..||..|++|+.+|||..||++.  .+||||.+|++||||+||++||++|.|.++.+|+.||+|||+||++|
T Consensus        12 ~~~l~~~l~~il~~l~~~~~~~~F~~pv~~~--~~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~y   89 (265)
T 3uv5_A           12 MVTLSSILESIINDMRDLPNTYPFHTPVNAK--VVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY   89 (265)
T ss_dssp             HHHHHHHHHHHHHHHHTSTTCGGGTSCCCTT--TSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCchhhhCCCChh--hcCCHHHHhCCCCcHHHHHHHHHcCCCCCHHHHHHHHHHHHhhhhhc
Confidence            5689999999999999999999999999976  69999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHhCCCCcccccCCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCCCCC
Q psy14234        202 NKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATSTPKPRPPNP  281 (779)
Q Consensus       202 N~~~s~i~~~A~~Le~~f~~~~~~~~~~e~~~~~~~~k~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~  281 (779)
                      |+++|.|+.+|..|+.+|.+.|.++......                                                 
T Consensus        90 N~~~s~i~~~A~~l~~~~~~~~~~~~~~~~~-------------------------------------------------  120 (265)
T 3uv5_A           90 NGPKHSLTQISQSMLDLCDEKLKEKEDKLAR-------------------------------------------------  120 (265)
T ss_dssp             HCTTCHHHHHHHHHHHHHHHHHHHTHHHHHH-------------------------------------------------
T ss_pred             CCCCChHHHHHHHHHHHHHHHHHHHhhhhhh-------------------------------------------------
Confidence            9999999999999999999999875221000                                                 


Q ss_pred             CCCCCCCCCCCccccccCCCCCCCChhHHHhhhhccCCCCCCCCCCCCCCCcchhhhcccccccCCCCCCCCCCCcCCCC
Q psy14234        282 VLGSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQRISEEGGG  361 (779)
Q Consensus       282 ~~~~~~~~~~~~~s~~~~~~~~p~~~~~kk~~krkadtt~d~tPt~~~~~~~~~~~~~~~rres~R~~k~p~~~l~~~~~  361 (779)
                                                 ..++.          .|                          ...   +   
T Consensus       121 ---------------------------~ek~i----------~p--------------------------~~d---d---  131 (265)
T 3uv5_A          121 ---------------------------LEKAI----------NP--------------------------LLD---D---  131 (265)
T ss_dssp             ---------------------------HHHHH----------ST--------------------------TTT---C---
T ss_pred             ---------------------------hhhhh----------hh--------------------------ccc---c---
Confidence                                       00000          00                          000   0   


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHHHhc--cCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHH
Q psy14234        362 GSGLGGSKTPLWYKYCSEIIAELFHK--KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFA  439 (779)
Q Consensus       362 ~~~~~~~~~~~~~k~c~~iL~~l~~~--k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~  439 (779)
                                .....|..||..++.+  ..+..+|||+.||+...  +||||+||++||||+||++||++|.|.++.+|.
T Consensus       132 ----------~~~~~~~~il~~i~~~~l~~~~~~~~F~~pv~~~~--~pdY~~iIk~Pmdl~tI~~kl~~~~Y~~~~~f~  199 (265)
T 3uv5_A          132 ----------DDQVAFSFILDNIVTQKMMAVPDSWPFHHPVNKKF--VPDYYKVIVNPMDLETIRKNISKHKYQSRESFL  199 (265)
T ss_dssp             ----------HHHHHHHHHHHHHHHHTTTTSTTCGGGTSCCCTTT--STTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHH
T ss_pred             ----------chhhHHHHHHHHHHHHHHHhhhhhHHHhCCCChhH--hCcHHHHhCCcccHHHHHHHHhcCCCCCHHHHH
Confidence                      0122234444444332  22356999999999876  899999999999999999999999999999999


Q ss_pred             HHHHHhhhhhcccCCCCChHHHHHHHHHHHHHHHHhcCC
Q psy14234        440 DDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMP  478 (779)
Q Consensus       440 ~Dv~Lmf~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~  478 (779)
                      .||+|||.||++||+++|.||.+|..|+.+|+..|.++.
T Consensus       200 ~D~~lif~Na~~yN~~~s~~~~~A~~l~~~~~~~~~~~~  238 (265)
T 3uv5_A          200 DDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYD  238 (265)
T ss_dssp             HHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHHHHHTH
T ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999985

>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=3.5e-44  Score=383.73  Aligned_cols=224  Identities=29%  Similarity=0.492  Sum_probs=186.6

Q ss_pred             hHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        122 TNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      ...|..+|..||+.|+.|+.+|||..||++.  .+||||.+|++||||+||++||+++.|.++.+|..||+|||.||++|
T Consensus        45 ~~~l~~~~~~il~~l~~~~~a~~F~~pV~~~--~~pdY~~iIk~PmDL~tIk~kl~~~~Y~s~~~f~~D~~li~~Na~~y  122 (292)
T 3aad_A           45 MVTLSSILESIINDMRDLPNTYPFHTPVNAK--VVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY  122 (292)
T ss_dssp             HHHHHHHHHHHHHHHSSSTTCGGGSSSCCTT--TSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCcchhhcCCCCch--hcccHHHHcCCcCCHHHHHHHhhCCCcCCHHHHHHHHHHHHHHHHHH
Confidence            4678899999999999999999999999976  79999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHhCCCCcccccCCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCCCCC
Q psy14234        202 NKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATSTPKPRPPNP  281 (779)
Q Consensus       202 N~~~s~i~~~A~~Le~~f~~~~~~~~~~e~~~~~~~~k~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~  281 (779)
                      |++++.|+.+|..|+++|.+.|.++.......                                                
T Consensus       123 N~~~s~i~~~A~~L~~~~~~~~~~~~~~~~~~------------------------------------------------  154 (292)
T 3aad_A          123 NGPKHSLTQISQSMLDLCDEKLKEKEDKLARL------------------------------------------------  154 (292)
T ss_dssp             TCSSSHHHHHHTHHHHTTTTTGGGSHHHHHHH------------------------------------------------
T ss_pred             cCCchHHHHHHHHHHHHHHhhhhcchhhhhhh------------------------------------------------
Confidence            99999999999999999988777642110000                                                


Q ss_pred             CCCCCCCCCCCccccccCCCCCCCChhHHHhhhhccCCCCCCCCCCCCCCCcchhhhcccccccCCCCCCCCCCCcCCCC
Q psy14234        282 VLGSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQRISEEGGG  361 (779)
Q Consensus       282 ~~~~~~~~~~~~~s~~~~~~~~p~~~~~kk~~krkadtt~d~tPt~~~~~~~~~~~~~~~rres~R~~k~p~~~l~~~~~  361 (779)
                                                  .     ++  .   .|..                           +  +   
T Consensus       155 ----------------------------e-----~~--i---~Pl~---------------------------d--d---  164 (292)
T 3aad_A          155 ----------------------------E-----KA--I---NPLL---------------------------D--D---  164 (292)
T ss_dssp             ----------------------------H-----HT--T---SSST---------------------------T--C---
T ss_pred             ----------------------------h-----hc--c---cccc---------------------------c--c---
Confidence                                        0     00  0   0000                           0  0   


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHHHhc--cCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHH
Q psy14234        362 GSGLGGSKTPLWYKYCSEIIAELFHK--KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFA  439 (779)
Q Consensus       362 ~~~~~~~~~~~~~k~c~~iL~~l~~~--k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~  439 (779)
                                .....|..+|..++..  ..+..+|||+.|||...  +||||+||++||||+||++||++|.|.++.+|.
T Consensus       165 ----------~~~~~~~~~l~~i~~~~l~~~~~s~~F~~pvd~~~--~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~  232 (292)
T 3aad_A          165 ----------DDQVAFSFILDNIVTQKMMAVPDSWPFHHPVNKKF--VPDYYKVIVNPMDLETIRKNISKHKYQSRESFL  232 (292)
T ss_dssp             ----------HHHHHHHHHHHHHHHHTGGGSTTCGGGTSCCCTTT--STTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHH
T ss_pred             ----------chhHHHHHHHHHHhhhhhhcCcchhHHHhcccccc--cccHHHHcCCcCCHHHHHHHHhcCCCCCHHHHH
Confidence                      0001233344444321  23457999999999765  899999999999999999999999999999999


Q ss_pred             HHHHHhhhhhcccCCCCChHHHHHHHHHHHHHHHHhcC
Q psy14234        440 DDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       440 ~Dv~Lmf~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      +||+|||.||++||+++|.||.+|..|+++|+..|..+
T Consensus       233 ~D~~Li~~Na~~yN~~~s~i~~~A~~L~~~~~~~~~~~  270 (292)
T 3aad_A          233 DDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEY  270 (292)
T ss_dssp             HHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999875

>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=7.8e-42  Score=375.56  Aligned_cols=231  Identities=19%  Similarity=0.273  Sum_probs=174.9

Q ss_pred             HHHHHHHHHHHHHHHcC--CCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhh
Q psy14234        123 NQLQYIVKNVMKAVWKH--PHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYV  200 (779)
Q Consensus       123 ~~l~~~~~~il~~L~~~--~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~  200 (779)
                      ..|..+|..+|+.|.+.  ..+++|+.||+..  ++||||.||++||||+||++|| ..+|.++.+|+.||+|||.||++
T Consensus        77 ~~~~~~~~~~l~~l~~~~~~~~~~F~~p~~~~--~~PdY~~iIk~Pmdl~tI~~kl-~~y~~~~~~f~~D~~li~~Na~~  153 (361)
T 2r10_A           77 PKFNRFISFTLDVLIDKYKDIFKDFIKLPSRK--FHPQYYYKIQQPMSINEIKSRD-YEYEDGPSNFLLDVELLTKNCQA  153 (361)
T ss_dssp             TTHHHHHHHHHHHHHHHTHHHHGGGSSCCCTT--TCTTHHHHCSSCCCHHHHHTSC-CCSTTHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCcccHHhcCCCCcc--cCCChHhhcCCCcCHHHHHHHh-hccCCCHHHHHHHHHHHHHHHhh
Confidence            34677888888888663  4589999999954  8999999999999999999999 33334899999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHhCCCCcccccCCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCCCC
Q psy14234        201 YNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATSTPKPRPPN  280 (779)
Q Consensus       201 yN~~~s~i~~~A~~Le~~f~~~~~~~~~~e~~~~~~~~k~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~  280 (779)
                      ||+++|.||.+|..|+++|.+.|.+...            ...      ..           .+                
T Consensus       154 yN~~~s~i~~~a~~l~~~~~~~~~k~k~------------~~~------~~-----------~i----------------  188 (361)
T 2r10_A          154 YNEYDSLIVKNSMQVVMLIEFEVLKAKN------------LKR------NY-----------LI----------------  188 (361)
T ss_dssp             HBCSSSHHHHHHHHHHHHHHHHHHHHHT------------TTT------CC-----------BC----------------
T ss_pred             cCCCCCHHHHHHHHHHHHHHHHHhhccc------------cCC------cC-----------cC----------------
Confidence            9999999999999999999999885310            000      00           00                


Q ss_pred             CCCCCCCCCCCCccccccCCCCCCCChhHHHhhhhccCCCCCCCCCCCCCCCcchhhhcccccccCCCCCCCCCCCcCCC
Q psy14234        281 PVLGSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQRISEEGG  360 (779)
Q Consensus       281 ~~~~~~~~~~~~~~s~~~~~~~~p~~~~~kk~~krkadtt~d~tPt~~~~~~~~~~~~~~~rres~R~~k~p~~~l~~~~  360 (779)
                                               +...+++..+-.++-.  ..     .+                            
T Consensus       189 -------------------------~~~~k~~l~~~~~~l~--~~-----~~----------------------------  208 (361)
T 2r10_A          189 -------------------------NSEVKAKLLHYLNKLV--DA-----TE----------------------------  208 (361)
T ss_dssp             -------------------------CHHHHHHHHHHHHHHH--HC-----CH----------------------------
T ss_pred             -------------------------CHHHHHHHHHHHHHhh--cc-----ch----------------------------
Confidence                                     0001111111000000  00     00                            


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHHHh----ccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHH
Q psy14234        361 GGSGLGGSKTPLWYKYCSEIIAELFH----KKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAK  436 (779)
Q Consensus       361 ~~~~~~~~~~~~~~k~c~~iL~~l~~----~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~  436 (779)
                                 .   .+..++.....    ..++.++|||+.|||...  +||||+||++||||+||++||++|.|.+++
T Consensus       209 -----------~---~i~~~~~~~r~~~~~~~~~~~s~~F~~pvd~~~--~PdY~~iIk~PmDL~tI~~kl~~~~Y~s~~  272 (361)
T 2r10_A          209 -----------K---KINQALLGASSPKNLDDKVKLSEPFMELVDKDE--LPEYYEIVHSPMALSIVKQNLEIGQYSKIY  272 (361)
T ss_dssp             -----------H---HHHHHHHGGGCCSSCCCSSCTTGGGSSCCCTTT--CTHHHHHCSSCCCHHHHHHHHHHTCCCBHH
T ss_pred             -----------H---HHHHHHhccccccccccCCcchhcccCCCChhh--cccHHHHhcCcccHHHHHHHHhcCCCCCHH
Confidence                       0   00000000000    013468999999999875  899999999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhcccCCCCChHHHHHHHHHHHHHHHHhcC
Q psy14234        437 EFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       437 eF~~Dv~Lmf~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      +|.+||+|||.||++||+++|.||.+|..|+.+|+.+|.++
T Consensus       273 ef~~Dv~Lif~N~~~yN~~~s~i~~~A~~L~~~f~~~~~~~  313 (361)
T 2r10_A          273 DFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKE  313 (361)
T ss_dssp             HHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999874

>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=3.6e-41  Score=362.50  Aligned_cols=229  Identities=20%  Similarity=0.279  Sum_probs=170.4

Q ss_pred             HHHHHHHHHHHHHHc--CCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCC-CHHHHHHHHHHHhhhhhh
Q psy14234        124 QLQYIVKNVMKAVWK--HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYW-SGKEAIQDFTTMFTNCYV  200 (779)
Q Consensus       124 ~l~~~~~~il~~L~~--~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~-s~~ef~~D~~lmf~Na~~  200 (779)
                      .|+..|..+|..+.+  ...+++|+.||+..  ++||||.||++||||+||++||  +.|. ++.+|+.||+|||.||++
T Consensus        28 ~~~~~~~~~L~~~~~~~r~~~~~F~~p~~~~--~~PdY~~iIk~PmDL~tI~~kl--~~y~~s~~~f~~D~~li~~Na~~  103 (311)
T 2r0y_A           28 KFNRFISFTLDVLIDKYKDIFKDFIKLPSRK--FHPQYYYKIQQPMSINEIKSRD--YEYEDGPSNFLLDVELLTKNCQA  103 (311)
T ss_dssp             THHHHHHHHHHHHHHHSHHHHGGGSSCCCTT--TCHHHHHHCSSCCCHHHHHHSC--CCSTTHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCchhHHhcCCCCcc--cCCChHHHcCCCCCHHHHHHHH--hcccCCHHHHHHHHHHHHHHHHH
Confidence            344445555555544  24689999999954  8999999999999999999999  4444 899999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHhCCCCcccccCCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCCCC
Q psy14234        201 YNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATSTPKPRPPN  280 (779)
Q Consensus       201 yN~~~s~i~~~A~~Le~~f~~~~~~~~~~e~~~~~~~~k~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~  280 (779)
                      ||+++|.||.+|..|+++|.++|.+....            .+.      .           .+                
T Consensus       104 yN~~~s~i~~~A~~l~~~~~~~~~k~k~~------------~~~------~-----------~i----------------  138 (311)
T 2r0y_A          104 YNEYDSLIVKNSMQVVMLIEFEVLKAKNL------------KRN------Y-----------LI----------------  138 (311)
T ss_dssp             HSCTTSHHHHHHHHHHHHHHHHHHHHHTG------------GGC------C-----------BC----------------
T ss_pred             ccCCCCHHHHHHHHHHHHHHHHHhhcccC------------CCC------C-----------CC----------------
Confidence            99999999999999999999999853100            000      0           00                


Q ss_pred             CCCCCCCCCCCCccccccCCCCCCCChhHHHhhhhccCCCCCCCCCCCCCCCcchhhhcccccccCCCCCCCCCCCcCCC
Q psy14234        281 PVLGSTATTTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAKQLNTRRESGSITKKPQRISEEGG  360 (779)
Q Consensus       281 ~~~~~~~~~~~~~~s~~~~~~~~p~~~~~kk~~krkadtt~d~tPt~~~~~~~~~~~~~~~rres~R~~k~p~~~l~~~~  360 (779)
                                               +...++...+..++.   ...    .                             
T Consensus       139 -------------------------~~~~k~~l~~~~~~l---~~~----~-----------------------------  157 (311)
T 2r0y_A          139 -------------------------NSEVKAKLLHYLNKL---VDA----T-----------------------------  157 (311)
T ss_dssp             -------------------------CHHHHHHHHHHHHHH---HHC----C-----------------------------
T ss_pred             -------------------------ChHHHHHHHHHHHHH---Hhh----h-----------------------------
Confidence                                     000111111000000   000    0                             


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHHHh----ccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHH
Q psy14234        361 GGSGLGGSKTPLWYKYCSEIIAELFH----KKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAK  436 (779)
Q Consensus       361 ~~~~~~~~~~~~~~k~c~~iL~~l~~----~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~  436 (779)
                                .   ..+..+|.....    ...+.++|||+.|||...  +||||+||++||||+||++||++|.|.+++
T Consensus       158 ----------~---~~i~~~l~~~r~~k~~~~~~~~s~~F~~pvd~~~--~PdY~~iIk~PMDL~tI~~kl~~~~Y~s~~  222 (311)
T 2r0y_A          158 ----------E---KKINQALLGASSPKNLDDKVKLSEPFMELVDKDE--LPEYYEIVHSPMALSIVKQNLEIGQYSKIY  222 (311)
T ss_dssp             ----------H---HHHHHHHHGGGSCSSCCCSSCTTGGGSSCCCTTT--CHHHHHHCSSCCCHHHHHHHHHHTCCCBHH
T ss_pred             ----------H---HHHHHHHhccccccccccCCccHHHHhCCCChhh--cccHHHHhCCccCHHHHHHHHHcCCCCCHH
Confidence                      0   000001100000    013468999999999875  899999999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhcccCCCCChHHHHHHHHHHHHHHHHhcC
Q psy14234        437 EFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       437 eF~~Dv~Lmf~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      +|.+||+|||.||++||+++|.||.+|..|+++|+.+|++.
T Consensus       223 ef~~Dv~Lif~N~~~yN~~~s~i~~~A~~L~~~f~~~~~~~  263 (311)
T 2r0y_A          223 DFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKE  263 (311)
T ss_dssp             HHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999874

>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=99.97  E-value=3.8e-31  Score=256.93  Aligned_cols=136  Identities=62%  Similarity=1.108  Sum_probs=115.9

Q ss_pred             CCCCCCCCCCCCChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHH
Q psy14234        109 PPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAI  188 (779)
Q Consensus       109 ~~~~~~~~~~~~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~  188 (779)
                      .++++++.++++.+++|+++|..||+.|++++.+|||..||++.++++||||.+|++||||+||++||+++.|.++.+|+
T Consensus        17 ~~~~~~p~~~~r~t~~l~~~~~~il~~l~~~~~a~~F~~PVd~~~~~~PdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~   96 (154)
T 4alg_A           17 GSHMSNPKKPGRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECM   96 (154)
T ss_dssp             ---------CCCCBHHHHHHHHTHHHHHHTSTTCGGGSSCCCTTTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHH
T ss_pred             CCCCCCCCCCCcchHHHHHHHHHHHHHHHhCcCchhhcCCCChhhccCCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHH
Confidence            34566788999999999999999999999999999999999998889999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCcccccCCCCCCCCCCC
Q psy14234        189 QDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKKK  244 (779)
Q Consensus       189 ~D~~lmf~Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~~e~~~~~~~~k~~~~k  244 (779)
                      .||+|||.||++||++++.|+.+|..|+++|++.|.+|+.++.++..+.++++.++
T Consensus        97 ~Dv~Lif~Na~~YN~~~s~i~~~A~~L~~~f~~~~~~l~~~~~e~~~~~~k~k~~~  152 (154)
T 4alg_A           97 QDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQEEQELVVTIPKNSHKK  152 (154)
T ss_dssp             HHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHTTSCSSCCBCCC---------
T ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCchhccccCCCCCcCCCC
Confidence            99999999999999999999999999999999999999999988887777766553

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

Probab=99.97  E-value=4.8e-31  Score=249.32  Aligned_cols=127  Identities=58%  Similarity=1.002  Sum_probs=107.3

Q ss_pred             CCCcCCCCCCCCCC-CCcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCC
Q psy14234        354 RISEEGGGGSGLGG-SKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY  432 (779)
Q Consensus       354 ~~l~~~~~~~~~~~-~~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y  432 (779)
                      ++++++......++ ++++.++++|..||..|+.+++..++|||+.|||+..+++||||+||++||||+||++||++|.|
T Consensus         3 ~~~p~s~~~~~~~k~~~~~~~l~~c~~il~~L~~~~~~~~a~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y   82 (130)
T 2ouo_A            3 KDVPDSQQHPAPEKSSKVSEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREY   82 (130)
T ss_dssp             ----------------CHHHHHHHHHHHHHHHTSGGGHHHHGGGSSCCCTTSTTCTTHHHHCSSCCCHHHHHHHHHTTCC
T ss_pred             CCCCCCCCCCCCCCCcccHHHHHHHHHHHHHHHhCCcchhHHHhcCCCChhhccCCcHHHHcCCCCCHHHHHHHHHcCCC
Confidence            45666665555555 88999999999999999988766679999999999988899999999999999999999999999


Q ss_pred             CCHHHHHHHHHHhhhhhcccCCCCChHHHHHHHHHHHHHHHHhcCCCc
Q psy14234        433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE  480 (779)
Q Consensus       433 ~s~~eF~~Dv~Lmf~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~  480 (779)
                      .++++|.+||+|||.||++||+++|.||.+|..|+++|+.+|++||+|
T Consensus        83 ~s~~ef~~Dv~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~lp~e  130 (130)
T 2ouo_A           83 RDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDE  130 (130)
T ss_dssp             SSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHTSCC-
T ss_pred             CCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHCCCC
Confidence            999999999999999999999999999999999999999999999864

>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=99.97  E-value=3.7e-30  Score=242.23  Aligned_cols=123  Identities=64%  Similarity=1.217  Sum_probs=116.8

Q ss_pred             CCCCCCCCCCCCCChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHH
Q psy14234        108 QPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEA  187 (779)
Q Consensus       108 ~~~~~~~~~~~~~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef  187 (779)
                      ++|++..+.++++.+++|+.+|..||+.|++|+.+|+|..||++.++++||||.+|++||||+||++||++|.|.++.+|
T Consensus         5 p~p~~~~~~~~~r~~~~l~~~~~~il~~L~~~~~a~~F~~PVd~~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef   84 (127)
T 2oss_A            5 PPPETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQEC   84 (127)
T ss_dssp             CCCCCCCTTSCCCCCHHHHHHHHTHHHHHHTSTTCGGGSSCCCTTTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHH
T ss_pred             CCCCcCCcCcCcccHHHHHHHHHHHHHHHHhCccchhhcCCCChhhccCccHHHHcCCCCCHHHHHHHHHcCCCCCHHHH
Confidence            45566677889999999999999999999999999999999998777899999999999999999999999999999999


Q ss_pred             HHHHHHHhhhhhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCcc
Q psy14234        188 IQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE  230 (779)
Q Consensus       188 ~~D~~lmf~Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~~e  230 (779)
                      +.||+|||.||++||+++|.|+.+|..|++.|.++|++|+.+|
T Consensus        85 ~~D~~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~lp~~e  127 (127)
T 2oss_A           85 IQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELPTEE  127 (127)
T ss_dssp             HHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTTCCCCC
T ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCCCC
Confidence            9999999999999999999999999999999999999998764

>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=99.96  E-value=2.7e-29  Score=234.28  Aligned_cols=114  Identities=65%  Similarity=1.137  Sum_probs=108.2

Q ss_pred             CCcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhh
Q psy14234        368 SKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS  447 (779)
Q Consensus       368 ~~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~  447 (779)
                      ..+++++++|..||..|+.+++..++|||..|||+..+++||||++|++||||+||++||++|.|.++++|.+||+|||.
T Consensus         5 ~~~~~~l~~c~~il~~l~~~~~~~~a~~F~~pvd~~~~~~pdY~~iI~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~   84 (120)
T 3jvl_A            5 SKISEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFS   84 (120)
T ss_dssp             CSSCHHHHHHHHHHHHHTSGGGHHHHGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHhCcCccccchhcCCCCchhcCCCCHHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHH
Confidence            56789999999999999998877789999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcccCCCCChHHHHHHHHHHHHHHHHhcCCCch
Q psy14234        448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDES  481 (779)
Q Consensus       448 Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~~  481 (779)
                      ||++||+++|.|+.+|..|+++|++.|++++.++
T Consensus        85 Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~p~~~  118 (120)
T 3jvl_A           85 NCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDEP  118 (120)
T ss_dssp             HHHHHSCTTSHHHHHHHHHHHHHHHHHTTCCC--
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHCcCCC
Confidence            9999999999999999999999999999999765

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

Probab=99.94  E-value=1.2e-27  Score=226.06  Aligned_cols=117  Identities=38%  Similarity=0.736  Sum_probs=102.5

Q ss_pred             CCCCCCCCCChHHHHHHHHHHHHHHHcCCC---CCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHH
Q psy14234        112 VPPKHRPGRNTNQLQYIVKNVMKAVWKHPH---AWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAI  188 (779)
Q Consensus       112 ~~~~~~~~~~~~~l~~~~~~il~~L~~~~~---s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~  188 (779)
                      .+++.++++.+++++. |..||+.|+.++.   +|||..||++..+++||||.+|++||||+||++||++|.|.++.+|.
T Consensus        11 ~~~~~k~~~~~~~l~~-c~~il~~L~~~~~~~~a~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~   89 (130)
T 2ouo_A           11 HPAPEKSSKVSEQLKC-CSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFG   89 (130)
T ss_dssp             --------CHHHHHHH-HHHHHHHHTSGGGHHHHGGGSSCCCTTSTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHH
T ss_pred             CCCCCCCcccHHHHHH-HHHHHHHHHhCCcchhHHHhcCCCChhhccCCcHHHHcCCCCCHHHHHHHHHcCCCCCHHHHH
Confidence            3456777888888865 6789999998874   89999999998778999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCc
Q psy14234        189 QDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSE  229 (779)
Q Consensus       189 ~D~~lmf~Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~~  229 (779)
                      .||+|||.||++||+++|.|+.+|..|++.|.++|.+||.+
T Consensus        90 ~Dv~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~lp~e  130 (130)
T 2ouo_A           90 ADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDE  130 (130)
T ss_dssp             HHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHTSCC-
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHCCCC
Confidence            99999999999999999999999999999999999999863

>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=99.94  E-value=1.3e-26  Score=217.99  Aligned_cols=110  Identities=37%  Similarity=0.776  Sum_probs=99.6

Q ss_pred             CCcHHHHH-HHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q psy14234        368 SKTPLWYK-YCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIF  446 (779)
Q Consensus       368 ~~~~~~~k-~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf  446 (779)
                      ++++.+++ .|..||..|+.+.   .+|+|..|||+..+++||||+||++||||+||++||++|.|.++++|.+||+|||
T Consensus        16 ~r~~~~l~~~~~~il~~L~~~~---~a~~F~~PVd~~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~   92 (127)
T 2oss_A           16 KRQTNQLQYLLRVVLKTLWKHQ---FAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMF   92 (127)
T ss_dssp             CCCCHHHHHHHHTHHHHHHTST---TCGGGSSCCCTTTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHhCc---cchhhcCCCChhhccCccHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            34444554 5567899998764   6899999999987789999999999999999999999999999999999999999


Q ss_pred             hhhcccCCCCChHHHHHHHHHHHHHHHHhcCCCc
Q psy14234        447 SNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE  480 (779)
Q Consensus       447 ~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~  480 (779)
                      .||++||+++|.||.+|..|+++|+++|++++.+
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            9999999999999999999999999999999864

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

Probab=99.94  E-value=2e-26  Score=215.74  Aligned_cols=108  Identities=22%  Similarity=0.433  Sum_probs=101.7

Q ss_pred             cHHHHHHHHHHHHHHHhccC---CCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q psy14234        370 TPLWYKYCSEIIAELFHKKH---QNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIF  446 (779)
Q Consensus       370 ~~~~~k~c~~iL~~l~~~k~---~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf  446 (779)
                      ...+.+.|..||+.|+.+++   +.++|+|+.||+...  +||||+||++||||+||++||+++.|.++++|.+||+|||
T Consensus        11 ~~~l~~~~~~il~~l~~~~d~~g~~~s~~F~~pv~~~~--~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~   88 (123)
T 2dat_A           11 PPKLTKQMNAIIDTVINYKDSSGRQLSEVFIQLPSRKE--LPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLC   88 (123)
T ss_dssp             CHHHHHHHHHHHHHHHHCBCSSSCBSGGGGTSCCCTTT--SCHHHHHCSSCCCHHHHHHHHTTTCCCSHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHhhhcccCCeeeHHhcCCCCccc--CCCHHHHcCCCCCHHHHHHHHhCCCCCCHHHHHHHHHHHH
Confidence            46788999999999999864   458999999999764  8999999999999999999999999999999999999999


Q ss_pred             hhhcccCCCCChHHHHHHHHHHHHHHHHhcCCC
Q psy14234        447 SNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPD  479 (779)
Q Consensus       447 ~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~  479 (779)
                      .||++||++++.||.+|..|+++|+++|+++|.
T Consensus        89 ~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~ps  121 (123)
T 2dat_A           89 HNAQTFNLEGSQIYEDSIVLQSVFKSARQSGPS  121 (123)
T ss_dssp             HHHHHHSCTTSHHHHHHHHHHHHHHHHHHSSSC
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHcCC
Confidence            999999999999999999999999999999985

>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=99.94  E-value=1.3e-26  Score=224.98  Aligned_cols=112  Identities=39%  Similarity=0.808  Sum_probs=100.8

Q ss_pred             CCcHHHHHH-HHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q psy14234        368 SKTPLWYKY-CSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIF  446 (779)
Q Consensus       368 ~~~~~~~k~-c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf  446 (779)
                      ++++.+++. |..||..|+.+.   ++|||+.|||+..+++||||+||++||||+||++||+++.|.++++|++||+|||
T Consensus        27 ~r~t~~l~~~~~~il~~l~~~~---~a~~F~~PVd~~~~~~PdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~~Dv~Lif  103 (154)
T 4alg_A           27 GRVTNQLQYLHKVVMKALWKHQ---FAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMF  103 (154)
T ss_dssp             CCCBHHHHHHHHTHHHHHHTST---TCGGGSSCCCTTTTTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHHHHHHHhCc---CchhhcCCCChhhccCCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence            444555555 456678887764   6999999999998889999999999999999999999999999999999999999


Q ss_pred             hhhcccCCCCChHHHHHHHHHHHHHHHHhcCCCchh
Q psy14234        447 SNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESN  482 (779)
Q Consensus       447 ~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~~~  482 (779)
                      .||++||++++.||.+|..|+++|+++|++++.+..
T Consensus       104 ~Na~~YN~~~s~i~~~A~~L~~~f~~~~~~l~~~~~  139 (154)
T 4alg_A          104 TNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQEEQ  139 (154)
T ss_dssp             HHHHHHSCTTSHHHHHHHHHHHHHHHHHTTSCSSCC
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCchhc
Confidence            999999999999999999999999999999987654

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

Probab=99.93  E-value=2.3e-26  Score=213.57  Aligned_cols=105  Identities=32%  Similarity=0.628  Sum_probs=98.5

Q ss_pred             CcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhh
Q psy14234        369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSN  448 (779)
Q Consensus       369 ~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~N  448 (779)
                      .....++.|..||..|+.++   .+|||..|||...  +||||++|++||||+||++||++|.|.++++|.+||+|||.|
T Consensus        10 ~~~~~~~~c~~il~~l~~~~---~s~~F~~pv~~~~--~pdY~~~I~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~N   84 (117)
T 3g0l_A           10 DDSKDLALCSMILTEMETHE---DAWPFLLPVNLKL--VPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDN   84 (117)
T ss_dssp             CCTTHHHHHHHHHHHHHTST---TCGGGSSCCCTTT--STTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhCC---CchhhcCcCChhh--cCChHHHcCCCCCHHHHHHHHhCCCCCCHHHHHHHHHHHHHH
Confidence            34568899999999999875   5899999999876  899999999999999999999999999999999999999999


Q ss_pred             hcccCCCCChHHHHHHHHHHHHHHHHhcCC
Q psy14234        449 CYKYNPPDHNVVTMARQLSAVFEDRFAKMP  478 (779)
Q Consensus       449 a~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~  478 (779)
                      |+.||+++|.|+.+|..|+++|+++|+++.
T Consensus        85 a~~yN~~~s~~~~~A~~L~~~f~~~~~~~~  114 (117)
T 3g0l_A           85 CETFNEDDSDIGRAGHNMRKYFEKKWTDTF  114 (117)
T ss_dssp             HHHHSCSSSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999998763

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

Probab=99.93  E-value=2.3e-26  Score=213.59  Aligned_cols=110  Identities=28%  Similarity=0.505  Sum_probs=102.7

Q ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHh
Q psy14234        116 HRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMF  195 (779)
Q Consensus       116 ~~~~~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf  195 (779)
                      +++++.......+|..||+.|++|+.+|||..||++.  .+||||.+|++||||+||++||++|.|.++.+|+.||+|||
T Consensus         5 ~k~~~~~~~~~~~c~~il~~l~~~~~s~~F~~pv~~~--~~pdY~~~I~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~   82 (117)
T 3g0l_A            5 KKPKRDDSKDLALCSMILTEMETHEDAWPFLLPVNLK--LVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVF   82 (117)
T ss_dssp             CCCCCCCTTHHHHHHHHHHHHHTSTTCGGGSSCCCTT--TSTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHH
T ss_pred             cCCCcCCHHHHHHHHHHHHHHHhCCCchhhcCcCChh--hcCChHHHcCCCCCHHHHHHHHhCCCCCCHHHHHHHHHHHH
Confidence            4455666677788999999999999999999999976  69999999999999999999999999999999999999999


Q ss_pred             hhhhhhCCCCCHHHHHHHHHHHHHHHHHhCCC
Q psy14234        196 TNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP  227 (779)
Q Consensus       196 ~Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~  227 (779)
                      .||++||+++|.|+.+|..|++.|++.|.++.
T Consensus        83 ~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~~  114 (117)
T 3g0l_A           83 DNCETFNEDDSDIGRAGHNMRKYFEKKWTDTF  114 (117)
T ss_dssp             HHHHHHSCSSSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999998764

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

Probab=99.93  E-value=3.1e-26  Score=210.99  Aligned_cols=106  Identities=36%  Similarity=0.646  Sum_probs=101.9

Q ss_pred             CChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhh
Q psy14234        120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCY  199 (779)
Q Consensus       120 ~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~  199 (779)
                      +...+|+..|..||+.|++|+.+++|..||++.  ++||||.+|++||||+||++||++|.|.++.+|..||+|||.||+
T Consensus         3 ~~~~~l~~~~~~il~~l~~~~~~~~F~~pvd~~--~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na~   80 (112)
T 3d7c_A            3 EDPDQLYTTLKNLLAQIKSHPSAWPFMEPVKKS--EAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCR   80 (112)
T ss_dssp             CSHHHHHHHHHHHHHHHHHSGGGGGGSSCCCTT--TSTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCCchhhcCCCCcc--cccCHHHHccCCcCHHHHHHHHcCCCCcCHHHHHHHHHHHHHHHH
Confidence            357899999999999999999999999999975  799999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHhCCC
Q psy14234        200 VYNKPGEDVVLMAQNLEQLFLTKITGMP  227 (779)
Q Consensus       200 ~yN~~~s~i~~~A~~Le~~f~~~~~~~~  227 (779)
                      +||+++|.|+.+|..|++.|.+.|++++
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            9999999999999999999999999875

>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=99.93  E-value=3e-26  Score=213.75  Aligned_cols=112  Identities=39%  Similarity=0.735  Sum_probs=101.3

Q ss_pred             CCChHHHHHHHHHHHHHHHcCCC---CCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHh
Q psy14234        119 GRNTNQLQYIVKNVMKAVWKHPH---AWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMF  195 (779)
Q Consensus       119 ~~~~~~l~~~~~~il~~L~~~~~---s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf  195 (779)
                      +..+.+++ .|..||..|+.++.   +|||..||++..+++||||.+|++||||+||++||++|.|.++.+|+.||+|||
T Consensus         5 ~~~~~~l~-~c~~il~~l~~~~~~~~a~~F~~pvd~~~~~~pdY~~iI~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~   83 (120)
T 3jvl_A            5 SKISEQLK-CCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMF   83 (120)
T ss_dssp             CSSCHHHH-HHHHHHHHHTSGGGHHHHGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHH
T ss_pred             hhhHHHHH-HHHHHHHHHHhCcCccccchhcCCCCchhcCCCCHHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHH
Confidence            34455655 56788999999887   999999999987779999999999999999999999999999999999999999


Q ss_pred             hhhhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCccc
Q psy14234        196 TNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEV  231 (779)
Q Consensus       196 ~Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~~e~  231 (779)
                      .||++||+++|.|+.+|..|++.|.+.|.+|+.++.
T Consensus        84 ~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~p~~~~  119 (120)
T 3jvl_A           84 SNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDEPE  119 (120)
T ss_dssp             HHHHHHSCTTSHHHHHHHHHHHHHHHHHTTCCC---
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCcCCCC
Confidence            999999999999999999999999999999987653

>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=99.93  E-value=2.3e-26  Score=217.08  Aligned_cols=111  Identities=22%  Similarity=0.414  Sum_probs=102.8

Q ss_pred             CCcHHHHHHHHHHHHHHHhcc----CCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHH
Q psy14234        368 SKTPLWYKYCSEIIAELFHKK----HQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVR  443 (779)
Q Consensus       368 ~~~~~~~k~c~~iL~~l~~~k----~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~  443 (779)
                      +..+.+.+.|..||..|+.++    ++.++|+|+.||+...  +||||+||++||||+||++||++|.|.++.+|.+||+
T Consensus         7 ~~~~~l~~~~~~il~~l~~~~d~~~~~~~s~~F~~pv~~~~--~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~   84 (129)
T 2grc_A            7 PNPPNLTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKE--LPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVM   84 (129)
T ss_dssp             CCCHHHHHHHHHHHHHHHHCBCTTTCCBGGGGGSSCCCTTT--CHHHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHhcccccccCeeeHHhcCCCCccc--CCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHH
Confidence            345688999999999999876    3468999999999754  8999999999999999999999999999999999999


Q ss_pred             HhhhhhcccCCCCChHHHHHHHHHHHHHHHHhcCCCc
Q psy14234        444 LIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE  480 (779)
Q Consensus       444 Lmf~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~  480 (779)
                      |||.||++||+++|.||.+|..|+++|+.+|++++..
T Consensus        85 Li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~~  121 (129)
T 2grc_A           85 LLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKE  121 (129)
T ss_dssp             HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHccCC
Confidence            9999999999999999999999999999999998654

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

Probab=99.93  E-value=7.7e-26  Score=211.75  Aligned_cols=106  Identities=23%  Similarity=0.332  Sum_probs=100.5

Q ss_pred             ChHHHHHHHHHHHHHHHcCC------CCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHH
Q psy14234        121 NTNQLQYIVKNVMKAVWKHP------HAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTM  194 (779)
Q Consensus       121 ~~~~l~~~~~~il~~L~~~~------~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lm  194 (779)
                      ....|+..|..||+.|+++.      .+|+|..||+..  ++||||.+|++||||+||++||+++.|.++.+|+.||+||
T Consensus        10 ~~~~l~~~~~~il~~l~~~~d~~g~~~s~~F~~pv~~~--~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li   87 (123)
T 2dat_A           10 NPPKLTKQMNAIIDTVINYKDSSGRQLSEVFIQLPSRK--ELPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLL   87 (123)
T ss_dssp             CCHHHHHHHHHHHHHHHHCBCSSSCBSGGGGTSCCCTT--TSCHHHHHCSSCCCHHHHHHHHTTTCCCSHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhhhcccCCeeeHHhcCCCCcc--cCCCHHHHcCCCCCHHHHHHHHhCCCCCCHHHHHHHHHHH
Confidence            35788999999999999986      699999999964  8999999999999999999999999999999999999999


Q ss_pred             hhhhhhhCCCCCHHHHHHHHHHHHHHHHHhCCCC
Q psy14234        195 FTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS  228 (779)
Q Consensus       195 f~Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~  228 (779)
                      |.||++||++++.|+.+|..|+++|++.++++|+
T Consensus        88 ~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~ps  121 (123)
T 2dat_A           88 CHNAQTFNLEGSQIYEDSIVLQSVFKSARQSGPS  121 (123)
T ss_dssp             HHHHHHHSCTTSHHHHHHHHHHHHHHHHHHSSSC
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHcCC
Confidence            9999999999999999999999999999999875

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

Probab=99.93  E-value=6.2e-26  Score=209.01  Aligned_cols=105  Identities=30%  Similarity=0.595  Sum_probs=98.9

Q ss_pred             cHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh
Q psy14234        370 TPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNC  449 (779)
Q Consensus       370 ~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na  449 (779)
                      ...+...|..||..|..+.   .+|||..|||...  +||||++|++||||+||++||++|.|.++.+|.+||+|||.||
T Consensus         5 ~~~l~~~~~~il~~l~~~~---~~~~F~~pvd~~~--~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na   79 (112)
T 3d7c_A            5 PDQLYTTLKNLLAQIKSHP---SAWPFMEPVKKSE--APDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANC   79 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHSG---GGGGGSSCCCTTT--STTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCC---CchhhcCCCCccc--ccCHHHHccCCcCHHHHHHHHcCCCCcCHHHHHHHHHHHHHHH
Confidence            3578899999999999875   5899999999874  8999999999999999999999999999999999999999999


Q ss_pred             cccCCCCChHHHHHHHHHHHHHHHHhcCCC
Q psy14234        450 YKYNPPDHNVVTMARQLSAVFEDRFAKMPD  479 (779)
Q Consensus       450 ~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~  479 (779)
                      +.||+++|.++.+|..|+++|+++|+++..
T Consensus        80 ~~yN~~~s~~~~~A~~L~~~f~~~~~~~~~  109 (112)
T 3d7c_A           80 REYNPPDSEYCRCASALEKFFYFKLKEGGL  109 (112)
T ss_dssp             HHHSCTTSHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHHHCCC
Confidence            999999999999999999999999998753

>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=6.4e-26  Score=212.62  Aligned_cols=109  Identities=21%  Similarity=0.335  Sum_probs=101.1

Q ss_pred             CcHHHHHHHHHHHHHHHhccC---CCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHh
Q psy14234        369 KTPLWYKYCSEIIAELFHKKH---QNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLI  445 (779)
Q Consensus       369 ~~~~~~k~c~~iL~~l~~~k~---~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lm  445 (779)
                      ..+.+.+.|..||..|+..++   +.++|+|..||+...  +||||+||++||||+||++||++|.|.++++|..||+||
T Consensus        12 ~~~~l~~~~~~il~~l~~~~d~~g~~~s~~F~~pv~~~~--~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li   89 (124)
T 3mb4_A           12 YMTPMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSE--LPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMM   89 (124)
T ss_dssp             CCCHHHHHHHHHHHHHHHCBCTTSCBGGGGGSCCCCTTT--CHHHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHH
T ss_pred             cChHHHHHHHHHHHHHHhHhcccCCcccHHhhcCCCccc--cCCHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            355788999999999998554   678999999999765  899999999999999999999999999999999999999


Q ss_pred             hhhhcccCCCCChHHHHHHHHHHHHHHHHhcCCC
Q psy14234        446 FSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPD  479 (779)
Q Consensus       446 f~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~  479 (779)
                      |.||++||+++|.||.+|..|+++|+++|.++..
T Consensus        90 ~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~  123 (124)
T 3mb4_A           90 FNNACTYNEPESLIYKDALVLHKVLLETRRDLEG  123 (124)
T ss_dssp             HHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999998853

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

Probab=99.93  E-value=7.3e-26  Score=211.28  Aligned_cols=103  Identities=34%  Similarity=0.687  Sum_probs=97.3

Q ss_pred             HHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhccc
Q psy14234        373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY  452 (779)
Q Consensus       373 ~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~y  452 (779)
                      +++.|..||..|+.+.   .+|||..|||...  +||||++|++||||+||++||++|.|.++.+|.+||+|||.||+.|
T Consensus        14 ~~~~~~~il~~l~~~~---~a~~F~~pvd~~~--~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~y   88 (121)
T 1e6i_A           14 HDAAIQNILTELQNHA---AAWPFLQPVNKEE--VPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMY   88 (121)
T ss_dssp             THHHHHHHHHHHHHST---TCGGGSSCCCTTT--STTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCC---CchhhCCCCChhh--CcCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            4688999999999864   5899999999864  8999999999999999999999999999999999999999999999


Q ss_pred             CCCCChHHHHHHHHHHHHHHHHhcCCCc
Q psy14234        453 NPPDHNVVTMARQLSAVFEDRFAKMPDE  480 (779)
Q Consensus       453 N~~~s~v~~~A~~Lq~~Fe~~~~~i~~~  480 (779)
                      |+++|.|+.+|..|+++|+++|.++|..
T Consensus        89 N~~~s~i~~~A~~L~~~f~~~~~~~p~~  116 (121)
T 1e6i_A           89 NGENTSYYKYANRLEKFFNNKVKEIPEY  116 (121)
T ss_dssp             SCTTSHHHHHHHHHHHHHHHHHHTSGGG
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHcccc
Confidence            9999999999999999999999999754

>3fkm_X Signaling protein; bromodomain, malaria, structural genomics, structural genomi consortium, SGC; 2.50A {Plasmodium falciparum 3D7}

Probab=99.93  E-value=8.2e-26  Score=222.06  Aligned_cols=109  Identities=28%  Similarity=0.447  Sum_probs=100.7

Q ss_pred             CChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhh
Q psy14234        120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCY  199 (779)
Q Consensus       120 ~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~  199 (779)
                      ....+|+.+|..||..|++++.+|||..||++.++++||||.+|++||||+||++||+++.|.++.+|+.||+|||.||+
T Consensus        17 p~~~~~~~~~~~il~~L~~~~~s~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~Dv~Lif~Na~   96 (166)
T 3fkm_X           17 QGNKQWYLLANQLILSLSKYEGGHIFEKLVDAKKQNCPDYYDVIKNPMSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCS   96 (166)
T ss_dssp             CTTHHHHHHHHHHHHHHTTSTTGGGGSSCCC-----CCCGGGCCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHhCCCChhhcCCCChhhccCCCHHHhcCCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHH
Confidence            46789999999999999999999999999999888899999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHhCCCC
Q psy14234        200 VYNKPGEDVVLMAQNLEQLFLTKITGMPS  228 (779)
Q Consensus       200 ~yN~~~s~i~~~A~~Le~~f~~~~~~~~~  228 (779)
                      +||+++|.|+.+|..|+++|.+.|.++.-
T Consensus        97 ~yN~~~s~i~~~A~~L~~~f~~~l~~~~~  125 (166)
T 3fkm_X           97 LYNTSNSVVAITGKNIETYFNNQLIVMGY  125 (166)
T ss_dssp             HSSCTTSHHHHHHHHHHHHHHHHHHHTTH
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHccc
Confidence            99999999999999999999999999863

>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=99.92  E-value=1e-25  Score=209.87  Aligned_cols=107  Identities=33%  Similarity=0.621  Sum_probs=100.1

Q ss_pred             CcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhh
Q psy14234        369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSN  448 (779)
Q Consensus       369 ~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~N  448 (779)
                      ...++.+.|..+|..|+...  ..+|||..|||+..+++||||++|++||||+||++||++|.|.++++|.+||+|||.|
T Consensus         8 ~~~el~~~l~~~l~~l~~~~--~~s~~F~~pv~~~~~~~pdY~~iI~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~N   85 (119)
T 3p1f_A            8 KPEELRQALMPTLEALYRQD--PESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNN   85 (119)
T ss_dssp             CHHHHHHHHHHHHHHHHTCT--TTTGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhC--CCCchhcCCCCchhccCCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence            44678899999999998743  4689999999999878999999999999999999999999999999999999999999


Q ss_pred             hcccCCCCChHHHHHHHHHHHHHHHHhcC
Q psy14234        449 CYKYNPPDHNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       449 a~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      |++||+++|.||.+|..|+++|++.|..+
T Consensus        86 a~~yN~~~s~i~~~A~~L~~~f~~~~~~~  114 (119)
T 3p1f_A           86 AWLYNRKTSRVYKFCSKLAEVFEQEIDPV  114 (119)
T ss_dssp             HHHHSCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999875

>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=99.92  E-value=1.4e-25  Score=208.85  Aligned_cols=109  Identities=28%  Similarity=0.565  Sum_probs=102.3

Q ss_pred             CCCChHHHHHHHHHHHHHHHc-CCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhh
Q psy14234        118 PGRNTNQLQYIVKNVMKAVWK-HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFT  196 (779)
Q Consensus       118 ~~~~~~~l~~~~~~il~~L~~-~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~  196 (779)
                      ..-...+|+..|..+|..|++ ++.+|||..||++..+++||||.+|++||||+||++||++|.|.++.+|..||+|||.
T Consensus         5 ~~~~~~el~~~l~~~l~~l~~~~~~s~~F~~pv~~~~~~~pdY~~iI~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~   84 (119)
T 3p1f_A            5 KIFKPEELRQALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFN   84 (119)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHTCTTTTGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHHHhCCCCchhcCCCCchhccCCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Confidence            334567899999999999988 7799999999998877899999999999999999999999999999999999999999


Q ss_pred             hhhhhCCCCCHHHHHHHHHHHHHHHHHhCC
Q psy14234        197 NCYVYNKPGEDVVLMAQNLEQLFLTKITGM  226 (779)
Q Consensus       197 Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~  226 (779)
                      ||++||+++|.|+.+|..|++.|++.|..+
T Consensus        85 Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~  114 (119)
T 3p1f_A           85 NAWLYNRKTSRVYKFCSKLAEVFEQEIDPV  114 (119)
T ss_dssp             HHHHHSCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999865

>3fkm_X Signaling protein; bromodomain, malaria, structural genomics, structural genomi consortium, SGC; 2.50A {Plasmodium falciparum 3D7}

Probab=99.92  E-value=1.2e-25  Score=220.79  Aligned_cols=108  Identities=29%  Similarity=0.554  Sum_probs=97.9

Q ss_pred             CcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhh
Q psy14234        369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSN  448 (779)
Q Consensus       369 ~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~N  448 (779)
                      ....|.+.|..||..|+.+.   .+|||..|||+..+++||||+||++||||+||++||++|.|.++.+|+.||+|||.|
T Consensus        18 ~~~~~~~~~~~il~~L~~~~---~s~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~Dv~Lif~N   94 (166)
T 3fkm_X           18 GNKQWYLLANQLILSLSKYE---GGHIFEKLVDAKKQNCPDYYDVIKNPMSFSCIKTKLKKGQYAYPSEFVKDVQLIFDN   94 (166)
T ss_dssp             TTHHHHHHHHHHHHHHTTST---TGGGGSSCCC-----CCCGGGCCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhCC---CChhhcCCCChhhccCCCHHHhcCCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHH
Confidence            34689999999999998765   589999999998888999999999999999999999999999999999999999999


Q ss_pred             hcccCCCCChHHHHHHHHHHHHHHHHhcCCC
Q psy14234        449 CYKYNPPDHNVVTMARQLSAVFEDRFAKMPD  479 (779)
Q Consensus       449 a~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~  479 (779)
                      |++||++++.|+.+|..|+++|++.|.++..
T Consensus        95 a~~yN~~~s~i~~~A~~L~~~f~~~l~~~~~  125 (166)
T 3fkm_X           95 CSLYNTSNSVVAITGKNIETYFNNQLIVMGY  125 (166)
T ss_dssp             HHHSSCTTSHHHHHHHHHHHHHHHHHHHTTH
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHccc
Confidence            9999999999999999999999999999864

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

Probab=99.92  E-value=1.1e-25  Score=208.58  Aligned_cols=106  Identities=19%  Similarity=0.341  Sum_probs=98.8

Q ss_pred             HHHHHHHHHHHHHHhccC---CCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhh
Q psy14234        372 LWYKYCSEIIAELFHKKH---QNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSN  448 (779)
Q Consensus       372 ~~~k~c~~iL~~l~~~k~---~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~N  448 (779)
                      .+++.|..||..|+.+++   +.++|+|..||+...  +||||++|++||||+||++||++|.|.++++|..||+|||.|
T Consensus         5 ~~~~~c~~il~~l~~~~d~~g~~~s~~F~~p~~~~~--~pdY~~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~N   82 (116)
T 3iu5_A            5 DPIAVCHELYNTIRDYKDEQGRLLCELFIRAPKRRN--QPDYYEVVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNN   82 (116)
T ss_dssp             CHHHHHHHHHHHHHHCBCTTCCBGGGGGSSCCCGGG--CHHHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhccCCCeeeHHhcCCCCccc--CCCHHHHhCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Confidence            468999999999998764   468999999999765  899999999999999999999999999999999999999999


Q ss_pred             hcccCCCCChHHHHHHHHHHHHHHHHhcCCC
Q psy14234        449 CYKYNPPDHNVVTMARQLSAVFEDRFAKMPD  479 (779)
Q Consensus       449 a~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~  479 (779)
                      |++||+++|.||.+|..|+++|++.|.++..
T Consensus        83 a~~yN~~~s~~~~~A~~L~~~f~~~~~~l~~  113 (116)
T 3iu5_A           83 AKSYYKPDSPEYKAACKLWDLYLRTRNEFVQ  113 (116)
T ss_dssp             HHHHSCTTSHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999998743

>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=99.92  E-value=1.8e-25  Score=208.56  Aligned_cols=102  Identities=33%  Similarity=0.631  Sum_probs=96.9

Q ss_pred             HHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCC
Q psy14234        126 QYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPG  205 (779)
Q Consensus       126 ~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~  205 (779)
                      ...|..||+.|++|+.+|||..||+..  ++||||.+|++||||+||++||++|.|.++.+|..||+|||.||++||+++
T Consensus        15 ~~~~~~il~~l~~~~~a~~F~~pvd~~--~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yN~~~   92 (121)
T 1e6i_A           15 DAAIQNILTELQNHAAAWPFLQPVNKE--EVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNGEN   92 (121)
T ss_dssp             HHHHHHHHHHHHHSTTCGGGSSCCCTT--TSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHSCTT
T ss_pred             HHHHHHHHHHHHcCCCchhhCCCCChh--hCcCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCC
Confidence            346888999999999999999999975  799999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHhCCCCc
Q psy14234        206 EDVVLMAQNLEQLFLTKITGMPSE  229 (779)
Q Consensus       206 s~i~~~A~~Le~~f~~~~~~~~~~  229 (779)
                      |.|+.+|..|++.|.++|.++|.-
T Consensus        93 s~i~~~A~~L~~~f~~~~~~~p~~  116 (121)
T 1e6i_A           93 TSYYKYANRLEKFFNNKVKEIPEY  116 (121)
T ss_dssp             SHHHHHHHHHHHHHHHHHHTSGGG
T ss_pred             CHHHHHHHHHHHHHHHHHHHcccc
Confidence            999999999999999999998643

>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural genomics, NPPSFA; 2.50A {Homo sapiens}

Probab=99.92  E-value=1.6e-25  Score=212.75  Aligned_cols=107  Identities=33%  Similarity=0.673  Sum_probs=99.1

Q ss_pred             CcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhc--CCCCCHHHHHHHHHHhh
Q psy14234        369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRN--RTYKTAKEFADDVRLIF  446 (779)
Q Consensus       369 ~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~--~~Y~s~~eF~~Dv~Lmf  446 (779)
                      -.+.+++.|..||..|+.+.   .+|+|+.||+.   ++||||+||++||||+||++||++  +.|.++++|.+||+|||
T Consensus        17 m~p~~~~~c~~il~~L~~~~---~s~~F~~Pv~~---~~pdY~~iIk~PmDL~tI~~kL~~~~~~Y~s~~ef~~Dv~Lif   90 (135)
T 2yyn_A           17 LTPIDKRKCERLLLFLYCHE---MSLAFQDPVPL---TVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIF   90 (135)
T ss_dssp             CCHHHHHHHHHHHHHHHTSG---GGGGGSSCCCT---TSTTHHHHCSSCCCHHHHHHHHHSSSCCCSSHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhCc---cchhhcCCCcc---cCCCHHHHcCCCCCHHHHHHHHhccccCCCCHHHHHHHHHHHH
Confidence            35678899999999998765   69999999997   489999999999999999999998  59999999999999999


Q ss_pred             hhhcccCCCCChHHHHHHHHHHHHHHHHhcCCCch
Q psy14234        447 SNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDES  481 (779)
Q Consensus       447 ~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~~  481 (779)
                      .||++||+++|.||.+|..|+++|+++|.++..+.
T Consensus        91 ~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~~~~~  125 (135)
T 2yyn_A           91 QNCAEFNEPDSEVANAGIKLENYFEELLKNLYPEK  125 (135)
T ss_dssp             HHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHSSSC
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999999999999999999999999886554

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

Probab=99.92  E-value=1.9e-25  Score=208.42  Aligned_cols=104  Identities=23%  Similarity=0.343  Sum_probs=99.0

Q ss_pred             hHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        122 TNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      ...|+..|..||+.|++|+.+|+|..||++.  ++||||.+|++||||+||++||+++.|.++.+|..||+|||.||++|
T Consensus         5 ~~pl~~~l~~il~~l~~~~~~~~F~~pv~~~--~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~y   82 (121)
T 2d9e_A            5 SSGFLILLRKTLEQLQEKDTGNIFSEPVPLS--EVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKY   82 (121)
T ss_dssp             CCHHHHHHHHHHHHHHHHCSSCSSSSCCCTT--TCTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHcCCccHhhCCcCCcc--ccCCHHHHcCCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Confidence            3467889999999999999999999999976  79999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHhCCC
Q psy14234        202 NKPGEDVVLMAQNLEQLFLTKITGMP  227 (779)
Q Consensus       202 N~~~s~i~~~A~~Le~~f~~~~~~~~  227 (779)
                      |+++|.+|.+|..|++.|...|.++.
T Consensus        83 N~~~s~~~~~A~~L~~~~~~~l~~~~  108 (121)
T 2d9e_A           83 NAKDTIFYRAAVRLREQGGAVLRQAR  108 (121)
T ss_dssp             SCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999998764

>3nxb_A CAT eye syndrome critical region protein 2; structural genomics consortium, SGC, CECR2, CAT eye syndrome chromosome region candidate 2, bromodomain; 1.83A {Homo sapiens} SCOP: a.29.2.0

Probab=99.92  E-value=2.2e-25  Score=206.61  Aligned_cols=100  Identities=31%  Similarity=0.603  Sum_probs=95.4

Q ss_pred             HHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcc
Q psy14234        372 LWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYK  451 (779)
Q Consensus       372 ~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~  451 (779)
                      .+.+.|..||..|+.++.   +|||..|||+..  +||||++|++||||+||++||++|.|.++++|.+||+|||.||+.
T Consensus        16 ~~~~~~~~il~~l~~~~~---s~~F~~pv~~~~--~pdY~~~I~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~   90 (116)
T 3nxb_A           16 DDFTAMYKVLDVVKAHKD---SWPFLEPVDESY--APNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRK   90 (116)
T ss_dssp             CHHHHHHHHHHHHHHSTT---CGGGSSCCCTTT--STTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCC---cHhhcCcCChhh--ccChHHHcCCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH
Confidence            478999999999998764   899999999885  899999999999999999999999999999999999999999999


Q ss_pred             cCCCCChHHHHHHHHHHHHHHHHhc
Q psy14234        452 YNPPDHNVVTMARQLSAVFEDRFAK  476 (779)
Q Consensus       452 yN~~~s~v~~~A~~Lq~~Fe~~~~~  476 (779)
                      ||+++|.|+.+|..|+++|++.|.+
T Consensus        91 yN~~~s~~~~~A~~L~~~f~~~~~k  115 (116)
T 3nxb_A           91 YNGESSEYTKMSDNLERCFHRAMMK  115 (116)
T ss_dssp             HHCTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999975

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

Probab=99.92  E-value=2.5e-25  Score=207.60  Aligned_cols=104  Identities=28%  Similarity=0.413  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        371 PLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       371 ~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      ..+...|..||..|+.+.   .+|+|..|||+..  +||||+||++||||+||++||++|.|.++++|.+||+|||.||+
T Consensus         6 ~pl~~~l~~il~~l~~~~---~~~~F~~pv~~~~--~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~   80 (121)
T 2d9e_A            6 SGFLILLRKTLEQLQEKD---TGNIFSEPVPLSE--VPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCL   80 (121)
T ss_dssp             CHHHHHHHHHHHHHHHHC---SSCSSSSCCCTTT--CTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCC---ccHhhCCcCCccc--cCCHHHHcCCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            356789999999999875   5899999999875  89999999999999999999999999999999999999999999


Q ss_pred             ccCCCCChHHHHHHHHHHHHHHHHhcCCC
Q psy14234        451 KYNPPDHNVVTMARQLSAVFEDRFAKMPD  479 (779)
Q Consensus       451 ~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~  479 (779)
                      +||+++|.+|.+|..|++.|+..|.++..
T Consensus        81 ~yN~~~s~~~~~A~~L~~~~~~~l~~~~~  109 (121)
T 2d9e_A           81 KYNAKDTIFYRAAVRLREQGGAVLRQARR  109 (121)
T ss_dssp             HHSCTTSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999987653

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

Probab=99.92  E-value=4.1e-25  Score=204.76  Aligned_cols=106  Identities=27%  Similarity=0.383  Sum_probs=100.4

Q ss_pred             CChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhh
Q psy14234        120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCY  199 (779)
Q Consensus       120 ~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~  199 (779)
                      .....|+.+|..||+.|++++.+++|..||++.  .+||||.+|++||||+||++||++|.|.++.+|..||+|||.||+
T Consensus         4 ~~~~~l~~~l~~il~~L~~~~~~~~F~~PVd~~--~~pdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~~Dv~Li~~Na~   81 (117)
T 2i7k_A            4 VEQTPLQEALNQLMRQLQRKDPSAFFSFPVTDF--IAPGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAM   81 (117)
T ss_dssp             TTHHHHHHHHHHHHHHHHTSSGGGTSSSCCCTT--TSSSHHHHCSCCCCHHHHHHHHTTTSCCSHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHhCcccHHhcCCCCcc--ccCCHHHHhCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence            346789999999999999999999999999964  799999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHhCCC
Q psy14234        200 VYNKPGEDVVLMAQNLEQLFLTKITGMP  227 (779)
Q Consensus       200 ~yN~~~s~i~~~A~~Le~~f~~~~~~~~  227 (779)
                      +||+++|.|+.+|..|++.|.+.+..+.
T Consensus        82 ~yN~~~s~i~~~A~~L~~~f~~~~~~~~  109 (117)
T 2i7k_A           82 IYNKPETIYYKAAKKLLHSGMKILSQER  109 (117)
T ss_dssp             HTSCSSSSHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999998753

>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=99.92  E-value=1.8e-25  Score=209.59  Aligned_cols=109  Identities=25%  Similarity=0.362  Sum_probs=100.6

Q ss_pred             CCCChHHHHHHHHHHHHHHHc------CCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHH
Q psy14234        118 PGRNTNQLQYIVKNVMKAVWK------HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDF  191 (779)
Q Consensus       118 ~~~~~~~l~~~~~~il~~L~~------~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~  191 (779)
                      ..+....|+..|..||+.|++      |+.+++|..||+..  ++||||.+|++||||+||++||+++.|.++.+|+.||
T Consensus         9 ~~k~~~~l~~~~~~il~~l~~~~d~~g~~~s~~F~~pv~~~--~~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~   86 (124)
T 3mb4_A            9 KSKYMTPMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRS--ELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDF   86 (124)
T ss_dssp             -CCCCCHHHHHHHHHHHHHHHCBCTTSCBGGGGGSCCCCTT--TCHHHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHH
T ss_pred             ccccChHHHHHHHHHHHHHHhHhcccCCcccHHhhcCCCcc--ccCCHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHH
Confidence            344566788999999999998      56679999999965  8999999999999999999999999999999999999


Q ss_pred             HHHhhhhhhhCCCCCHHHHHHHHHHHHHHHHHhCCCC
Q psy14234        192 TTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS  228 (779)
Q Consensus       192 ~lmf~Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~  228 (779)
                      +|||.||++||+++|.|+.+|..|+++|.+.|+++..
T Consensus        87 ~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~  123 (124)
T 3mb4_A           87 VMMFNNACTYNEPESLIYKDALVLHKVLLETRRDLEG  123 (124)
T ss_dssp             HHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999998754

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

Probab=99.92  E-value=3.8e-25  Score=205.02  Aligned_cols=106  Identities=24%  Similarity=0.324  Sum_probs=98.0

Q ss_pred             CcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhh
Q psy14234        369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSN  448 (779)
Q Consensus       369 ~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~N  448 (779)
                      .+..+.+.|..||..|+.+.   .+|+|..|||...  +||||+||++||||+||++||++|.|.++.+|.+||+|||.|
T Consensus         5 ~~~~l~~~l~~il~~L~~~~---~~~~F~~PVd~~~--~pdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~~Dv~Li~~N   79 (117)
T 2i7k_A            5 EQTPLQEALNQLMRQLQRKD---PSAFFSFPVTDFI--APGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTN   79 (117)
T ss_dssp             THHHHHHHHHHHHHHHHTSS---GGGTSSSCCCTTT--SSSHHHHCSCCCCHHHHHHHHTTTSCCSHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHhCc---ccHHhcCCCCccc--cCCHHHHhCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Confidence            45677899999999998764   5899999999754  899999999999999999999999999999999999999999


Q ss_pred             hcccCCCCChHHHHHHHHHHHHHHHHhcCCC
Q psy14234        449 CYKYNPPDHNVVTMARQLSAVFEDRFAKMPD  479 (779)
Q Consensus       449 a~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~  479 (779)
                      |++||+++|.++.+|..|++.|++.|.....
T Consensus        80 a~~yN~~~s~i~~~A~~L~~~f~~~~~~~~~  110 (117)
T 2i7k_A           80 AMIYNKPETIYYKAAKKLLHSGMKILSQERL  110 (117)
T ss_dssp             HHHTSCSSSSHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999987543

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

Probab=99.92  E-value=2.3e-25  Score=211.92  Aligned_cols=106  Identities=37%  Similarity=0.691  Sum_probs=99.1

Q ss_pred             cHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh
Q psy14234        370 TPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNC  449 (779)
Q Consensus       370 ~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na  449 (779)
                      +..|.+.|..||..|+.++.   +|||+.|||...  +||||+||++||||+||++||++|.|.++++|.+||+|||.||
T Consensus        19 ~~~l~~~~~~il~~l~~~~~---s~~F~~pv~~~~--~pdY~~iI~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~Na   93 (135)
T 3mb3_A           19 IQAWKKQCEELLNLIFQCED---SEPFRQPVDLLE--YPDYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSNS   93 (135)
T ss_dssp             SSTHHHHHHHHHHHHHHSGG---GGGGSSCCCTTT--STTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCC---ChhhcCCCChhh--CCCHHHHhCCCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHH
Confidence            45789999999999999864   899999999854  8999999999999999999999999999999999999999999


Q ss_pred             cccCCC-CChHHHHHHHHHHHHHHHHhcCCCc
Q psy14234        450 YKYNPP-DHNVVTMARQLSAVFEDRFAKMPDE  480 (779)
Q Consensus       450 ~~yN~~-~s~v~~~A~~Lq~~Fe~~~~~i~~~  480 (779)
                      +.||++ +|.||.+|..|+++|+++|..+..+
T Consensus        94 ~~yN~~~~s~i~~~A~~L~~~f~~~~~~~~~~  125 (135)
T 3mb3_A           94 KAYTPSKRSRIYSMSLRLSAFFEEHISSVLSD  125 (135)
T ss_dssp             HHHSCCTTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999998 9999999999999999999987544

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

Probab=99.92  E-value=2.9e-25  Score=207.88  Aligned_cols=106  Identities=39%  Similarity=0.729  Sum_probs=98.9

Q ss_pred             HHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        371 PLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       371 ~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      ..|.+.|..||..|+.++   .+|||..||+...  +||||++|++||||+||++||++|.|.++++|..||+|||.||+
T Consensus         9 ~~~~~~c~~il~~l~~~~---~s~~F~~pv~~~~--~pdY~~~I~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~   83 (123)
T 3q2e_A            9 SNWKKQCKELVNLIFQCE---DSEPFRQPVDLVE--YPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAK   83 (123)
T ss_dssp             -CHHHHHHHHHHHHHTSG---GGGGGSSCCCTTT--CTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCC---CcHhhcCCCChhh--cCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            358899999999999876   4899999999875  89999999999999999999999999999999999999999999


Q ss_pred             ccCCC-CChHHHHHHHHHHHHHHHHhcCCCch
Q psy14234        451 KYNPP-DHNVVTMARQLSAVFEDRFAKMPDES  481 (779)
Q Consensus       451 ~yN~~-~s~v~~~A~~Lq~~Fe~~~~~i~~~~  481 (779)
                      .||++ +|.||.+|..|+++|+++|.++..+.
T Consensus        84 ~yN~~~~s~i~~~A~~L~~~f~~~~~~~~~~~  115 (123)
T 3q2e_A           84 AYTPNKRSKIYSMTLRLSALFEEKMKKISSDF  115 (123)
T ss_dssp             HHSCCTTSHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99996 99999999999999999999986554

>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=3e-25  Score=206.87  Aligned_cols=108  Identities=22%  Similarity=0.400  Sum_probs=99.8

Q ss_pred             cHHHHHHHHHHHHHHHhccC---CCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q psy14234        370 TPLWYKYCSEIIAELFHKKH---QNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIF  446 (779)
Q Consensus       370 ~~~~~k~c~~iL~~l~~~k~---~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf  446 (779)
                      ...+.+.|..||..|+..++   +.++++|..||+...  +||||+||++||||+||++||++|.|.++.+|..||+|||
T Consensus         6 p~~l~~~~~~ll~~l~~~~d~~g~~~s~~F~~~~~~~~--~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~   83 (120)
T 3ljw_A            6 PAYLKEILEQLLEAIVVATNPSGRLISELFQKLPSKVQ--YPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLA   83 (120)
T ss_dssp             HHHHHHHHHHHHHHHHHCBCTTSCBTTGGGSSCCCTTT--CHHHHHHCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhccCcCCCcccHHhcCCCCccc--CCChHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHH
Confidence            45678889999999987654   457999999998765  8999999999999999999999999999999999999999


Q ss_pred             hhhcccCCCCChHHHHHHHHHHHHHHHHhcCCC
Q psy14234        447 SNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPD  479 (779)
Q Consensus       447 ~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~  479 (779)
                      .||+.||+++|.||.+|..|+++|+++|++++.
T Consensus        84 ~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~i~~  116 (120)
T 3ljw_A           84 KNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEH  116 (120)
T ss_dssp             HHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHhhh
Confidence            999999999999999999999999999998753

>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=3e-25  Score=208.71  Aligned_cols=106  Identities=25%  Similarity=0.318  Sum_probs=98.0

Q ss_pred             HHHHHHHHHHHHHHHhcc---CCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhh
Q psy14234        371 PLWYKYCSEIIAELFHKK---HQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFS  447 (779)
Q Consensus       371 ~~~~k~c~~iL~~l~~~k---~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~  447 (779)
                      ..+.+.|..|+..|..++   ++.++|||..||+...  +||||++|++||||+||++||++|.|.++++|.+||+|||.
T Consensus         8 ~~l~~~~~~i~~~l~~~~d~~g~~~s~~F~~pv~~~~--~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~   85 (126)
T 3mqm_A            8 ARLAQIFKEICDGIISYKDSSRQALAAPLLNLPPKKK--NADYYEKISDPLDLITIEKQILTGYYKTVEAFDADMLKVFR   85 (126)
T ss_dssp             HHHHHHHHHHHHHHHHCBCTTCCBTTGGGSSCCCGGG--CTTHHHHCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCcCCCChhHHhcCCCCccc--CCCHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            456788899999998865   3568999999999875  89999999999999999999999999999999999999999


Q ss_pred             hhcccCCCCChHHHHHHHHHHHHHHHHhcCC
Q psy14234        448 NCYKYNPPDHNVVTMARQLSAVFEDRFAKMP  478 (779)
Q Consensus       448 Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~  478 (779)
                      ||++||+++|.||.+|..|+++|++.|.++.
T Consensus        86 Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~~  116 (126)
T 3mqm_A           86 NAEKYYGRKSPVGRDVCRLRKAYYNARHEAS  116 (126)
T ss_dssp             HHHHHHCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999998754

>3nxb_A CAT eye syndrome critical region protein 2; structural genomics consortium, SGC, CECR2, CAT eye syndrome chromosome region candidate 2, bromodomain; 1.83A {Homo sapiens} SCOP: a.29.2.0

Probab=99.92  E-value=5.2e-25  Score=204.11  Aligned_cols=100  Identities=33%  Similarity=0.620  Sum_probs=95.6

Q ss_pred             HHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCC
Q psy14234        124 QLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNK  203 (779)
Q Consensus       124 ~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~  203 (779)
                      ++...|..||+.|++|+.+|||..||++.  .+||||.+|++||||+||++||++|.|.++.+|+.||+|||.||++||+
T Consensus        16 ~~~~~~~~il~~l~~~~~s~~F~~pv~~~--~~pdY~~~I~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~yN~   93 (116)
T 3nxb_A           16 DDFTAMYKVLDVVKAHKDSWPFLEPVDES--YAPNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNG   93 (116)
T ss_dssp             CHHHHHHHHHHHHHHSTTCGGGSSCCCTT--TSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhCCCcHhhcCcCChh--hccChHHHcCCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHCC
Confidence            35667889999999999999999999976  7999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHHHhC
Q psy14234        204 PGEDVVLMAQNLEQLFLTKITG  225 (779)
Q Consensus       204 ~~s~i~~~A~~Le~~f~~~~~~  225 (779)
                      ++|.|+.+|..|++.|.+.|.+
T Consensus        94 ~~s~~~~~A~~L~~~f~~~~~k  115 (116)
T 3nxb_A           94 ESSEYTKMSDNLERCFHRAMMK  115 (116)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999875

>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural genomics, NPPSFA; 2.50A {Homo sapiens}

Probab=99.92  E-value=4.6e-25  Score=209.69  Aligned_cols=108  Identities=31%  Similarity=0.546  Sum_probs=101.7

Q ss_pred             CChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhc--CCCCCHHHHHHHHHHHhhh
Q psy14234        120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLEN--NYYWSGKEAIQDFTTMFTN  197 (779)
Q Consensus       120 ~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~--~~Y~s~~ef~~D~~lmf~N  197 (779)
                      +++...+..|..||..|++|+.+|+|..||+.   ++||||.+|++||||+||++||++  +.|.++.+|+.||+|||.|
T Consensus        16 ~m~p~~~~~c~~il~~L~~~~~s~~F~~Pv~~---~~pdY~~iIk~PmDL~tI~~kL~~~~~~Y~s~~ef~~Dv~Lif~N   92 (135)
T 2yyn_A           16 KLTPIDKRKCERLLLFLYCHEMSLAFQDPVPL---TVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQN   92 (135)
T ss_dssp             CCCHHHHHHHHHHHHHHHTSGGGGGGSSCCCT---TSTTHHHHCSSCCCHHHHHHHHHSSSCCCSSHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHhCccchhhcCCCcc---cCCCHHHHcCCCCCHHHHHHHHhccccCCCCHHHHHHHHHHHHHH
Confidence            56677778899999999999999999999985   699999999999999999999998  5899999999999999999


Q ss_pred             hhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCcc
Q psy14234        198 CYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE  230 (779)
Q Consensus       198 a~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~~e  230 (779)
                      |++||+++|.|+.+|..|+++|.+.|.++.++.
T Consensus        93 a~~yN~~~s~i~~~A~~L~~~f~~~~~~~~~~~  125 (135)
T 2yyn_A           93 CAEFNEPDSEVANAGIKLENYFEELLKNLYPEK  125 (135)
T ss_dssp             HHHHSCTTSHHHHHHHHHHHHHHHHHHHHSSSC
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999999999999999999987654

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

Probab=99.92  E-value=3.5e-25  Score=207.30  Aligned_cols=107  Identities=27%  Similarity=0.516  Sum_probs=100.1

Q ss_pred             ChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhh
Q psy14234        121 NTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYV  200 (779)
Q Consensus       121 ~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~  200 (779)
                      ....|+..|..||+.|++|+.+++|..||++.  .+||||.+|++||||+||++||++|.|.++.+|+.||+|||.||++
T Consensus         7 ~~~~~~~~c~~il~~l~~~~~s~~F~~pv~~~--~~pdY~~~I~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~   84 (123)
T 3q2e_A            7 VESNWKKQCKELVNLIFQCEDSEPFRQPVDLV--EYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAKA   84 (123)
T ss_dssp             ---CHHHHHHHHHHHHHTSGGGGGGSSCCCTT--TCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhCCCcHhhcCCCChh--hcCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            45679999999999999999999999999976  7999999999999999999999999999999999999999999999


Q ss_pred             hCCC-CCHHHHHHHHHHHHHHHHHhCCCCc
Q psy14234        201 YNKP-GEDVVLMAQNLEQLFLTKITGMPSE  229 (779)
Q Consensus       201 yN~~-~s~i~~~A~~Le~~f~~~~~~~~~~  229 (779)
                      ||++ +|.|+.+|..|+++|.++|.++..+
T Consensus        85 yN~~~~s~i~~~A~~L~~~f~~~~~~~~~~  114 (123)
T 3q2e_A           85 YTPNKRSKIYSMTLRLSALFEEKMKKISSD  114 (123)
T ss_dssp             HSCCTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9996 9999999999999999999987654

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

Probab=99.91  E-value=3.8e-25  Score=210.42  Aligned_cols=107  Identities=25%  Similarity=0.485  Sum_probs=100.9

Q ss_pred             hHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        122 TNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      ...|+..|..||+.|++|+.+|+|..||+..  ++||||.+|++||||+||++||++|.|.++.+|+.||+|||.||++|
T Consensus        19 ~~~l~~~~~~il~~l~~~~~s~~F~~pv~~~--~~pdY~~iI~~Pmdl~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~y   96 (135)
T 3mb3_A           19 IQAWKKQCEELLNLIFQCEDSEPFRQPVDLL--EYPDYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSNSKAY   96 (135)
T ss_dssp             SSTHHHHHHHHHHHHHHSGGGGGGSSCCCTT--TSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCCChhhcCCCChh--hCCCHHHHhCCCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            3578999999999999999999999999974  89999999999999999999999999999999999999999999999


Q ss_pred             CCC-CCHHHHHHHHHHHHHHHHHhCCCCcc
Q psy14234        202 NKP-GEDVVLMAQNLEQLFLTKITGMPSEE  230 (779)
Q Consensus       202 N~~-~s~i~~~A~~Le~~f~~~~~~~~~~e  230 (779)
                      |++ +|.||.+|..|+++|.+.|..+.++.
T Consensus        97 N~~~~s~i~~~A~~L~~~f~~~~~~~~~~~  126 (135)
T 3mb3_A           97 TPSKRSRIYSMSLRLSAFFEEHISSVLSDY  126 (135)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            998 99999999999999999999875543

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

Probab=99.91  E-value=1.7e-25  Score=211.16  Aligned_cols=111  Identities=25%  Similarity=0.425  Sum_probs=99.9

Q ss_pred             CCcHHHHHHHHHHHHHHHhcc---CCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHH
Q psy14234        368 SKTPLWYKYCSEIIAELFHKK---HQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRL  444 (779)
Q Consensus       368 ~~~~~~~k~c~~iL~~l~~~k---~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~L  444 (779)
                      .....+..+|..|+..|...+   ++.++|||+.||+...  +||||++|++||||+||++||+++.|.++++|..||+|
T Consensus        13 ~~~~kl~~~~~~l~~~l~~~~d~~g~~~s~~F~~pv~~~~--~PdY~~iIk~PMdL~tI~~kL~~~~Y~s~~ef~~Dv~L   90 (130)
T 3k2j_A           13 LGTENLYFQSMQLYDTVRSCRNNQGQLIAEPFYHLPSKKK--YPDYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNL   90 (130)
T ss_dssp             CHHHHHHHHHHHHHHHHHTCBCSSSCBTTGGGSSCCCTTT--CHHHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHhcccCCCccHhhcCCCChhh--CccHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHH
Confidence            445667788888888887654   3568999999999765  89999999999999999999999999999999999999


Q ss_pred             hhhhhcccCCCCChHHHHHHHHHHHHHHHHhcCCCc
Q psy14234        445 IFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE  480 (779)
Q Consensus       445 mf~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~  480 (779)
                      ||.||++||+++|.|+.+|..|+++|+++|.++...
T Consensus        91 if~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~~  126 (130)
T 3k2j_A           91 MFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARR  126 (130)
T ss_dssp             HHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999987543

>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=99.91  E-value=3.9e-25  Score=208.64  Aligned_cols=108  Identities=24%  Similarity=0.335  Sum_probs=100.6

Q ss_pred             ChHHHHHHHHHHHHHHHcCC-------CCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHH
Q psy14234        121 NTNQLQYIVKNVMKAVWKHP-------HAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTT  193 (779)
Q Consensus       121 ~~~~l~~~~~~il~~L~~~~-------~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~l  193 (779)
                      ....|+..|..||+.|+++.       .+++|..||+..  .+||||.+|++||||+||++||++|.|.++.+|+.||+|
T Consensus         8 ~~~~l~~~~~~il~~l~~~~d~~~~~~~s~~F~~pv~~~--~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~L   85 (129)
T 2grc_A            8 NPPNLTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRK--ELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVML   85 (129)
T ss_dssp             CCHHHHHHHHHHHHHHHHCBCTTTCCBGGGGGSSCCCTT--TCHHHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHhcccccccCeeeHHhcCCCCcc--cCCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHH
Confidence            45678889999999999875       589999999954  899999999999999999999999999999999999999


Q ss_pred             HhhhhhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCcc
Q psy14234        194 MFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE  230 (779)
Q Consensus       194 mf~Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~~e  230 (779)
                      ||.||++||+++|.||.+|..|+++|.+.|.+++..+
T Consensus        86 i~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~~~  122 (129)
T 2grc_A           86 LCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKED  122 (129)
T ss_dssp             HHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHccCCC
Confidence            9999999999999999999999999999999887554

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

Probab=99.91  E-value=1.1e-24  Score=204.00  Aligned_cols=101  Identities=25%  Similarity=0.392  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhC
Q psy14234        123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYN  202 (779)
Q Consensus       123 ~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN  202 (779)
                      ..++.+|..||+.|++++.+++|..||++.  .+||||.+|++||||+||++||++|.|.++.+|+.||+|||.||++||
T Consensus        12 ~p~~~~l~~il~~l~~~~~~~~F~~pv~~~--~~pdY~~iIk~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~yN   89 (123)
T 3hme_A           12 TPIQQLLEHFLRQLQRKDPHGFFAFPVTDA--IAPGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYN   89 (123)
T ss_dssp             CHHHHHHHHHHHHHHTTCTTCSSSSCCCTT--TSTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHHhCCccHhhcCCCChh--hccCHHHHCCCCCCHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            357889999999999999999999999976  799999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHhC
Q psy14234        203 KPGEDVVLMAQNLEQLFLTKITG  225 (779)
Q Consensus       203 ~~~s~i~~~A~~Le~~f~~~~~~  225 (779)
                      +++|.|+.+|..|++.|.+.|.+
T Consensus        90 ~~~s~~~~~A~~L~~~~~~~~~~  112 (123)
T 3hme_A           90 RPDTVYYKLAKKILHAGFKMMSK  112 (123)
T ss_dssp             CTTSHHHHHHHHHHHHHHHHTCH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999988764

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

Probab=99.91  E-value=3.7e-25  Score=206.29  Aligned_cols=108  Identities=26%  Similarity=0.450  Sum_probs=101.3

Q ss_pred             ChHHHHHHHHHHHHHHHcCCC------CCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHH
Q psy14234        121 NTNQLQYIVKNVMKAVWKHPH------AWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTM  194 (779)
Q Consensus       121 ~~~~l~~~~~~il~~L~~~~~------s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lm  194 (779)
                      .+..|+..|..|++.|.++..      +++|..||+..  ++||||.+|++||||+||++||++|.|.++.+|+.||+||
T Consensus         5 ~p~~l~~~~~~ll~~l~~~~d~~g~~~s~~F~~~~~~~--~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li   82 (120)
T 3ljw_A            5 SPAYLKEILEQLLEAIVVATNPSGRLISELFQKLPSKV--QYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLL   82 (120)
T ss_dssp             CHHHHHHHHHHHHHHHHHCBCTTSCBTTGGGSSCCCTT--TCHHHHHHCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHhccCcCCCcccHHhcCCCCcc--cCCChHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHH
Confidence            467899999999999998777      99999999964  8999999999999999999999999999999999999999


Q ss_pred             hhhhhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCcc
Q psy14234        195 FTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE  230 (779)
Q Consensus       195 f~Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~~e  230 (779)
                      |.||++||+++|.|+.+|..|+++|.+.|++++..+
T Consensus        83 ~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~i~~~~  118 (120)
T 3ljw_A           83 AKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEHHE  118 (120)
T ss_dssp             HHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999999999999999999999999999999876543

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

Probab=99.91  E-value=2.3e-24  Score=205.11  Aligned_cols=103  Identities=27%  Similarity=0.390  Sum_probs=98.4

Q ss_pred             HHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhC
Q psy14234        123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYN  202 (779)
Q Consensus       123 ~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN  202 (779)
                      ..|+.+|..||+.|++|+.+|+|..||+..  .+||||.+|++||||+||++||++|.|.++.+|+.||+|||.||++||
T Consensus        12 ~~l~~~l~~il~~l~~~~~~~~F~~pv~~~--~~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~yN   89 (135)
T 3rcw_A           12 TPLTVLLRSVLDQLQDKDPARIFAQPVSLK--EVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYN   89 (135)
T ss_dssp             CHHHHHHHHHHHHHHHTCTTCSSSSCCCTT--TCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHS
T ss_pred             hHHHHHHHHHHHHHHhCCcchhhcCCCChh--hcCCHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            358899999999999999999999999976  799999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHhCCC
Q psy14234        203 KPGEDVVLMAQNLEQLFLTKITGMP  227 (779)
Q Consensus       203 ~~~s~i~~~A~~Le~~f~~~~~~~~  227 (779)
                      +++|.||.+|..|++.|.+.|.++.
T Consensus        90 ~~~s~~~~~A~~L~~~~~~~~~~~~  114 (135)
T 3rcw_A           90 ARDTVFYRAAVRLRDQGGVVLRQAR  114 (135)
T ss_dssp             CTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999998753

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

Probab=99.91  E-value=1.7e-24  Score=202.59  Aligned_cols=102  Identities=27%  Similarity=0.383  Sum_probs=95.2

Q ss_pred             cHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh
Q psy14234        370 TPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNC  449 (779)
Q Consensus       370 ~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na  449 (779)
                      ...+...|..||..|+.+.   .+|+|..|||...  +||||++|++||||+||++||++|.|.++++|.+||+|||.||
T Consensus        11 ~~p~~~~l~~il~~l~~~~---~~~~F~~pv~~~~--~pdY~~iIk~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na   85 (123)
T 3hme_A           11 STPIQQLLEHFLRQLQRKD---PHGFFAFPVTDAI--APGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNA   85 (123)
T ss_dssp             CCHHHHHHHHHHHHHHTTC---TTCSSSSCCCTTT--STTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhCC---ccHhhcCCCChhh--ccCHHHHCCCCCCHHHHHHHhccCCCCCHHHHHHHHHHHHHHH
Confidence            3457889999999998865   4899999999875  8999999999999999999999999999999999999999999


Q ss_pred             cccCCCCChHHHHHHHHHHHHHHHHhc
Q psy14234        450 YKYNPPDHNVVTMARQLSAVFEDRFAK  476 (779)
Q Consensus       450 ~~yN~~~s~v~~~A~~Lq~~Fe~~~~~  476 (779)
                      +.||+++|.||.+|..|++.|++.|.+
T Consensus        86 ~~yN~~~s~~~~~A~~L~~~~~~~~~~  112 (123)
T 3hme_A           86 MTYNRPDTVYYKLAKKILHAGFKMMSK  112 (123)
T ss_dssp             HHHSCTTSHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999998865

>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=99.91  E-value=1.6e-24  Score=203.69  Aligned_cols=104  Identities=21%  Similarity=0.248  Sum_probs=97.5

Q ss_pred             hHHHHHHHHHHHHHHHcCCC------CCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHh
Q psy14234        122 TNQLQYIVKNVMKAVWKHPH------AWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMF  195 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~~~------s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf  195 (779)
                      +..|+..|..|++.|+++..      +|||..||+..  ++||||.+|++||||+||++||++|.|.++.+|..||+|||
T Consensus         7 ~~~l~~~~~~i~~~l~~~~d~~g~~~s~~F~~pv~~~--~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~   84 (126)
T 3mqm_A            7 AARLAQIFKEICDGIISYKDSSRQALAAPLLNLPPKK--KNADYYEKISDPLDLITIEKQILTGYYKTVEAFDADMLKVF   84 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHCBCTTCCBTTGGGSSCCCGG--GCTTHHHHCSSCCCHHHHHHHHHHTCCCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhCcCCCChhHHhcCCCCcc--cCCCHHHHcCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            46788899999999998754      99999999976  89999999999999999999999999999999999999999


Q ss_pred             hhhhhhCCCCCHHHHHHHHHHHHHHHHHhCCC
Q psy14234        196 TNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP  227 (779)
Q Consensus       196 ~Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~  227 (779)
                      .||++||+++|.|+.+|..|+++|.+.+.++.
T Consensus        85 ~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~~  116 (126)
T 3mqm_A           85 RNAEKYYGRKSPVGRDVCRLRKAYYNARHEAS  116 (126)
T ss_dssp             HHHHHHHCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999998754

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

Probab=99.91  E-value=2.6e-24  Score=204.72  Aligned_cols=104  Identities=31%  Similarity=0.477  Sum_probs=97.9

Q ss_pred             CcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhh
Q psy14234        369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSN  448 (779)
Q Consensus       369 ~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~N  448 (779)
                      .+..+...|..||..|+.++   .+|+|..|||...  +||||++|++||||+||++||++|.|.++++|.+||+|||.|
T Consensus        10 ~~~~l~~~l~~il~~l~~~~---~~~~F~~pv~~~~--~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~N   84 (135)
T 3rcw_A           10 RLTPLTVLLRSVLDQLQDKD---PARIFAQPVSLKE--VPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDN   84 (135)
T ss_dssp             CCCHHHHHHHHHHHHHHHTC---TTCSSSSCCCTTT--CTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHhCC---cchhhcCCCChhh--cCCHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence            45568899999999999875   4899999999875  899999999999999999999999999999999999999999


Q ss_pred             hcccCCCCChHHHHHHHHHHHHHHHHhcC
Q psy14234        449 CYKYNPPDHNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       449 a~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      |+.||+++|.+|.+|..|+++|+..|...
T Consensus        85 a~~yN~~~s~~~~~A~~L~~~~~~~~~~~  113 (135)
T 3rcw_A           85 CMKYNARDTVFYRAAVRLRDQGGVVLRQA  113 (135)
T ss_dssp             HHHHSCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999875

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

Probab=99.91  E-value=3.5e-24  Score=208.63  Aligned_cols=108  Identities=29%  Similarity=0.507  Sum_probs=98.7

Q ss_pred             CcHHHHHHHHHHHHHHHhc--cCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q psy14234        369 KTPLWYKYCSEIIAELFHK--KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIF  446 (779)
Q Consensus       369 ~~~~~~k~c~~iL~~l~~~--k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf  446 (779)
                      .+......|..||..++..  ..+..+|||+.||+...  +||||+||++||||+||++||++|.|.++.+|..||+|||
T Consensus        22 ~~~d~~~~l~~iL~~i~~~kl~~~~~s~~F~~PVd~~~--~PdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~~Dv~Lif   99 (158)
T 3uv4_A           22 SMDDDQVAFSFILDNIVTQKMMAVPDSWPFHHPVNKKF--VPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLIL   99 (158)
T ss_dssp             CCSHHHHHHHHHHHHHHHHTTTTSTTCGGGTSCCCTTT--STTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHH
T ss_pred             cCCchHHHHHHHHHHHHHHHHHcCCCchhhcCcCChhh--cccHHHHcCCccCHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            3556778888999888764  33567999999999875  8999999999999999999999999999999999999999


Q ss_pred             hhhcccCCCCChHHHHHHHHHHHHHHHHhcCC
Q psy14234        447 SNCYKYNPPDHNVVTMARQLSAVFEDRFAKMP  478 (779)
Q Consensus       447 ~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~  478 (779)
                      .||++||++++.|+.+|..|+.+|+..|.++.
T Consensus       100 ~Na~~yN~~~s~i~~~A~~L~~~~~~~l~e~~  131 (158)
T 3uv4_A          100 ANSVKYNGPESQYTKTAQEIVNVCYQTLTEYD  131 (158)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHHHHHHTH
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999875

>2jns_A Bromodomain-containing protein 4; ET-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.90  E-value=4.5e-25  Score=194.48  Aligned_cols=82  Identities=80%  Similarity=1.228  Sum_probs=78.1

Q ss_pred             ccCCCcccccCCCCCHHHHHHHHHHccCCCCcchHHHHHHHhhcCCCCCCCCCCcEEEeCCCCChHHHHHHHHHHHHHHh
Q psy14234        608 RTFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLR  687 (779)
Q Consensus       608 ~~~~s~~e~~~~pmt~dEK~qLs~~In~LpgekL~~Vv~IIq~~ep~l~~~n~dEIEiD~etL~~~TLreLe~yV~~cL~  687 (779)
                      +.+|+++|+.+++|||+||++|+.+|++||+++|++||+||++++|++...++||||||||+|++.|||+|++||.+||+
T Consensus         5 ~~~d~~~e~~~~~mT~eEK~~Ls~~I~~Lp~e~L~~Vi~II~~~~p~l~~~~~dEIEiDid~L~~~TL~~L~~yV~~~l~   84 (90)
T 2jns_A            5 SSGESEEEDKCKPMSYEEKRQLSLDINKLPGEKLGRVVHIIQSREPSLKNSNPDEIEIDFETLKPSTLRELERYVTSCLR   84 (90)
T ss_dssp             CCCCTTTTSSCCCCCHHHHHHHHHHHTTSCHHHHTTHHHHHHTTCGGGTTSCTTSCCCCTTTSCHHHHHHHHHHHHTTSC
T ss_pred             CCCcCCCCCCCCCCCHHHHHHHHHHHHHcCHHHHHHHHHHHHhcCccccCCCCCeEEEeccCCCHHHHHHHHHHHHHHHH
Confidence            45788889999999999999999999999999999999999999999987788999999999999999999999999998


Q ss_pred             hh
Q psy14234        688 KR  689 (779)
Q Consensus       688 kk  689 (779)
                      +|
T Consensus        85 ~k   86 (90)
T 2jns_A           85 KK   86 (90)
T ss_dssp             CC
T ss_pred             hh
Confidence            86

>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=99.90  E-value=1.8e-24  Score=200.52  Aligned_cols=103  Identities=23%  Similarity=0.303  Sum_probs=95.3

Q ss_pred             HHHHHHHHHHHHHHcCC------CCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhh
Q psy14234        124 QLQYIVKNVMKAVWKHP------HAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTN  197 (779)
Q Consensus       124 ~l~~~~~~il~~L~~~~------~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~N  197 (779)
                      .....|..|++.|+++.      .+++|..||+..  ++||||.+|++||||+||++||+++.|.++.+|..||+|||.|
T Consensus         5 ~~~~~c~~il~~l~~~~d~~g~~~s~~F~~p~~~~--~~pdY~~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~N   82 (116)
T 3iu5_A            5 DPIAVCHELYNTIRDYKDEQGRLLCELFIRAPKRR--NQPDYYEVVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNN   82 (116)
T ss_dssp             CHHHHHHHHHHHHHHCBCTTCCBGGGGGSSCCCGG--GCHHHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhccCCCeeeHHhcCCCCcc--cCCCHHHHhCCCCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Confidence            34567889999999874      599999999954  8999999999999999999999999999999999999999999


Q ss_pred             hhhhCCCCCHHHHHHHHHHHHHHHHHhCCCC
Q psy14234        198 CYVYNKPGEDVVLMAQNLEQLFLTKITGMPS  228 (779)
Q Consensus       198 a~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~  228 (779)
                      |++||+++|.|+.+|..|+++|.+.+.++..
T Consensus        83 a~~yN~~~s~~~~~A~~L~~~f~~~~~~l~~  113 (116)
T 3iu5_A           83 AKSYYKPDSPEYKAACKLWDLYLRTRNEFVQ  113 (116)
T ss_dssp             HHHHSCTTSHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999988643

>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=99.90  E-value=6e-24  Score=200.56  Aligned_cols=106  Identities=25%  Similarity=0.349  Sum_probs=96.6

Q ss_pred             hHHHHHHHHHHHHHHHcCCC------CCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHh
Q psy14234        122 TNQLQYIVKNVMKAVWKHPH------AWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMF  195 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~~~------s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf  195 (779)
                      ...|...|..|++.|.++..      +|||..||+..  .+||||.+|++||||+||++||+++.|.++.+|+.||+|||
T Consensus        15 ~~kl~~~~~~l~~~l~~~~d~~g~~~s~~F~~pv~~~--~~PdY~~iIk~PMdL~tI~~kL~~~~Y~s~~ef~~Dv~Lif   92 (130)
T 3k2j_A           15 TENLYFQSMQLYDTVRSCRNNQGQLIAEPFYHLPSKK--KYPDYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMF   92 (130)
T ss_dssp             HHHHHHHHHHHHHHHHTCBCSSSCBTTGGGSSCCCTT--TCHHHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHhcccCCCccHhhcCCCChh--hCccHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence            45667777888888887544      99999999964  89999999999999999999999999999999999999999


Q ss_pred             hhhhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCc
Q psy14234        196 TNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSE  229 (779)
Q Consensus       196 ~Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~~  229 (779)
                      .||++||+++|.|+.+|..|+++|.+.|.++...
T Consensus        93 ~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~~  126 (130)
T 3k2j_A           93 ENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARR  126 (130)
T ss_dssp             HHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999987543

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

Probab=99.90  E-value=6.3e-24  Score=206.81  Aligned_cols=106  Identities=30%  Similarity=0.576  Sum_probs=98.2

Q ss_pred             hHHHHHHHHHHHHH-HHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhh
Q psy14234        122 TNQLQYIVKNVMKA-VWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYV  200 (779)
Q Consensus       122 ~~~l~~~~~~il~~-L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~  200 (779)
                      ..+|..+|..|+.. |+.++.+|||..||+..  .+||||.+|++||||+||++||+++.|.++.+|+.||+|||.||++
T Consensus        27 ~~~l~~iL~~i~~~kl~~~~~s~~F~~PVd~~--~~PdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~~Dv~Lif~Na~~  104 (158)
T 3uv4_A           27 QVAFSFILDNIVTQKMMAVPDSWPFHHPVNKK--FVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVK  104 (158)
T ss_dssp             HHHHHHHHHHHHHHTTTTSTTCGGGTSCCCTT--TSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCCchhhcCcCChh--hcccHHHHcCCccCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence            45677788887765 78899999999999975  7999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHhCCCCc
Q psy14234        201 YNKPGEDVVLMAQNLEQLFLTKITGMPSE  229 (779)
Q Consensus       201 yN~~~s~i~~~A~~Le~~f~~~~~~~~~~  229 (779)
                      ||+++|.|+.+|..|++.|.+.|.++...
T Consensus       105 yN~~~s~i~~~A~~L~~~~~~~l~e~~~~  133 (158)
T 3uv4_A          105 YNGPESQYTKTAQEIVNVCYQTLTEYDEH  133 (158)
T ss_dssp             HHCTTCHHHHHHHHHHHHHHHHHHHTHHH
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999998654

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

Probab=99.89  E-value=8.4e-24  Score=204.73  Aligned_cols=107  Identities=20%  Similarity=0.369  Sum_probs=97.0

Q ss_pred             HHHHHHHHHHHHHhccC----CCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhh
Q psy14234        373 WYKYCSEIIAELFHKKH----QNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSN  448 (779)
Q Consensus       373 ~~k~c~~iL~~l~~~k~----~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~N  448 (779)
                      ....|..||..|+...+    +.++++|+.||+...  +||||+||++||||+||++||++|.|.++++|.+||+|||.|
T Consensus        25 ~~~~~k~ll~~l~~~~~~~~~~~~~~~F~~~~~~~~--~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~N  102 (150)
T 3tlp_A           25 RKQRMKILFNVVLEAREPGSGRRLCDLFMVKPSKKD--YPDYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRN  102 (150)
T ss_dssp             HHHHHHHHHHHHHHCBCTTTCCBGGGGGSSCCCTTT--CHHHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhcccCCcccHHhcCCCchhh--CcCHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence            35678888888887553    567999999999765  899999999999999999999999999999999999999999


Q ss_pred             hcccCCCCChHHHHHHHHHHHHHHHHhcCCCch
Q psy14234        449 CYKYNPPDHNVVTMARQLSAVFEDRFAKMPDES  481 (779)
Q Consensus       449 a~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~~  481 (779)
                      |++||+++|.||.+|..|+++|+++|.++...+
T Consensus       103 a~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~~p  135 (150)
T 3tlp_A          103 ARHYNEEGSQVYNDAHILEKLLKEKRKELGPLP  135 (150)
T ss_dssp             HHHHSCTTSHHHHHHHHHHHHHHHHHHHHCCC-
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHccCCC
Confidence            999999999999999999999999999987544

>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=99.89  E-value=1.5e-23  Score=207.99  Aligned_cols=106  Identities=37%  Similarity=0.631  Sum_probs=100.2

Q ss_pred             CChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhh
Q psy14234        120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCY  199 (779)
Q Consensus       120 ~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~  199 (779)
                      .++...+..|..||+.|++|+.++||..||++.  .+||||.+|++||||+||++||++|.|.++.+|+.||+|||.||+
T Consensus        68 ~l~~~~~~~l~~il~~l~~~~~~~~F~~pv~~~--~~pdY~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~  145 (174)
T 2ri7_A           68 PLTEKDYEGLKRVLRSLQAHKMAWPFLEPVDPN--DAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCR  145 (174)
T ss_dssp             BCCHHHHHHHHHHHHHHHTSGGGTTTSSCCCTT--TCHHHHHHCSSCCCHHHHHHHHHTTCCCBHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhhhhhhhhhcCCCcc--cCCchHHHhCCcCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence            355667778899999999999999999999976  799999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHHHHhCCC
Q psy14234        200 VYNKPGEDVVLMAQNLEQLFLTKITGMP  227 (779)
Q Consensus       200 ~yN~~~s~i~~~A~~Le~~f~~~~~~~~  227 (779)
                      +||+++|.|+.+|..|+++|.++|++++
T Consensus       146 ~yN~~~s~~~~~A~~L~~~f~~~~~~~~  173 (174)
T 2ri7_A          146 YYNPSDSPFYQCAEVLESFFVQKLKGFK  173 (174)
T ss_dssp             HHSCTTSHHHHHHHHHHHHHHHHTTTCC
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHhcc
Confidence            9999999999999999999999999875

>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=99.89  E-value=1.6e-23  Score=207.83  Aligned_cols=103  Identities=34%  Similarity=0.646  Sum_probs=97.3

Q ss_pred             HHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        371 PLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       371 ~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      ..+++.|..||..|+.++   .+|||+.|||+..  +||||+||++||||+||++||++|.|.++++|.+||+|||.||+
T Consensus        71 ~~~~~~l~~il~~l~~~~---~~~~F~~pv~~~~--~pdY~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~  145 (174)
T 2ri7_A           71 EKDYEGLKRVLRSLQAHK---MAWPFLEPVDPND--APDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCR  145 (174)
T ss_dssp             HHHHHHHHHHHHHHHTSG---GGTTTSSCCCTTT--CHHHHHHCSSCCCHHHHHHHHHTTCCCBHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhh---hhhhhhcCCCccc--CCchHHHhCCcCCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence            467889999999998865   5899999999874  89999999999999999999999999999999999999999999


Q ss_pred             ccCCCCChHHHHHHHHHHHHHHHHhcCC
Q psy14234        451 KYNPPDHNVVTMARQLSAVFEDRFAKMP  478 (779)
Q Consensus       451 ~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~  478 (779)
                      +||+++|.||.+|..|+++|+++|++++
T Consensus       146 ~yN~~~s~~~~~A~~L~~~f~~~~~~~~  173 (174)
T 2ri7_A          146 YYNPSDSPFYQCAEVLESFFVQKLKGFK  173 (174)
T ss_dssp             HHSCTTSHHHHHHHHHHHHHHHHTTTCC
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHhcc
Confidence            9999999999999999999999999875

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

Probab=99.89  E-value=4e-23  Score=195.16  Aligned_cols=101  Identities=26%  Similarity=0.385  Sum_probs=95.5

Q ss_pred             hHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        122 TNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      ..+|+.+|..|++.|+.|+.+|||..||++.  .+||||.+|++||||+||++||++|.|.++.+|+.||+|||.||++|
T Consensus         8 l~~l~~~l~~il~~l~~~~~~~~F~~pv~~~--~~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~~y   85 (130)
T 3dai_A            8 FRELRIFLRNVTHRLAIDKRFRVFTKPVDPD--EVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEY   85 (130)
T ss_dssp             HHHHHHHHHHHHHHHHTSGGGGGGSSCCCTT--TCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCccHhhcCCCChh--hcCCHHHHcCCCCCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            3578899999999999999999999999976  79999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHH----HHHHHHHHHHHHHHHh
Q psy14234        202 NKPGEDV----VLMAQNLEQLFLTKIT  224 (779)
Q Consensus       202 N~~~s~i----~~~A~~Le~~f~~~~~  224 (779)
                      |+++|++    +.+|..|+..+...+.
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            9999865    7899999999999886

>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=99.88  E-value=1.7e-23  Score=202.56  Aligned_cols=103  Identities=28%  Similarity=0.366  Sum_probs=92.8

Q ss_pred             HHHHHHHHHHHHHHcCC-------CCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhh
Q psy14234        124 QLQYIVKNVMKAVWKHP-------HAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFT  196 (779)
Q Consensus       124 ~l~~~~~~il~~L~~~~-------~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~  196 (779)
                      ..+..|..|++.|+++.       .+++|..||+..  ++||||.+|++||||+||++||++|.|.++.+|+.||+|||.
T Consensus        24 ~~~~~~k~ll~~l~~~~~~~~~~~~~~~F~~~~~~~--~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~  101 (150)
T 3tlp_A           24 IRKQRMKILFNVVLEAREPGSGRRLCDLFMVKPSKK--DYPDYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFR  101 (150)
T ss_dssp             HHHHHHHHHHHHHHHCBCTTTCCBGGGGGSSCCCTT--TCHHHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHhcccCCcccHHhcCCCchh--hCcCHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Confidence            34556666777776644       499999999964  899999999999999999999999999999999999999999


Q ss_pred             hhhhhCCCCCHHHHHHHHHHHHHHHHHhCCCC
Q psy14234        197 NCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS  228 (779)
Q Consensus       197 Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~  228 (779)
                      ||++||+++|.||.+|..|+++|.+.|.++..
T Consensus       102 Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~  133 (150)
T 3tlp_A          102 NARHYNEEGSQVYNDAHILEKLLKEKRKELGP  133 (150)
T ss_dssp             HHHHHSCTTSHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHccC
Confidence            99999999999999999999999999999764

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=99.87  E-value=5.4e-23  Score=206.23  Aligned_cols=104  Identities=22%  Similarity=0.404  Sum_probs=95.5

Q ss_pred             CCcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhc--CCCCHHHHHHHHhcC---CCCCHHHHHHHH
Q psy14234        368 SKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIK--KPMDLGTVRKKMRNR---TYKTAKEFADDV  442 (779)
Q Consensus       368 ~~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk--~PMDL~tIk~KL~~~---~Y~s~~eF~~Dv  442 (779)
                      +..+..+++|..||..|+.+.   .+|||++|||      ++||+||+  +||||+||++||+++   .|.++++|++||
T Consensus        72 ~m~~~~~~~c~~iL~~l~~~~---~s~pF~~pV~------~~Yy~iIk~~~PMDL~tIk~kL~~~~~~~Y~s~~eF~~Dv  142 (189)
T 2ro1_A           72 KLSPANQRKCERVLLALFCHE---PCRPLHQLAT------DSTFSLDQPGGTLDLTLIRARLQEKLSPPYSSPQEFAQDV  142 (189)
T ss_dssp             SSCHHHHHHHHHHHHHHHHST---THHHHHSCSC------CTTCSSSCSSCCCCHHHHHHHHHTSSSSCCSCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhhcccCc---cchhhcCCCC------hhhhccccCCCcccHHHHHHHHhcCCCcccCCHHHHHHHH
Confidence            345677899999999999865   5999999998      67999998  899999999999999   999999999999


Q ss_pred             HHhhhhhcccCCCCChHHHHHHHHHHHHHHHHhcCCCch
Q psy14234        443 RLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDES  481 (779)
Q Consensus       443 ~Lmf~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~~  481 (779)
                      +|||.||++|| +++.||.+|..|+++|+++|+++..+.
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

>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=99.87  E-value=1.1e-22  Score=203.56  Aligned_cols=104  Identities=33%  Similarity=0.696  Sum_probs=96.9

Q ss_pred             CCcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhc--CCCCCHHHHHHHHHHh
Q psy14234        368 SKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRN--RTYKTAKEFADDVRLI  445 (779)
Q Consensus       368 ~~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~--~~Y~s~~eF~~Dv~Lm  445 (779)
                      ...+.+.+.|..||..|+.++   .+|+|..||+..   +|+||+||++||||+||++||++  +.|.++++|.+||+||
T Consensus        77 ~l~~~~~~~c~~il~~l~~~~---~s~~F~~Pv~~~---~pdY~~iIk~PmdL~tI~~kl~~~~~~Y~s~~ef~~Dv~li  150 (184)
T 3o36_A           77 KLTPIDKRKCERLLLFLYCHE---MSLAFQDPVPLT---VPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLI  150 (184)
T ss_dssp             CCCHHHHHHHHHHHHHHHHST---TCHHHHSCCCTT---STTHHHHCSSCCCHHHHHHHHHSTTCSCCSHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHhch---hhhhhccccccC---CCchhhhcCCCCCHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence            345778999999999999876   489999999853   79999999999999999999998  7999999999999999


Q ss_pred             hhhhcccCCCCChHHHHHHHHHHHHHHHHhcC
Q psy14234        446 FSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       446 f~Na~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      |.||++||++++.|+.+|..|+.+|+++|.++
T Consensus       151 ~~Na~~yN~~~s~v~~~a~~L~~~f~~~~~~~  182 (184)
T 3o36_A          151 FQNCAEFNEPDSEVANAGIKLENYFEELLKNL  182 (184)
T ss_dssp             HHHHHHHSCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999875

>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=99.87  E-value=1.2e-22  Score=203.25  Aligned_cols=105  Identities=30%  Similarity=0.545  Sum_probs=99.7

Q ss_pred             CChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhc--CCCCCHHHHHHHHHHHhhh
Q psy14234        120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLEN--NYYWSGKEAIQDFTTMFTN  197 (779)
Q Consensus       120 ~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~--~~Y~s~~ef~~D~~lmf~N  197 (779)
                      .++..++..|..||..|+.|+.+++|..||+.   ++||||.+|++||||+||++||++  +.|.++.+|+.||+|||.|
T Consensus        77 ~l~~~~~~~c~~il~~l~~~~~s~~F~~Pv~~---~~pdY~~iIk~PmdL~tI~~kl~~~~~~Y~s~~ef~~Dv~li~~N  153 (184)
T 3o36_A           77 KLTPIDKRKCERLLLFLYCHEMSLAFQDPVPL---TVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQN  153 (184)
T ss_dssp             CCCHHHHHHHHHHHHHHHHSTTCHHHHSCCCT---TSTTHHHHCSSCCCHHHHHHHHHSTTCSCCSHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHhchhhhhhcccccc---CCCchhhhcCCCCCHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHH
Confidence            46788899999999999999999999999984   599999999999999999999998  7899999999999999999


Q ss_pred             hhhhCCCCCHHHHHHHHHHHHHHHHHhCCC
Q psy14234        198 CYVYNKPGEDVVLMAQNLEQLFLTKITGMP  227 (779)
Q Consensus       198 a~~yN~~~s~i~~~A~~Le~~f~~~~~~~~  227 (779)
                      |++||+++|.|+.+|..|+++|++.|+++.
T Consensus       154 a~~yN~~~s~v~~~a~~L~~~f~~~~~~~~  183 (184)
T 3o36_A          154 CAEFNEPDSEVANAGIKLENYFEELLKNLY  183 (184)
T ss_dssp             HHHHSCTTCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999999999999999998764

>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=99.87  E-value=2e-22  Score=190.39  Aligned_cols=100  Identities=29%  Similarity=0.391  Sum_probs=90.3

Q ss_pred             HHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        371 PLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       371 ~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      ..+...|..+|..|..++   .+|||..|||...  +||||++|++||||+||++||++|.|.++++|.+||+|||.||+
T Consensus         9 ~~l~~~l~~il~~l~~~~---~~~~F~~pv~~~~--~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na~   83 (130)
T 3dai_A            9 RELRIFLRNVTHRLAIDK---RFRVFTKPVDPDE--VPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNAL   83 (130)
T ss_dssp             HHHHHHHHHHHHHHHTSG---GGGGGSSCCCTTT--CTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCC---ccHhhcCCCChhh--cCCHHHHcCCCCCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHH
Confidence            345677888888887765   4899999999885  89999999999999999999999999999999999999999999


Q ss_pred             ccCCCCChH----HHHHHHHHHHHHHHHh
Q psy14234        451 KYNPPDHNV----VTMARQLSAVFEDRFA  475 (779)
Q Consensus       451 ~yN~~~s~v----~~~A~~Lq~~Fe~~~~  475 (779)
                      .||++++.+    +.+|..|++.|...+.
T Consensus        84 ~yN~~~s~~~~~i~~~A~~L~~~~~~~i~  112 (130)
T 3dai_A           84 EYNPDRDPGDRLIRHRACALRDTAYAIIK  112 (130)
T ss_dssp             HHCCSSSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCCChhHHHHHHHHHHHHHHHHHHHH
Confidence            999998866    7888999999988886

>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.87  E-value=2.5e-22  Score=189.58  Aligned_cols=102  Identities=24%  Similarity=0.427  Sum_probs=94.4

Q ss_pred             CCChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhh
Q psy14234        119 GRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNC  198 (779)
Q Consensus       119 ~~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na  198 (779)
                      .....+|+.+|..||+.|+.|+.+|||..|       +||||.+|++||||+||++||+++.|.++.+|..||+|||.||
T Consensus         7 ~~~~~~L~~~~~~il~~l~~~~~~~~F~~P-------~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~~f~~D~~Li~~Na   79 (131)
T 2dkw_A            7 GNTLRELRLFLRDVTKRLATDKRFNIFSKP-------VSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNA   79 (131)
T ss_dssp             THHHHHHHHHHHHHHHHHHHSGGGCTTSSC-------CSSCTTSCSSCCCHHHHHHHHHTTCCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCccchhhcCc-------CccHHhHcCCCcCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Confidence            345678999999999999999999999998       7999999999999999999999999999999999999999999


Q ss_pred             hhhCCCCCH----HHHHHHHHHHHHHHHHh-CCC
Q psy14234        199 YVYNKPGED----VVLMAQNLEQLFLTKIT-GMP  227 (779)
Q Consensus       199 ~~yN~~~s~----i~~~A~~Le~~f~~~~~-~~~  227 (779)
                      ++||+++|+    |+.+|..|++.|...|+ ++.
T Consensus        80 ~~yN~~~s~~~~~i~~~A~~L~~~~~~~l~~~l~  113 (131)
T 2dkw_A           80 LEYNPDKDPGDKIIRHRACTLKDTAHAIIAAELD  113 (131)
T ss_dssp             HHSCCCSSTTHHHHHHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHCCCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999995    67999999999999884 443

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=99.86  E-value=2.3e-22  Score=201.65  Aligned_cols=104  Identities=21%  Similarity=0.262  Sum_probs=96.2

Q ss_pred             CChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcC--CCCCHHHHHHHhhcC---CCCCHHHHHHHHHHH
Q psy14234        120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVIT--QPMDLGTIKKRLENN---YYWSGKEAIQDFTTM  194 (779)
Q Consensus       120 ~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk--~PmDL~tIk~kL~~~---~Y~s~~ef~~D~~lm  194 (779)
                      .++...+..|..||..|+.|+.+|||+.||+      |+||.+|+  +||||+||++||+++   .|.++.+|+.||+||
T Consensus        72 ~m~~~~~~~c~~iL~~l~~~~~s~pF~~pV~------~~Yy~iIk~~~PMDL~tIk~kL~~~~~~~Y~s~~eF~~Dv~Li  145 (189)
T 2ro1_A           72 KLSPANQRKCERVLLALFCHEPCRPLHQLAT------DSTFSLDQPGGTLDLTLIRARLQEKLSPPYSSPQEFAQDVGRM  145 (189)
T ss_dssp             SSCHHHHHHHHHHHHHHHHSTTHHHHHSCSC------CTTCSSSCSSCCCCHHHHHHHHHTSSSSCCSCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhhcccCccchhhcCCCC------hhhhccccCCCcccHHHHHHHHhcCCCcccCCHHHHHHHHHHH
Confidence            4555666789999999999999999999998      57999998  899999999999999   999999999999999


Q ss_pred             hhhhhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCcc
Q psy14234        195 FTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE  230 (779)
Q Consensus       195 f~Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~~e  230 (779)
                      |+||++|| +++.|+.+|..|+++|+++|++++.+.
T Consensus       146 f~N~~~yN-~~s~~~~~a~~L~~~Fe~~~~~~~~~~  180 (189)
T 2ro1_A          146 FKQFNKLT-EDKADVQSIIGLQRFFETRMNEAFGDT  180 (189)
T ss_dssp             HHHHHHHC-CSSCSSHHHHHHHHHHHHHHHHHTTTS
T ss_pred             HHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHhcCcc
Confidence            99999999 589999999999999999999987754

>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.86  E-value=7.4e-22  Score=186.35  Aligned_cols=97  Identities=32%  Similarity=0.467  Sum_probs=89.0

Q ss_pred             cHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh
Q psy14234        370 TPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNC  449 (779)
Q Consensus       370 ~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na  449 (779)
                      +.++...|..||..|+.++   .+|||..|       +||||+||++||||+||++||++|.|.++.+|.+||+|||.||
T Consensus        10 ~~~L~~~~~~il~~l~~~~---~~~~F~~P-------~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~~f~~D~~Li~~Na   79 (131)
T 2dkw_A           10 LRELRLFLRDVTKRLATDK---RFNIFSKP-------VSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNA   79 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHSG---GGCTTSSC-------CSSCTTSCSSCCCHHHHHHHHHTTCCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCc---cchhhcCc-------CccHHhHcCCCcCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Confidence            4567778999999999875   58999998       6999999999999999999999999999999999999999999


Q ss_pred             cccCCCCCh----HHHHHHHHHHHHHHHHhc
Q psy14234        450 YKYNPPDHN----VVTMARQLSAVFEDRFAK  476 (779)
Q Consensus       450 ~~yN~~~s~----v~~~A~~Lq~~Fe~~~~~  476 (779)
                      +.||+++|.    |+.+|..|++.|...++.
T Consensus        80 ~~yN~~~s~~~~~i~~~A~~L~~~~~~~l~~  110 (131)
T 2dkw_A           80 LEYNPDKDPGDKIIRHRACTLKDTAHAIIAA  110 (131)
T ss_dssp             HHSCCCSSTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCCChhHHHHHHHHHHHHHHHHHHHHH
Confidence            999999985    578999999999998853

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=99.85  E-value=9.4e-22  Score=200.33  Aligned_cols=107  Identities=33%  Similarity=0.696  Sum_probs=98.5

Q ss_pred             CCcHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhc---CCCCCHHHHHHHHHH
Q psy14234        368 SKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRN---RTYKTAKEFADDVRL  444 (779)
Q Consensus       368 ~~~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~---~~Y~s~~eF~~Dv~L  444 (779)
                      +-.+.+++.|..||..|+.++   .+|+|+.||+.   ++|+||+||++||||+||++||++   |.|.++.+|.+||+|
T Consensus        77 ~ls~~~~~~c~~il~~l~~~~---~s~~F~~Pv~~---~~pdY~~iIk~PmdL~tI~~kl~~~~~~~Y~s~~~f~~Dv~l  150 (207)
T 3u5n_A           77 GLSPVDQRKCERLLLYLYCHE---LSIEFQEPVPA---SIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRL  150 (207)
T ss_dssp             SSCHHHHHHHHHHHHHHHTST---TCGGGSSCCCT---TSTTHHHHCSSCCCHHHHHHHHSTTSTTCCSSHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHhcc---chhhhhccCCh---hhccHhHHhCCccCHHHHHHHHhcccCCCcCCHHHHHHHHHH
Confidence            345678999999999999875   58999999986   489999999999999999999997   799999999999999


Q ss_pred             hhhhhcccCC-----------------CCChHHHHHHHHHHHHHHHHhcCCCc
Q psy14234        445 IFSNCYKYNP-----------------PDHNVVTMARQLSAVFEDRFAKMPDE  480 (779)
Q Consensus       445 mf~Na~~yN~-----------------~~s~v~~~A~~Lq~~Fe~~~~~i~~~  480 (779)
                      ||.||++||+                 +++.|+.+|..|+.+|+.+|.++..+
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                 99999999999999999999987543

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=99.85  E-value=1.1e-21  Score=199.86  Aligned_cols=109  Identities=28%  Similarity=0.473  Sum_probs=102.1

Q ss_pred             CCChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhc---CCCCCHHHHHHHHHHHh
Q psy14234        119 GRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLEN---NYYWSGKEAIQDFTTMF  195 (779)
Q Consensus       119 ~~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~---~~Y~s~~ef~~D~~lmf  195 (779)
                      ..++...+..|..||..|++|+.+++|+.||+.   ++||||.+|++||||+||++||++   +.|.++.+|+.||+|||
T Consensus        76 ~~ls~~~~~~c~~il~~l~~~~~s~~F~~Pv~~---~~pdY~~iIk~PmdL~tI~~kl~~~~~~~Y~s~~~f~~Dv~li~  152 (207)
T 3u5n_A           76 QGLSPVDQRKCERLLLYLYCHELSIEFQEPVPA---SIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIF  152 (207)
T ss_dssp             CSSCHHHHHHHHHHHHHHHTSTTCGGGSSCCCT---TSTTHHHHCSSCCCHHHHHHHHSTTSTTCCSSHHHHHHHHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHHhccchhhhhccCCh---hhccHhHHhCCccCHHHHHHHHhcccCCCcCCHHHHHHHHHHHH
Confidence            346678888999999999999999999999985   699999999999999999999997   79999999999999999


Q ss_pred             hhhhhhCC-----------------CCCHHHHHHHHHHHHHHHHHhCCCCcc
Q psy14234        196 TNCYVYNK-----------------PGEDVVLMAQNLEQLFLTKITGMPSEE  230 (779)
Q Consensus       196 ~Na~~yN~-----------------~~s~i~~~A~~Le~~f~~~~~~~~~~e  230 (779)
                      .||++||+                 +++.|+.+|..|+.+|..+|.++.++.
T Consensus       153 ~Na~~yN~~~s~v~~~A~~l~~~~~~~s~i~~~a~~L~~~fe~~~~~~~p~~  204 (207)
T 3u5n_A          153 KNCERFNEMMKVVQVYADTQEINLKADSEVAQAGKAVALYFEDKLTEIYSDR  204 (207)
T ss_dssp             HHHHHHHHHHHHHC----------CCCCHHHHHHHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHCCCcchHHHHHHHHHhcccccCHHHHHHHHHHHHHHHHHHHhCCCC
Confidence            99999999                 999999999999999999999987653

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

Probab=99.85  E-value=1.7e-21  Score=205.69  Aligned_cols=106  Identities=28%  Similarity=0.584  Sum_probs=99.4

Q ss_pred             cHHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh
Q psy14234        370 TPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNC  449 (779)
Q Consensus       370 ~~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na  449 (779)
                      ...+...|..||..|+.+.   .+|||..||+...  +||||+||++||||+||++||++|.|.++.+|..||+|||.||
T Consensus        12 ~~~l~~~l~~il~~l~~~~---~~~~F~~pv~~~~--~pdY~~iI~~PmdL~tI~~kl~~~~Y~~~~~f~~D~~li~~Na   86 (265)
T 3uv5_A           12 MVTLSSILESIINDMRDLP---NTYPFHTPVNAKV--VKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNS   86 (265)
T ss_dssp             HHHHHHHHHHHHHHHHTST---TCGGGTSCCCTTT--STTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCC---CchhhhCCCChhh--cCCHHHHhCCCCcHHHHHHHHHcCCCCCHHHHHHHHHHHHhhh
Confidence            3478899999999998875   4899999999886  8999999999999999999999999999999999999999999


Q ss_pred             cccCCCCChHHHHHHHHHHHHHHHHhcCCCc
Q psy14234        450 YKYNPPDHNVVTMARQLSAVFEDRFAKMPDE  480 (779)
Q Consensus       450 ~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~  480 (779)
                      ++||+++|.|+.+|..|+.+|+..|.++.+.
T Consensus        87 ~~yN~~~s~i~~~A~~l~~~~~~~~~~~~~~  117 (265)
T 3uv5_A           87 ATYNGPKHSLTQISQSMLDLCDEKLKEKEDK  117 (265)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHHHHHHTHHH
T ss_pred             hhcCCCCChHHHHHHHHHHHHHHHHHHHhhh
Confidence            9999999999999999999999999987543

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

Probab=99.82  E-value=1.3e-20  Score=201.35  Aligned_cols=103  Identities=31%  Similarity=0.598  Sum_probs=93.3

Q ss_pred             HHHHHHHHHHH-HHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhC
Q psy14234        124 QLQYIVKNVMK-AVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYN  202 (779)
Q Consensus       124 ~l~~~~~~il~-~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN  202 (779)
                      .+..+|..++. .|+.++.+|||..||+..  .+||||.+|++||||+||++||++|.|.++.+|..||+|||.||++||
T Consensus       169 ~~~~~l~~i~~~~l~~~~~s~~F~~pvd~~--~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~~f~~D~~Li~~Na~~yN  246 (292)
T 3aad_A          169 AFSFILDNIVTQKMMAVPDSWPFHHPVNKK--FVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYN  246 (292)
T ss_dssp             HHHHHHHHHHHHTGGGSTTCGGGTSCCCTT--TSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhhcCcchhHHHhccccc--ccccHHHHcCCcCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHC
Confidence            35556666554 478899999999999965  799999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHhCCCC
Q psy14234        203 KPGEDVVLMAQNLEQLFLTKITGMPS  228 (779)
Q Consensus       203 ~~~s~i~~~A~~Le~~f~~~~~~~~~  228 (779)
                      +++|.||.+|..|++.|.+.|.++..
T Consensus       247 ~~~s~i~~~A~~L~~~~~~~~~~~~~  272 (292)
T 3aad_A          247 GPESQYTKTAQEIVNVCYQTLTEYDE  272 (292)
T ss_dssp             CTTSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999987643

>2r0y_A Chromatin structure-remodeling complex protein RSC4; bromodomain, chromatin, remodeler, RSC, acetylation, transcription, chromatin regulator, nucleus, phosphorylation; HET: ALY; 1.75A {Saccharomyces cerevisiae} PDB: 2r0s_A

Probab=99.81  E-value=2.8e-20  Score=200.13  Aligned_cols=87  Identities=30%  Similarity=0.406  Sum_probs=83.6

Q ss_pred             cCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCCHHHHHHHHHHH
Q psy14234        138 KHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQ  217 (779)
Q Consensus       138 ~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~s~i~~~A~~Le~  217 (779)
                      .|+.+|||+.||+..  .+||||.||++||||+||++||++|.|.++.+|+.||+|||.||++||+++|.||.+|..|++
T Consensus       177 ~~~~s~~F~~pvd~~--~~PdY~~iIk~PMDL~tI~~kl~~~~Y~s~~ef~~Dv~Lif~N~~~yN~~~s~i~~~A~~L~~  254 (311)
T 2r0y_A          177 KVKLSEPFMELVDKD--ELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTN  254 (311)
T ss_dssp             SSCTTGGGSSCCCTT--TCHHHHHHCSSCCCHHHHHHHHHHTCCCBHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHH
T ss_pred             CCccHHHHhCCCChh--hcccHHHHhCCccCHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            367899999999975  799999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCC
Q psy14234        218 LFLTKITGM  226 (779)
Q Consensus       218 ~f~~~~~~~  226 (779)
                      +|.+.|++.
T Consensus       255 ~f~~~~~~~  263 (311)
T 2r0y_A          255 YFNYLIQKE  263 (311)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHh
Confidence            999999884

>2r10_A Chromatin structure-remodeling complex protein RSC4, linker, histone H3; bromodomain, remodeler, acetylation, transcription; HET: ALY; 2.20A {Saccharomyces cerevisiae} PDB: 2r0v_A*

Probab=99.80  E-value=4.1e-20  Score=202.99  Aligned_cols=86  Identities=29%  Similarity=0.399  Sum_probs=83.1

Q ss_pred             CCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCCHHHHHHHHHHHH
Q psy14234        139 HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQL  218 (779)
Q Consensus       139 ~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~s~i~~~A~~Le~~  218 (779)
                      |..+|||+.||+..  ++||||.||++||||+||++||+++.|.++.+|+.||+|||.||++||+++|.||.+|..|+++
T Consensus       228 ~~~s~~F~~pvd~~--~~PdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~Lif~N~~~yN~~~s~i~~~A~~L~~~  305 (361)
T 2r10_A          228 VKLSEPFMELVDKD--ELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNY  305 (361)
T ss_dssp             SCTTGGGSSCCCTT--TCTHHHHHCSSCCCHHHHHHHHHHTCCCBHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHH
T ss_pred             CcchhcccCCCChh--hcccHHHHhcCcccHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Confidence            67899999999975  7999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhCC
Q psy14234        219 FLTKITGM  226 (779)
Q Consensus       219 f~~~~~~~  226 (779)
                      |...|.+.
T Consensus       306 f~~~~~~~  313 (361)
T 2r10_A          306 FNYLIQKE  313 (361)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHh
Confidence            99999874

>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=99.73  E-value=6e-18  Score=160.40  Aligned_cols=103  Identities=18%  Similarity=0.268  Sum_probs=93.4

Q ss_pred             hHHHHHHHHHHHHHHHcCCC------CCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHh
Q psy14234        122 TNQLQYIVKNVMKAVWKHPH------AWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMF  195 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~~~------s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf  195 (779)
                      ...++.++..|++.|+.+..      +.+|...++..    |+||.  ++||+|.+|++||+.|.|+++++|..||.+||
T Consensus         5 ~~~lq~~l~~l~~~v~~~~De~GR~lsd~F~~LPsk~----pdYY~--k~Pi~l~~Ikkri~~~~Y~sld~f~~D~~lmf   78 (147)
T 3iu6_A            5 TLLIQELIHNLFVSVMSHQDDEGRCYSDSLAEIPAVD----PNFPN--KPPLTFDIIRKNVENNRYRRLDLFQEHMFEVL   78 (147)
T ss_dssp             CCHHHHHHHHHHHHHHTCBCTTSCBGGGGGTTCCSSC----TTSTT--SCCCCHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhcCCCCCcchHHHhHCCCCC----ccccC--CCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence            34688899999999998754      78899988743    89998  99999999999999999999999999999999


Q ss_pred             hhhhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCcc
Q psy14234        196 TNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE  230 (779)
Q Consensus       196 ~Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~~~~e  230 (779)
                      .||++||.+||.||.+|..|+++|.+.+.++....
T Consensus        79 ~NAr~yN~e~S~IyeDAv~Lq~~f~~~r~eL~~~g  113 (147)
T 3iu6_A           79 ERARRMNRTDSEIYEDAVELQQFFIKIRDELCKNG  113 (147)
T ss_dssp             HHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHhhCC
Confidence            99999999999999999999999999999876543

>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=99.71  E-value=1.7e-17  Score=157.27  Aligned_cols=104  Identities=14%  Similarity=0.284  Sum_probs=93.7

Q ss_pred             HHHHHHHHHHHHHHhccC---CCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhh
Q psy14234        372 LWYKYCSEIIAELFHKKH---QNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSN  448 (779)
Q Consensus       372 ~~~k~c~~iL~~l~~~k~---~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~N  448 (779)
                      .....+..|+..++.+++   +.++.+|+..++..    |+||+  ++||+|.+|++||+.|.|+++++|..||.|||.|
T Consensus         7 ~lq~~l~~l~~~v~~~~De~GR~lsd~F~~LPsk~----pdYY~--k~Pi~l~~Ikkri~~~~Y~sld~f~~D~~lmf~N   80 (147)
T 3iu6_A            7 LIQELIHNLFVSVMSHQDDEGRCYSDSLAEIPAVD----PNFPN--KPPLTFDIIRKNVENNRYRRLDLFQEHMFEVLER   80 (147)
T ss_dssp             HHHHHHHHHHHHHHTCBCTTSCBGGGGGTTCCSSC----TTSTT--SCCCCHHHHHHHHHTTCCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhcCCCCCcchHHHhHCCCCC----ccccC--CCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence            456677888888888764   56889999987765    68998  9999999999999999999999999999999999


Q ss_pred             hcccCCCCChHHHHHHHHHHHHHHHHhcCCCch
Q psy14234        449 CYKYNPPDHNVVTMARQLSAVFEDRFAKMPDES  481 (779)
Q Consensus       449 a~~yN~~~s~v~~~A~~Lq~~Fe~~~~~i~~~~  481 (779)
                      |++||.+||.||.+|..||.+|...+.++....
T Consensus        81 Ar~yN~e~S~IyeDAv~Lq~~f~~~r~eL~~~g  113 (147)
T 3iu6_A           81 ARRMNRTDSEIYEDAVELQQFFIKIRDELCKNG  113 (147)
T ss_dssp             HHHHSCTTSHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHhCCCCCHHHHHHHHHHHHHHHHHHHHhhCC
Confidence            999999999999999999999999999987654

>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=99.45  E-value=5.8e-14  Score=139.15  Aligned_cols=97  Identities=16%  Similarity=0.238  Sum_probs=87.0

Q ss_pred             hHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        122 TNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      ...|+..|..||..|..|+.++||+.           |  .++.||||.+|++||+.|.|.++.+|+.||.+||.||..|
T Consensus        73 ~~el~~~l~~vl~~L~~~~~s~~~~~-----------y--~~k~PmDL~~i~kKl~~~~Y~s~~eF~~Dv~lIf~n~~~~  139 (183)
T 3lqh_A           73 EKELQISLKQVLTALLNSRTTSHLLR-----------Y--RQQQPLDLEGVKRKMDQGNYTSVLEFSDDIVKIIQAAINS  139 (183)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHT-----------C--CC--CCSHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhccccHhhhh-----------h--hhcCCccHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhc
Confidence            45678888999999999999999865           2  2599999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHhCCCCccc
Q psy14234        202 NKPGEDVVLMAQNLEQLFLTKITGMPSEEV  231 (779)
Q Consensus       202 N~~~s~i~~~A~~Le~~f~~~~~~~~~~e~  231 (779)
                      |++++.+..++..|+.+|.+.|+++.+...
T Consensus       140 ~~~~~e~~~ag~~l~~~f~~~l~~vfpwf~  169 (183)
T 3lqh_A          140 DGGQPEIKKANSMVKSFFIRQMERVFPWFS  169 (183)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHHHHHCTTSC
T ss_pred             cCCChhhhhhhhHHHHHHHHHHHHHCCCCC
Confidence            999999999999999999999999877654

>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=99.40  E-value=2.5e-13  Score=134.55  Aligned_cols=94  Identities=15%  Similarity=0.245  Sum_probs=80.6

Q ss_pred             HHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhccc
Q psy14234        373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY  452 (779)
Q Consensus       373 ~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~y  452 (779)
                      +...+..||..|..++   .+|||+..           .  ++.||||.+|++||+.|.|.++.+|..||+|||.||.+|
T Consensus        76 l~~~l~~vl~~L~~~~---~s~~~~~y-----------~--~k~PmDL~~i~kKl~~~~Y~s~~eF~~Dv~lIf~n~~~~  139 (183)
T 3lqh_A           76 LQISLKQVLTALLNSR---TTSHLLRY-----------R--QQQPLDLEGVKRKMDQGNYTSVLEFSDDIVKIIQAAINS  139 (183)
T ss_dssp             HHHHHHHHHHHHHTCH---HHHHHHTC-----------C--C--CCSHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcc---ccHhhhhh-----------h--hcCCccHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhc
Confidence            3455678888888775   48998763           2  499999999999999999999999999999999999999


Q ss_pred             CCCCChHHHHHHHHHHHHHHHHhcCCCchh
Q psy14234        453 NPPDHNVVTMARQLSAVFEDRFAKMPDESN  482 (779)
Q Consensus       453 N~~~s~v~~~A~~Lq~~Fe~~~~~i~~~~~  482 (779)
                      |.+++++..++..|+.+|++++.++-....
T Consensus       140 ~~~~~e~~~ag~~l~~~f~~~l~~vfpwf~  169 (183)
T 3lqh_A          140 DGGQPEIKKANSMVKSFFIRQMERVFPWFS  169 (183)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHHHHHCTTSC
T ss_pred             cCCChhhhhhhhHHHHHHHHHHHHHCCCCC
Confidence            999999999999999999999998765543

>2lm0_A AF4/FMR2 family member 1/protein AF-9 chimera; intrinsically disordered, nuclear protein; NMR {Homo sapiens}

Probab=93.82  E-value=0.086  Score=47.71  Aligned_cols=60  Identities=22%  Similarity=0.330  Sum_probs=50.0

Q ss_pred             CHHHHHHHHHHccCCCCc-chHHHHHHHhhcCCCCCCCCCCcEEEeCCCCChHHHHHHHHHHH
Q psy14234        622 SYDEKRQLSLDINKLPGD-KLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVS  683 (779)
Q Consensus       622 t~dEK~qLs~~In~Lpge-kL~~Vv~IIq~~ep~l~~~n~dEIEiD~etL~~~TLreLe~yV~  683 (779)
                      =.+|-+.|...|-.|-.. .|.+||++|.+-.  ..........||+..|+..|+|+|+.|+.
T Consensus        60 y~~~L~~l~~rim~l~d~~~lq~iv~li~~tG--~~~it~~tfDFDLc~LD~~Tv~klq~~l~  120 (125)
T 2lm0_A           60 YLDELVELHRRLMTLRERHILQQIVNLIEETG--HFHITNTTFDFDLCSLDKTTVRKLQSYLE  120 (125)
T ss_dssp             THHHHHHHHHHHHTCCCCSSHHHHHHHHHTSC--CEEECSSCEEECTTTSCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhccccHHHHHHHHHHHHhcC--ceeeecccccceeeccCHHHHHHHHHHHH
Confidence            357889999999999876 5999999998732  22444578999999999999999999975

---

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	779
d1e6ia_	111	a.29.2.1 (A:) GCN5 {Baker's yeast (Saccharomyces c	7e-32
d1e6ia_	111	a.29.2.1 (A:) GCN5 {Baker's yeast (Saccharomyces c	3e-29
d3dwya1	114	a.29.2.1 (A:1084-1197) CREB-binding protein, CBP {	1e-31
d3dwya1	114	a.29.2.1 (A:1084-1197) CREB-binding protein, CBP {	6e-30
d3d7ca1	102	a.29.2.1 (A:731-832) GCN5 {Human (Homo sapiens) [T	1e-30
d3d7ca1	102	a.29.2.1 (A:731-832) GCN5 {Human (Homo sapiens) [T	1e-27
d1eqfa1	139	a.29.2.1 (A:1359-1497) TAFII250 double bromodomain	4e-30
d1eqfa1	139	a.29.2.1 (A:1359-1497) TAFII250 double bromodomain	4e-28
d1eqfa2	128	a.29.2.1 (A:1498-1625) TAFII250 double bromodomain	1e-29
d1eqfa2	128	a.29.2.1 (A:1498-1625) TAFII250 double bromodomain	2e-29
d1wuma1	118	a.29.2.1 (A:715-832) P300/CAF histone acetyltransf	5e-29
d1wuma1	118	a.29.2.1 (A:715-832) P300/CAF histone acetyltransf	1e-24

>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 =  117 bits (295), Expect = 7e-32
 Identities = 37/111 (33%), Positives = 61/111 (54%), Gaps = 5/111 (4%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
                  I+ EL +      AWPF  PV+ E++   DY+D IK+PMDL T+  K+ +  Y
Sbjct: 4   HDAAIQNILTELQNHAA---AWPFLQPVNKEEV--PDYYDFIKEPMDLSTMEIKLESNKY 58

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNL 483
           +  ++F  D RL+F+NC  YN  + +    A +L   F ++  ++P+ S+L
Sbjct: 59  QKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEIPEYSHL 109

>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 =  110 bits (275), Expect = 3e-29
 Identities = 35/107 (32%), Positives = 58/107 (54%), Gaps = 2/107 (1%)

Query: 128 IVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEA 187
            ++N++  +  H  AWPF +PV+     +PDY+  I +PMDL T++ +LE+N Y   ++ 
Sbjct: 7   AIQNILTELQNHAAAWPFLQPVNK--EEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDF 64

Query: 188 IQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLD 234
           I D   +F NC +YN         A  LE+ F  K+  +P    ++D
Sbjct: 65  IYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEIPEYSHLID 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 =  117 bits (294), Expect = 1e-31
 Identities = 34/108 (31%), Positives = 55/108 (50%), Gaps = 2/108 (1%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
             +     +  L+  +    + PF  PVD + LG+ DYFDI+K PMDL T+++K+    Y
Sbjct: 7   LRQALMPTLEALY--RQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQY 64

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           +   ++ DDV L+F+N + YN     V     +L+ VFE     +   
Sbjct: 65  QEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQS 112

>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 =  112 bits (281), Expect = 6e-30
 Identities = 31/110 (28%), Positives = 56/110 (50%), Gaps = 1/110 (0%)

Query: 121 NTNQLQYIVKNVMKAVWKH-PHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENN 179
              +L+  +   ++A+++  P + PF +PVD   L +PDY  ++  PMDL TIK++L+  
Sbjct: 3   KPEELRQALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTG 62

Query: 180 YYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSE 229
            Y    + + D   MF N ++YN+    V      L ++F  +I  +   
Sbjct: 63  QYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQS 112

>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 =  113 bits (285), Expect = 1e-30
 Identities = 38/101 (37%), Positives = 55/101 (54%), Gaps = 2/101 (1%)

Query: 123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYW 182
           +QL   +KN++  +  HP AWPF EPV       PDY++VI  P+DL T+ +RL + YY 
Sbjct: 1   DQLYTTLKNLLAQIKSHPSAWPFMEPVKK--SEAPDYYEVIRFPIDLKTMTERLRSRYYV 58

Query: 183 SGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI 223
           + K  + D   +  NC  YN P  +    A  LE+ F  K+
Sbjct: 59  TRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFKL 99

>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 =  105 bits (263), Expect = 1e-27
 Identities = 33/104 (31%), Positives = 54/104 (51%), Gaps = 5/104 (4%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
            Y     ++A++        AWPF  PV   K    DY+++I+ P+DL T+ +++R+R Y
Sbjct: 3   LYTTLKNLLAQIKSHPS---AWPFMEPVK--KSEAPDYYEVIRFPIDLKTMTERLRSRYY 57

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAK 476
            T K F  D++ + +NC +YNPPD      A  L   F  +  +
Sbjct: 58  VTRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFKLKE 101

>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 =  113 bits (284), Expect = 4e-30
 Identities = 33/120 (27%), Positives = 61/120 (50%), Gaps = 5/120 (4%)

Query: 113 PPKHRPGRNTN---QLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDL 169
           P K    R T+    L  I+++++  +   P+ +PFH PV+A  +   DY+K+IT+PMDL
Sbjct: 12  PHKSIHRRRTDPMVTLSSILESIINDMRDLPNTYPFHTPVNAKVV--KDYYKIITRPMDL 69

Query: 170 GTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSE 229
            T+++ +    Y S +E  +    +  N   YN P   +  ++Q++  L   K+     +
Sbjct: 70  QTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDK 129

>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 =  108 bits (270), Expect = 4e-28
 Identities = 30/104 (28%), Positives = 59/104 (56%), Gaps = 5/104 (4%)

Query: 377 CSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAK 436
              II ++    +    +PF+TPV+ + +   DY+ II +PMDL T+R+ +R R Y + +
Sbjct: 31  LESIINDMRDLPN---TYPFHTPVNAKVVK--DYYKIITRPMDLQTLRENVRKRLYPSRE 85

Query: 437 EFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           EF + + LI  N   YN P H++  +++ +  + +++  +  D+
Sbjct: 86  EFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDK 129

>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 =  111 bits (280), Expect = 1e-29
 Identities = 33/109 (30%), Positives = 54/109 (49%), Gaps = 4/109 (3%)

Query: 374 YKYCSEIIAELFHKKHQNY--AWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRT 431
               S I+  +  +K      +WPF+ PV+  K  + DY+ +I  PMDL T+RK +    
Sbjct: 7   QVAFSFILDNIVTQKMMAVPDSWPFHHPVN--KKFVPDYYKVIVNPMDLETIRKNISKHK 64

Query: 432 YKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
           Y++ + F DDV LI +N  KYN P+      A+++  V      +  + 
Sbjct: 65  YQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEH 113

>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 =  111 bits (279), Expect = 2e-29
 Identities = 32/106 (30%), Positives = 51/106 (48%), Gaps = 3/106 (2%)

Query: 125 LQYIVKNVM-KAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWS 183
             +I+ N++ + +   P +WPFH PV+     +PDY+KVI  PMDL TI+K +  + Y S
Sbjct: 10  FSFILDNIVTQKMMAVPDSWPFHHPVNK--KFVPDYYKVIVNPMDLETIRKNISKHKYQS 67

Query: 184 GKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSE 229
            +  + D   +  N   YN P       AQ +  +    +T     
Sbjct: 68  RESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEH 113

>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 =  109 bits (274), Expect = 5e-29
 Identities = 43/107 (40%), Positives = 61/107 (57%), Gaps = 2/107 (1%)

Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRL 176
           +  R+ +QL   +K++++ V  H  AWPF EPV       P Y++VI  PMDL T+ +RL
Sbjct: 6   KEPRDPDQLYSTLKSILQQVKSHQSAWPFMEPVKR--TEAPGYYEVIRFPMDLKTMSERL 63

Query: 177 ENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI 223
           +N YY S K  + D   +FTNC  YN P  +    A  LE+ F +KI
Sbjct: 64  KNRYYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKI 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 = 97.0 bits (241), Expect = 1e-24
 Identities = 31/105 (29%), Positives = 54/105 (51%), Gaps = 5/105 (4%)

Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
            Y     I+ ++   +    AWPF  PV   +     Y+++I+ PMDL T+ ++++NR Y
Sbjct: 14  LYSTLKSILQQVKSHQS---AWPFMEPVK--RTEAPGYYEVIRFPMDLKTMSERLKNRYY 68

Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM 477
            + K F  D++ +F+NC +YNPP+      A  L   F  +  + 
Sbjct: 69  VSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIKEA 113

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	779
d3d7ca1	102	GCN5 {Human (Homo sapiens) [TaxId: 9606]}	99.93
d1e6ia_	111	GCN5 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.92
d1e6ia_	111	GCN5 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.92
d3d7ca1	102	GCN5 {Human (Homo sapiens) [TaxId: 9606]}	99.92
d3dwya1	114	CREB-binding protein, CBP {Human (Homo sapiens) [T	99.92
d3dwya1	114	CREB-binding protein, CBP {Human (Homo sapiens) [T	99.92
d1wuma1	118	P300/CAF histone acetyltransferase bromodomain {Hu	99.92
d1eqfa1	139	TAFII250 double bromodomain module {Human (Homo sa	99.92
d1eqfa2	128	TAFII250 double bromodomain module {Human (Homo sa	99.91
d1eqfa2	128	TAFII250 double bromodomain module {Human (Homo sa	99.9
d1wuma1	118	P300/CAF histone acetyltransferase bromodomain {Hu	99.9
d1eqfa1	139	TAFII250 double bromodomain module {Human (Homo sa	99.9

>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=99.93  E-value=3.9e-26  Score=204.64  Aligned_cols=101  Identities=38%  Similarity=0.686  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhC
Q psy14234        123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYN  202 (779)
Q Consensus       123 ~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN  202 (779)
                      ++|...|..||..|++|+.++||+.||++.  ++||||.+|++||||+||++||++|.|.++.+|+.||+|||.||++||
T Consensus         1 d~L~~~l~~il~~l~~~~~s~~F~~pv~~~--~~pdY~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yN   78 (102)
T d3d7ca1           1 DQLYTTLKNLLAQIKSHPSAWPFMEPVKKS--EAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYN   78 (102)
T ss_dssp             HHHHHHHHHHHHHHHHSGGGGGGSSCCCTT--TSTTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHHHHS
T ss_pred             ChHHHHHHHHHHHHHhCCCCCccCCCCChh--hCcCHHHHcCCccCHHHHHHHhccCccCCHHHHHHHHHHHHHHHHHHC
Confidence            478899999999999999999999999965  799999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHhC
Q psy14234        203 KPGEDVVLMAQNLEQLFLTKITG  225 (779)
Q Consensus       203 ~~~s~i~~~A~~Le~~f~~~~~~  225 (779)
                      +++|.++.+|..|+++|.++|++
T Consensus        79 ~~~s~~~~~A~~l~~~f~~~~ke  101 (102)
T d3d7ca1          79 PPDSEYCRCASALEKFFYFKLKE  101 (102)
T ss_dssp             CTTSHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999874

>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=99.92  E-value=7.4e-26  Score=205.92  Aligned_cols=104  Identities=35%  Similarity=0.687  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhccc
Q psy14234        373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY  452 (779)
Q Consensus       373 ~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~y  452 (779)
                      +.+.|..||.+|++++   .+|||+.|||+..  +|+||++|++||||+||++||.+|.|.++.+|.+||+|||.||+.|
T Consensus         4 ~~~~l~~il~~l~~~~---~a~pF~~pvd~~~--~pdY~~vI~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na~~y   78 (111)
T d1e6ia_           4 HDAAIQNILTELQNHA---AAWPFLQPVNKEE--VPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMY   78 (111)
T ss_dssp             THHHHHHHHHHHHHST---TCGGGSSCCCTTT--STTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCC---CChhhcCCCCchh--CcCHHHHcCCchhHHHHHHHHHccccchHHHHHHHHHHHHHHHHHH
Confidence            4688999999998875   4899999999865  8999999999999999999999999999999999999999999999


Q ss_pred             CCCCChHHHHHHHHHHHHHHHHhcCCCch
Q psy14234        453 NPPDHNVVTMARQLSAVFEDRFAKMPDES  481 (779)
Q Consensus       453 N~~~s~v~~~A~~Lq~~Fe~~~~~i~~~~  481 (779)
                      |+++|.++.+|..|+++|+++|.+++...
T Consensus        79 N~~~s~i~~~A~~l~~~f~~~~~~ipe~~  107 (111)
T d1e6ia_          79 NGENTSYYKYANRLEKFFNNKVKEIPEYS  107 (111)
T ss_dssp             SCTTSHHHHHHHHHHHHHHHHHHTSGGGG
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHhhccc
Confidence            99999999999999999999999987543

>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=99.92  E-value=1.7e-25  Score=203.50  Aligned_cols=103  Identities=33%  Similarity=0.626  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhhCCCC
Q psy14234        126 QYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPG  205 (779)
Q Consensus       126 ~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~yN~~~  205 (779)
                      ...|..||+.|++|+.+|||+.||++.  .+|+||.+|++||||+||++||++|.|.++.+|..||+|||.||++||+++
T Consensus         5 ~~~l~~il~~l~~~~~a~pF~~pvd~~--~~pdY~~vI~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yN~~~   82 (111)
T d1e6ia_           5 DAAIQNILTELQNHAAAWPFLQPVNKE--EVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNGEN   82 (111)
T ss_dssp             HHHHHHHHHHHHHSTTCGGGSSCCCTT--TSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHSCTT
T ss_pred             HHHHHHHHHHHHhCCCChhhcCCCCch--hCcCHHHHcCCchhHHHHHHHHHccccchHHHHHHHHHHHHHHHHHHCCCC
Confidence            456788999999999999999999975  799999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHhCCCCcc
Q psy14234        206 EDVVLMAQNLEQLFLTKITGMPSEE  230 (779)
Q Consensus       206 s~i~~~A~~Le~~f~~~~~~~~~~e  230 (779)
                      |.|+.+|..|++.|.++|.+++...
T Consensus        83 s~i~~~A~~l~~~f~~~~~~ipe~~  107 (111)
T d1e6ia_          83 TSYYKYANRLEKFFNNKVKEIPEYS  107 (111)
T ss_dssp             SHHHHHHHHHHHHHHHHHHTSGGGG
T ss_pred             CHHHHHHHHHHHHHHHHHHHhhccc
Confidence            9999999999999999999986543

>d3d7ca1 a.29.2.1 (A:731-832) GCN5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: GCN5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=1.9e-25  Score=200.18  Aligned_cols=100  Identities=32%  Similarity=0.657  Sum_probs=94.2

Q ss_pred             HHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcc
Q psy14234        372 LWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYK  451 (779)
Q Consensus       372 ~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~  451 (779)
                      ++...|..||..|..+.   .+|||+.|||...  +||||++|++||||+||++||++|.|.++.+|.+||+|||.||+.
T Consensus         2 ~L~~~l~~il~~l~~~~---~s~~F~~pv~~~~--~pdY~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~   76 (102)
T d3d7ca1           2 QLYTTLKNLLAQIKSHP---SAWPFMEPVKKSE--APDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCRE   76 (102)
T ss_dssp             HHHHHHHHHHHHHHHSG---GGGGGSSCCCTTT--STTHHHHCSSCCCHHHHHHHHHTTCCCSHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCC---CCCccCCCCChhh--CcCHHHHcCCccCHHHHHHHhccCccCCHHHHHHHHHHHHHHHHH
Confidence            56788999999998875   5899999999765  899999999999999999999999999999999999999999999


Q ss_pred             cCCCCChHHHHHHHHHHHHHHHHhc
Q psy14234        452 YNPPDHNVVTMARQLSAVFEDRFAK  476 (779)
Q Consensus       452 yN~~~s~v~~~A~~Lq~~Fe~~~~~  476 (779)
                      ||+++|.++.+|..|+++|+++|++
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            9999999999999999999998864

>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=99.92  E-value=1.6e-25  Score=204.69  Aligned_cols=105  Identities=32%  Similarity=0.623  Sum_probs=98.3

Q ss_pred             HHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        371 PLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       371 ~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      .++.+.|..+|+.|+.+.  ..+|||..|||+...++||||++|++||||+||++||++|.|.++++|.+||+|||.||+
T Consensus         5 ~el~~~l~~~l~~l~~~~--p~a~pF~~pvd~~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~   82 (114)
T d3dwya1           5 EELRQALMPTLEALYRQD--PESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAW   82 (114)
T ss_dssp             HHHHHHHHHHHHHHHTCT--TTTGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcC--cCCCccCCCCChhhccCCCHHHHcCCCCCHHHHHHHHHcCccccHHHHHHHHHHHHHHHH
Confidence            467788999999998653  469999999999988899999999999999999999999999999999999999999999


Q ss_pred             ccCCCCChHHHHHHHHHHHHHHHHhcC
Q psy14234        451 KYNPPDHNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       451 ~yN~~~s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      .||+++|.++.+|..|+++|++.+.++
T Consensus        83 ~yN~~~s~~~~~A~~L~~~f~~~~~~i  109 (114)
T d3dwya1          83 LYNRKTSRVYKFCSKLAEVFEQEIDPV  109 (114)
T ss_dssp             HHSCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999875

>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=99.92  E-value=1.7e-25  Score=204.46  Aligned_cols=105  Identities=30%  Similarity=0.613  Sum_probs=100.0

Q ss_pred             hHHHHHHHHHHHHHHHcC-CCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhh
Q psy14234        122 TNQLQYIVKNVMKAVWKH-PHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYV  200 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~-~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~  200 (779)
                      ..+|+..|..+|+.|+++ +.++||..||++...++||||.+|++||||.||++||++|.|.++.+|..||+|||+||+.
T Consensus         4 p~el~~~l~~~l~~l~~~~p~a~pF~~pvd~~~~~~pdY~~iI~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~   83 (114)
T d3dwya1           4 PEELRQALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWL   83 (114)
T ss_dssp             HHHHHHHHHHHHHHHHTCTTTTGGGSSCCCHHHHTCTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCcCCCccCCCCChhhccCCCHHHHcCCCCCHHHHHHHHHcCccccHHHHHHHHHHHHHHHHH
Confidence            567999999999999987 5899999999988778999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHhCC
Q psy14234        201 YNKPGEDVVLMAQNLEQLFLTKITGM  226 (779)
Q Consensus       201 yN~~~s~i~~~A~~Le~~f~~~~~~~  226 (779)
                      ||+++|.++.+|..|++.|.+.|..+
T Consensus        84 yN~~~s~~~~~A~~L~~~f~~~~~~i  109 (114)
T d3dwya1          84 YNRKTSRVYKFCSKLAEVFEQEIDPV  109 (114)
T ss_dssp             HSCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999998764

>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=99.92  E-value=1.4e-25  Score=206.12  Aligned_cols=108  Identities=40%  Similarity=0.679  Sum_probs=102.4

Q ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhh
Q psy14234        117 RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFT  196 (779)
Q Consensus       117 ~~~~~~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~  196 (779)
                      +..+...+|...|..||+.|++|+.++||+.||+..  .+||||.+|++||||+||++||++|.|.++.+|+.||+|||.
T Consensus         6 ~~~~~~~~l~~~l~~il~~l~~~~~a~~F~~pv~~~--~~pdY~~iI~~PmdL~~I~~kl~~~~Y~s~~ef~~Dv~li~~   83 (118)
T d1wuma1           6 KEPRDPDQLYSTLKSILQQVKSHQSAWPFMEPVKRT--EAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFT   83 (118)
T ss_dssp             SCCCSHHHHHHHHHHHHHHHHHSSSCHHHHSCCCSS--SSSSCTTTCSSCCCHHHHHHHHTTTCCCSSHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCcCcccCCCChh--hCcCHHHHcCChhhHHHHHHHhcccccCchHHHHHHHHHHHH
Confidence            344567889999999999999999999999999965  799999999999999999999999999999999999999999


Q ss_pred             hhhhhCCCCCHHHHHHHHHHHHHHHHHhCC
Q psy14234        197 NCYVYNKPGEDVVLMAQNLEQLFLTKITGM  226 (779)
Q Consensus       197 Na~~yN~~~s~i~~~A~~Le~~f~~~~~~~  226 (779)
                      ||++||+++|.|+.+|..|+++|.++|+++
T Consensus        84 Na~~yn~~~s~~~~~A~~l~~~f~~~~~e~  113 (118)
T d1wuma1          84 NCKEYNPPESEYYKCANILEKFFFSKIKEA  113 (118)
T ss_dssp             HHHHHSCTTSSHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHc
Confidence            999999999999999999999999999874

>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=99.92  E-value=4e-25  Score=208.85  Aligned_cols=105  Identities=28%  Similarity=0.496  Sum_probs=100.1

Q ss_pred             hHHHHHHHHHHHHHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        122 TNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       122 ~~~l~~~~~~il~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      ...|+.+|..||+.|+.++.+|||..||++.  .+||||.+|++||||.||++||++|.|.++.+|..||+|||.||++|
T Consensus        24 ~~~l~~~l~~il~~l~~~~~s~pF~~Pvd~~--~~pdY~~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~y  101 (139)
T d1eqfa1          24 MVTLSSILESIINDMRDLPNTYPFHTPVNAK--VVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY  101 (139)
T ss_dssp             HHHHHHHHHHHHHHHHTSTTCGGGTSCCCTT--TSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCchhhhCCCChh--hccCHHHHcCChhhHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHH
Confidence            3468899999999999999999999999976  79999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHhCCCC
Q psy14234        202 NKPGEDVVLMAQNLEQLFLTKITGMPS  228 (779)
Q Consensus       202 N~~~s~i~~~A~~Le~~f~~~~~~~~~  228 (779)
                      |+++|.|+.+|..|+.+|.+.|+++..
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            999999999999999999999998754

>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=99.91  E-value=3.3e-24  Score=199.62  Aligned_cols=102  Identities=30%  Similarity=0.576  Sum_probs=91.8

Q ss_pred             HHHHHHHHHHHhc--cCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhccc
Q psy14234        375 KYCSEIIAELFHK--KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKY  452 (779)
Q Consensus       375 k~c~~iL~~l~~~--k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~y  452 (779)
                      ..+..||..|+..  .....+|||+.|||...  +||||++|++||||+||++||.+|.|.++.+|..||+|||.||+.|
T Consensus         8 ~~~~~il~~l~~~~~~~~p~a~pF~~pVd~~~--~PdY~~vIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~y   85 (128)
T d1eqfa2           8 VAFSFILDNIVTQKMMAVPDSWPFHHPVNKKF--VPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKY   85 (128)
T ss_dssp             HHHHHHHHHHHHHTTTTSTTCGGGTSCCCTTT--STTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCCChhcCCCCccc--CcCHHHHcCCcccHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHH
Confidence            3566777776543  33456999999999875  8999999999999999999999999999999999999999999999


Q ss_pred             CCCCChHHHHHHHHHHHHHHHHhcCC
Q psy14234        453 NPPDHNVVTMARQLSAVFEDRFAKMP  478 (779)
Q Consensus       453 N~~~s~v~~~A~~Lq~~Fe~~~~~i~  478 (779)
                      |+++|.++.+|..|+.+|+..+.++.
T Consensus        86 N~~~s~i~~~A~~L~~~~~~~l~~~~  111 (128)
T d1eqfa2          86 NGPESQYTKTAQEIVNVCYQTLTEYD  111 (128)
T ss_dssp             HCTTCHHHHHHHHHHHHHHHHHHHTH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHhH
Confidence            99999999999999999999998763

>d1eqfa2 a.29.2.1 (A:1498-1625) TAFII250 double bromodomain module {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: TAFII250 double bromodomain module
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.90  E-value=1e-24  Score=203.12  Aligned_cols=104  Identities=31%  Similarity=0.589  Sum_probs=95.7

Q ss_pred             HHHHHHHHHHH-HHHHcCCCCCCCCCCCCccccCCCCchhhcCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHhhhhhhh
Q psy14234        123 NQLQYIVKNVM-KAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVY  201 (779)
Q Consensus       123 ~~l~~~~~~il-~~L~~~~~s~pF~~PVd~~~~~~PdYy~iIk~PmDL~tIk~kL~~~~Y~s~~ef~~D~~lmf~Na~~y  201 (779)
                      ..|.+++..|+ ..|++++.+|||+.||+..  .+||||.+|++||||+||++||.+|.|.++.+|+.||+|||+||+.|
T Consensus         8 ~~~~~il~~l~~~~~~~~p~a~pF~~pVd~~--~~PdY~~vIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~y   85 (128)
T d1eqfa2           8 VAFSFILDNIVTQKMMAVPDSWPFHHPVNKK--FVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKY   85 (128)
T ss_dssp             HHHHHHHHHHHHHTTTTSTTCGGGTSCCCTT--TSTTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCCChhcCCCCcc--cCcCHHHHcCCcccHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHH
Confidence            35677777765 5678889999999999975  79999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHhCCCC
Q psy14234        202 NKPGEDVVLMAQNLEQLFLTKITGMPS  228 (779)
Q Consensus       202 N~~~s~i~~~A~~Le~~f~~~~~~~~~  228 (779)
                      |+++|.++.+|..|++.|.+.|.+++.
T Consensus        86 N~~~s~i~~~A~~L~~~~~~~l~~~~~  112 (128)
T d1eqfa2          86 NGPESQYTKTAQEIVNVCYQTLTEYDE  112 (128)
T ss_dssp             HCTTCHHHHHHHHHHHHHHHHHHHTHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHhHH
Confidence            999999999999999999999988754

>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=99.90  E-value=1.9e-24  Score=198.57  Aligned_cols=102  Identities=30%  Similarity=0.639  Sum_probs=95.7

Q ss_pred             HHHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhc
Q psy14234        371 PLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCY  450 (779)
Q Consensus       371 ~~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~  450 (779)
                      ..+...|..||..|+.++   .+|||+.||+...  +|+||+||++||||+||++||++|.|.++.+|.+||+|||.||+
T Consensus        12 ~~l~~~l~~il~~l~~~~---~a~~F~~pv~~~~--~pdY~~iI~~PmdL~~I~~kl~~~~Y~s~~ef~~Dv~li~~Na~   86 (118)
T d1wuma1          12 DQLYSTLKSILQQVKSHQ---SAWPFMEPVKRTE--APGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCK   86 (118)
T ss_dssp             HHHHHHHHHHHHHHHHSS---SCHHHHSCCCSSS--SSSCTTTCSSCCCHHHHHHHHTTTCCCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCC---CcCcccCCCChhh--CcCHHHHcCChhhHHHHHHHhcccccCchHHHHHHHHHHHHHHH
Confidence            456788999999998875   4899999999865  89999999999999999999999999999999999999999999


Q ss_pred             ccCCCCChHHHHHHHHHHHHHHHHhcC
Q psy14234        451 KYNPPDHNVVTMARQLSAVFEDRFAKM  477 (779)
Q Consensus       451 ~yN~~~s~v~~~A~~Lq~~Fe~~~~~i  477 (779)
                      +||+++|.++.+|..|+.+|++.|.+.
T Consensus        87 ~yn~~~s~~~~~A~~l~~~f~~~~~e~  113 (118)
T d1wuma1          87 EYNPPESEYYKCANILEKFFFSKIKEA  113 (118)
T ss_dssp             HHSCTTSSHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHc
Confidence            999999999999999999999999874

>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=99.90  E-value=3.3e-24  Score=202.51  Aligned_cols=102  Identities=28%  Similarity=0.596  Sum_probs=94.9

Q ss_pred             HHHHHHHHHHHHHHhccCCCCccCccccCCccccCCCchhhhhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhcc
Q psy14234        372 LWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYK  451 (779)
Q Consensus       372 ~~~k~c~~iL~~l~~~k~~~~a~pF~~PVd~~~~~~pdY~~iIk~PMDL~tIk~KL~~~~Y~s~~eF~~Dv~Lmf~Na~~  451 (779)
                      .+...|..||..|..+.   .+|||..|||+..  +||||++|++||||+||++||++|.|.++++|.+||+|||.||+.
T Consensus        26 ~l~~~l~~il~~l~~~~---~s~pF~~Pvd~~~--~pdY~~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~  100 (139)
T d1eqfa1          26 TLSSILESIINDMRDLP---NTYPFHTPVNAKV--VKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSAT  100 (139)
T ss_dssp             HHHHHHHHHHHHHHTST---TCGGGTSCCCTTT--STTHHHHCSSCCCHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCC---CchhhhCCCChhh--ccCHHHHcCChhhHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHH
Confidence            35677888999987665   4899999999876  899999999999999999999999999999999999999999999


Q ss_pred             cCCCCChHHHHHHHHHHHHHHHHhcCC
Q psy14234        452 YNPPDHNVVTMARQLSAVFEDRFAKMP  478 (779)
Q Consensus       452 yN~~~s~v~~~A~~Lq~~Fe~~~~~i~  478 (779)
                      ||+++|.|+.+|..|+.+|+.+|+++.
T Consensus       101 yN~~~s~i~~~A~~L~~~~~~~~~~~~  127 (139)
T d1eqfa1         101 YNGPKHSLTQISQSMLDLCDEKLKEKE  127 (139)
T ss_dssp             HTCTTSHHHHHHHHHHHHHHHHHHHTH
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999874