Citrus Sinensis ID: 017098

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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-------
Protein Sequence
MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYTEQSSGSAVYQKFQRSKKMPDGCRENIMICFSKSYDIKHSRCCSLQSGETQGKGGQPKQKSGKRHGRRHKHDCLCAICVLKRRKREREENARIAQGQTDVVETQEPNQEESSLGESARGDDSSSDMGESQNLDADAEVEGKREEVKGESAKQEYSHMEVKHEEEQEEEEDDEEDEEEEDEEGGDEENEIDMQKKGEGEGLAQSKIGERLGEESMRQSEPGKPENSGGIQTHSDEHDEEAVAVQKQAHKNSQEWAEKAKLYSSFNSENPMLLRLCGTLFPNDHTSVWSGPHSLVQRPVSAHTNSFHAAIESFMQ
Secondary Structure (PSIPRED)
ccHHHHHHHHHcccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHccccccccccccccHHHccccccccccccccHHcccccccHHHcccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccHHHHccHHHHcccccccccHHHHcccccccHHHHHHHHccccccHHHHcHHHccccccccccccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHcccccccHHHHHHHHHccccccccccccccccccccccccccHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHcccccccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccHHHccccHHHHHccccccccccccccccccccccccccccHHcccHEcccccccHccccccccccccccccccccccccccccccccHcHHcHccccccccccccHHcccccccccccccccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHcHHHHHHHHHHccccccccccccccEEEccccccccHHHHHHHHHHc
Coil and Loop (DISEMBL)
MDFGTIcsnlenggkymnsedvYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLyteqssgsavyqkfqrskkmpdgcrenimicfsksydikhsrccslqsgetqgkggqpkqksgkrhgrrhkhdCLCAICVLKRRKREREENariaqgqtdvvetqepnqeesslgesargddsssdmgesqnldadaevegkreevkgesakqEYSHMevkheeeqeeeeddeedeeeedeeggdeeneIDMQkkgegeglaqSKIGERlgeesmrqsepgkpensggiqthsdehDEEAVAVQKQAHKNSQEWAEKAKLYssfnsenpmLLRLCgtlfpndhtsvwsgphslvqrpvsahtNSFHAAIESFMQ
Flexible Loop (DISEMBL)
MDFGTIcsnlenggkymnseDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLyteqssgsaVYQKFQrskkmpdgcrENIMICFSKSYDIKHSRCCSLqsgetqgkggqpkqksgkrhgrrhkhdclCAICvlkrrkrereenariaqgqtdvvetqepnqeesslgesargddsssdmgesqnldadaevegkreevkgesakqeyshmevkheeeqeeeeddeedeeeedeeggdeeneidmqkkgegeglaqSKIGERLGEESMRQSEPGKPENSGGIQTHSDEHDEEAVAVQKQAHKNSQEWAEKAKLYSSFNSENPMLLRLCGTLFPNDHTSVWSGPHSLVQRPVSAHTNSFHAAIESFMQ
Low Complexity Region (SEG)
MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYTEQSSGSAVYQKFQRSKKMPDGCRENIMICFSKSYDIKHSRCCSLQSGETqgkggqpkqksgkRHGRRHKHDCLCAICVLkrrkrereeNARIAQGQTDVVETQEPNQEESSLGESARGDDSSSDMGESQNLDADAevegkreevkgeSAKQEYSHMEVKHeeeqeeeeddeedeeeedeeggdeeneIDMQKKGEGEGLAQSKIGERLGEESMRQSEPGKPENSGGIQTHSDEHDEEAVAVQKQAHKNSQEWAEKAKLYSSFNSENPMLLRLCGTLFPNDHTSVWSGPHSLVQRPVSAHTNSFHAAIESFMQ
Disordered region (IsUnstruct)
*****ICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYTEQ****AVYQK********DGCRENIMICFSKSYDIKHSRCCS**************************HDCLCAICVLK****************************************************************************************************************************************************************************************ENPMLLRLCGTLFPNDHTSVWSGPHSL*********************
Disordered Region (DISOPRED)
MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA**********************************************************************************************************************************************************************************************************************************************************************************RLCGTLFPNDHTSVWSG*****************AAIESFMQ
Disordered Region (DISEMBL)
MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYTE******************DGCRENIMICFSKSYDIKHSRCCSLQ***********************KHDCLCAICVLKRRKREREENARIAQGQTDV****************************************************************************************IDMQKKGEGEGLAQSKIGERL*********************************************EKAKLYSSFNSENPMLLRLCGTLFPNDHTSVWSGPHSLVQRPVSAHTNSFHAAIESFMQ
Disordered Region (DISPRO)
*DFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLY*********************************************************************KHDCLCAICVLKRRKREREENAR**Q*************************************************************************************************************************************************************WAEKAKLYSSFNSENPMLLRLCGTLFPNDHTSVWS**************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYTEQSSGSAVYQKFQRSKKMPDGCRENIMICFSKSYDIKHSRCCSLQSGETQGKGGQPKQKSGKRHGRRHKHDCLCAICVLKRRKREREENARIAQGQTDVVETQEPNQEESSLGESARGDDSSSDMGESQNLDADAEVEGKREEVKxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxGGDEENEIDMQKKGEGEGLAQSKIGERLGEESMRQSEPGKPENSGGIQTHSDEHDEEAVAVQKQAHKNSQEWAEKAKLYSSFNSENPMLLRLCGTLFPNDHTSVWSGPHSLVQRPVSAHTNSFHAAIESFMQ
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

No hits with e-value below 0.001 by BLAST

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	377
255571006	569	bromodomain-containing protein, putative	0.843	0.558	0.497	3e-79
356543397	531	PREDICTED: uncharacterized protein LOC10	0.867	0.615	0.458	6e-70
356560331	508	PREDICTED: uncharacterized protein LOC10	0.803	0.596	0.462	7e-70
297739526	637	unnamed protein product [Vitis vinifera]	0.933	0.552	0.413	2e-66
357445295	679	Bromodomain-containing protein [Medicago	0.912	0.506	0.443	6e-62
359486253	636	PREDICTED: uncharacterized protein LOC10	0.899	0.533	0.385	3e-60
297837677	585	hypothetical protein ARALYDRAFT_475449 [	0.843	0.543	0.408	4e-53
297840767	582	hypothetical protein ARALYDRAFT_475462 [	0.830	0.537	0.412	9e-52
334183399	573	DNA-binding bromodomain-containing prote	0.830	0.546	0.401	2e-51
186491671	572	DNA-binding bromodomain-containing prote	0.827	0.545	0.401	3e-51

>gi|255571006|ref|XP_002526454.1| bromodomain-containing protein, putative [Ricinus communis] gi|223534234|gb|EEF35949.1| bromodomain-containing protein, putative [Ricinus communis]

 Score =  301 bits (771), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 191/384 (49%), Positives = 242/384 (63%), Gaps = 66/384 (17%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA 60
           MDFGTICSNLE G KYMNSE VYKDV+YIW+NC KYN+KGDYILDLM+RVKKNFMK W A
Sbjct: 245 MDFGTICSNLETGDKYMNSEAVYKDVQYIWDNCYKYNNKGDYILDLMRRVKKNFMKYWTA 304

Query: 61  AGLYTEQSSGSAVYQKFQRSKKMPDGCRENIMICFSKSYDIKHSRCCSLQSGETQGKGGQ 120
           AGL+TEQS GS+                                      S +  GK GQ
Sbjct: 305 AGLFTEQSRGSSA-------------------------------------SSQGHGKSGQ 327

Query: 121 PKQKSGKRHGRRHKHDCLCAICVLKRRKREREENARIAQGQTDVVETQEPNQEESSLGES 180
           PKQK+ KRHGRRHK DCLCAICVLKRR+REREEN RIA            NQ+   L   
Sbjct: 328 PKQKAKKRHGRRHKSDCLCAICVLKRRRREREENERIA------------NQK---LPHD 372

Query: 181 ARGDDSSSDMGESQNLDADAEVEGKREEVKGESAKQEYSHMEVKHEEEQEEEEDDEEDEE 240
             G+DSSS+M ES + DADA+VEGKR E K E  +Q+YS        E+E+ E+ +ED +
Sbjct: 373 PAGEDSSSNMDESLDPDADADVEGKRLEAKMEDTEQQYS-------AEKEKHEEVQEDGD 425

Query: 241 EEDEEGGDEENEIDMQKKGEGEGLAQSKIGERLGEESMRQSEPGKPENSGGIQTHS---- 296
           EE+E+  +E+NEI++QK+ + E   QS+  +R G+E  +Q +PG  EN+G     +    
Sbjct: 426 EEEEDDEEEDNEIEIQKRAKVETSEQSEFADRSGDEPNQQPQPGLAENAGAAAQINFEKG 485

Query: 297 ---DEHDEEAVAVQKQAHKNSQEWAEKAKLYSSFNSENPMLLRLCGTLFPNDHTSVWSGP 353
              ++H++E  A  +  +K+SQE  +KA+++  F   NPMLL LC TLFP++  SVWSGP
Sbjct: 486 HLMEQHEDETAAFHRNKNKDSQERQQKAEMFEKFCPHNPMLLSLCQTLFPDNRRSVWSGP 545

Query: 354 HSLVQRPVSAHTNSFHAAIESFMQ 377
           HSLV R  SAH NS  AAIE+ M+
Sbjct: 546 HSLVPRQGSAHGNSIGAAIETLMK 569

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356543397|ref|XP_003540147.1| PREDICTED: uncharacterized protein LOC100802058 [Glycine max]

 Score =  270 bits (691), Expect = 6e-70,   Method: Compositional matrix adjust.
 Identities = 179/390 (45%), Positives = 223/390 (57%), Gaps = 63/390 (16%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA 60
           MDFGTIC+NLE   KYMNSEDV+KDV+Y+W+NC KYN+KGDYILDLM+RVKKNFMK W A
Sbjct: 190 MDFGTICNNLEKNEKYMNSEDVFKDVQYVWDNCYKYNNKGDYILDLMRRVKKNFMKYWTA 249

Query: 61  AGLYTEQSSGSAVYQKFQRSKKMPDGCRENIMICFSKSYDIKHSRCCSLQSGET--QGKG 118
           AGLY+EQS G+                                        GET   GKG
Sbjct: 250 AGLYSEQSKGT---------------------------------------KGETSMSGKG 270

Query: 119 GQPKQKSGKRHGRRHKHDCLCAICVLKRRKREREENARIAQ---GQTDVVETQEPNQEES 175
           GQ KQK+ KRHGR HKHDCLCAICVLKRR++EREENARIA+   G        E   EES
Sbjct: 271 GQLKQKTKKRHGRHHKHDCLCAICVLKRRRKEREENARIARSNFGSGGDKHANEFKHEES 330

Query: 176 SLGESARGDDSSSDMGESQNLDADAEVEGKREEVKGESAKQEYSHMEVKHEEEQEEEEDD 235
              ES  G+DSSS++ ES   D D       +E KGE AK E S  +    E +    D 
Sbjct: 331 IQVESPGGEDSSSNIDESMGTDGDV------DEDKGEVAKMEISEKQCSPSERKHVSIDV 384

Query: 236 EEDEEEEDEEGGDEENEIDMQKKGEGEGLAQSKIGERLGEESMRQSEPGKPENSGGIQTH 295
           + D++ +D    + E E + +++ E E    S+ GE    E+++    G  E    +   
Sbjct: 385 DNDDDNDDHGLEEGEEEENGEEEDEEEIEMNSQKGEM--NETLKHG--GTLEEKSNVGDA 440

Query: 296 SDEHDE--------EAVAVQKQ-AHKNSQEWAEKAKLYSSFNSENPMLLRLCGTLFPNDH 346
           +  HDE        ++ AVQ+Q  HK SQ+  +KAKL  S  SEN  L  LCG LFP + 
Sbjct: 441 TALHDEYRTKQQEGQSAAVQQQKKHKGSQDKQQKAKLLESLYSENHKLSSLCGILFPQNS 500

Query: 347 TSVWSGPHSLVQRPVSAHTNSFHAAIESFM 376
            SVWSGPHSL+Q+  SA T+S HAAI +FM
Sbjct: 501 QSVWSGPHSLIQKRNSARTSSIHAAIRTFM 530

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356560331|ref|XP_003548446.1| PREDICTED: uncharacterized protein LOC100813884 [Glycine max]

 Score =  270 bits (691), Expect = 7e-70,   Method: Compositional matrix adjust.
 Identities = 180/389 (46%), Positives = 220/389 (56%), Gaps = 86/389 (22%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA 60
           MDFGTIC+NLE   KYMNSEDV+KDV+YIW+NC KYN+KGDYILDLM+RVKKNFMK W A
Sbjct: 194 MDFGTICNNLEKNEKYMNSEDVFKDVQYIWDNCYKYNNKGDYILDLMRRVKKNFMKYWAA 253

Query: 61  AGLYTEQSSGSAVYQKFQRSKKMPDGCRENIMICFSKSYDIKHSRCCSLQSGETQGKGGQ 120
           AGLY+EQS G+                                            GKGGQ
Sbjct: 254 AGLYSEQSKGTKA------------------------------------------GKGGQ 271

Query: 121 PKQKSGKRHGRRHKHDCLCAICVLKRRKREREENARIAQGQTDVVETQEPNQEESSLGES 180
            KQK+ KRHGR HKHDCLCAICVLKRR++EREENARIA+G                  ES
Sbjct: 272 LKQKTKKRHGRHHKHDCLCAICVLKRRRKEREENARIARGNF-------------GSSES 318

Query: 181 ARGDDSSSDMGESQNLDADAEVEGKREEVKGESAKQEYSHMEVKHEEEQEEEED------ 234
             G+DSSS++ ES   D D       +E KGE AK E S  +    E +    D      
Sbjct: 319 PGGEDSSSNIDESIGTDGDV------DEEKGEVAKMEISEKQCSPSERKHPSIDEEGEEE 372

Query: 235 DEEDEEEEDEEGGDEENEIDMQKKGEGEGLAQSKIGERLGEESMRQSEPGKPENSGGIQT 294
           +EE+EEE +EE  +EE E++ QK+   E L   K G  L E+S          N G    
Sbjct: 373 EEEEEEENEEEEDEEEIEMNSQKREMNETL---KHGGTLAEKS----------NVGDATA 419

Query: 295 HSDEH-----DEEAVAV-QKQAHKNSQEWAEKAKLYSSFNSENPMLLRLCGTLFPNDHTS 348
             DE+     + +AVAV Q++  K SQ+  +K KL  S  SENP L  LCG LFP +  S
Sbjct: 420 LHDEYRTKQQEGQAVAVPQQKKPKGSQDKQQKGKLLESLYSENPKLSSLCGILFPQNSQS 479

Query: 349 VWSGPHSLVQRPVSAHTNSFHAAIESFMQ 377
           VWSGPHSL+++  SA T+S HAAI +FM+
Sbjct: 480 VWSGPHSLIRKTNSARTSSIHAAIRTFME 508

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297739526|emb|CBI29708.3| unnamed protein product [Vitis vinifera]

 Score =  259 bits (662), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 174/421 (41%), Positives = 235/421 (55%), Gaps = 69/421 (16%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA 60
           MDFGTI  NLE G KYMNSEDV+KDV+YIWENC+KYN+KGDYIL+LMKRVKKNF K W +
Sbjct: 239 MDFGTIYDNLEKGVKYMNSEDVFKDVQYIWENCHKYNNKGDYILELMKRVKKNFTKYWTS 298

Query: 61  AGLYTEQS---SGSAVYQKFQRSKKMPDG--CRENIMICFSKSYDIKHSR---------- 105
           AGL++EQ    + +A  Q        P+G   R+  ++   +  D+  S+          
Sbjct: 299 AGLHSEQPRRMNDAAPEQDSVLEGLPPEGPSVRDKAIVATGRKTDMLASKEEIVETSSIN 358

Query: 106 -CCSLQS--------GETQGKGGQPKQKSGKRHG-RRHKHDCLCAICVLKRRKREREENA 155
              S+Q+        G+   K  Q K K  KR G +RHK+DCLCAIC++KRRKRER + A
Sbjct: 359 GFGSIQAEDFVPSSQGKIHIKSSQLKNKKQKRQGVKRHKNDCLCAICIMKRRKRERLKMA 418

Query: 156 RIAQGQTDVVETQEPNQEESSLGESARGDDSSSDMGESQNLDADAEVEGKREEVKGESAK 215
           ++ +  +D  ++Q+  QE + L ES   DD+SS+M  S + +ADA++  K EEVK E+A+
Sbjct: 419 QVIR-TSDGNQSQDFKQEGTFLIESPGDDDTSSNMDNSLDPEADADLIEKGEEVKSEAAE 477

Query: 216 QEYSHMEVKHEEEQEEEEDDEEDEEEEDEEGGDEENEIDMQKKGEGEGLAQSKIGERLGE 275
           Q+YS      E E E E                      ++K GEGE   QS++G+R GE
Sbjct: 478 QQYSSQLENQENESENE----------------------IRKNGEGETSEQSQLGDRTGE 515

Query: 276 ESMRQSEPGKPENSGGIQTHSDE-----------------HDEEAVAVQKQAHKNSQEWA 318
           +   Q+ P +   SG I    +E                  D  + AV     KN ++  
Sbjct: 516 DPNSQT-PTQIAESGAIPKKKEEKSVQNEEEAAAAEQHKRKDLASGAVIYHEKKNYKDLL 574

Query: 319 --EKAKLYSSF-NSENPMLLRLCGTLFPNDHTSVWSGPHSLVQRPVSAHTNSFHAAIESF 375
             EK K+Y  F  +ENPMLL LCGTLFPN+ +S WS PHSLVQ P S   +S H+AI + 
Sbjct: 575 MDEKTKMYKEFLQAENPMLLELCGTLFPNNRSSAWSRPHSLVQHPGSERGSSVHSAIATL 634

Query: 376 M 376
           M
Sbjct: 635 M 635

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357445295|ref|XP_003592925.1| Bromodomain-containing protein [Medicago truncatula] gi|140053518|gb|ABE79573.2| Bromodomain [Medicago truncatula] gi|355481973|gb|AES63176.1| Bromodomain-containing protein [Medicago truncatula]

 Score =  244 bits (622), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 171/386 (44%), Positives = 222/386 (57%), Gaps = 42/386 (10%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA 60
           MDFGTICSNLE   KYMNSEDVY DV YIWENC KYN+KGDYI+DLMKRVKKNFMK W A
Sbjct: 237 MDFGTICSNLEKNDKYMNSEDVYNDVRYIWENCYKYNNKGDYIVDLMKRVKKNFMKYWAA 296

Query: 61  AGLYTEQSSGSAVYQKFQRSKKMPDGCRENIMICFSKSYDIKHSRCCSLQSGETQGKGGQ 120
           AGLY+EQ  GS   ++            E+I +                 SG+ +   G 
Sbjct: 297 AGLYSEQPKGSTGTER----------TTEDIAL-----------------SGDGKAGKGG 329

Query: 121 PKQKSGKRHGRRHKHDCLCAICVLKRRKREREENARIAQGQTDVVET---QEPNQEESSL 177
             +   K+HGR HKHDCLCAICVLKRR++EREEN RIA+G          ++  QEES L
Sbjct: 330 QLKHKKKKHGRHHKHDCLCAICVLKRRRKEREENDRIAKGNFGSGSDNHGRDFKQEESML 389

Query: 178 GESARGDDSSSDMGESQNLDADAEVEGKREEVKGESAKQEYSHMEVKHEEEQEEEEDDEE 237
            ES  G+DS S+  E    D D + + K E  K E++++  S  + +HE     E DD+ 
Sbjct: 390 VESPGGEDSLSNTDELLGTDGDVD-DDKGEVTKMETSEKNCSPSDGRHE---VNEVDDDG 445

Query: 238 DEEEEDEEGGDEENEIDMQKKGEGEGLAQSKIGERLGEESMR-------QSEPGKPENSG 290
            EEE       EE+E +  +    E +  +++  R+ +E++R       +SE G      
Sbjct: 446 MEEENHGPEDVEEDEEEDGEGENEEEIEMNRVKRRM-DETLRHGGTLAEESEVGDTAALH 504

Query: 291 GIQTHSDEHDEEAVAVQKQAHKNSQEWAEKAKLYSSFNSENPMLLRLCGTLFPNDHTSVW 350
               ++ +  + AV  Q++ HK  Q+  +KAKL  S  SENPML  LCGTLFP +  SVW
Sbjct: 505 DEYKNTQQEGQAAVVQQQKKHKEPQDKHQKAKLLESLCSENPMLSSLCGTLFPKNSQSVW 564

Query: 351 SGPHSLVQRPVSAHTNSFHAAIESFM 376
           SGPHSL+ +  SA T+S HAAI S M
Sbjct: 565 SGPHSLIHQRKSARTSSIHAAIGSLM 590

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486253|ref|XP_002263445.2| PREDICTED: uncharacterized protein LOC100254331 [Vitis vinifera]

 Score =  238 bits (608), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 167/433 (38%), Positives = 224/433 (51%), Gaps = 94/433 (21%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA 60
           MDFGTI  NLE G KYMNSEDV+KDV+YIWENC+KYN+KGDYIL+LMKRVKKNF K W +
Sbjct: 239 MDFGTIYDNLEKGVKYMNSEDVFKDVQYIWENCHKYNNKGDYILELMKRVKKNFTKYWTS 298

Query: 61  AGLYTEQS---SGSAVYQKFQRSKKMPDG--CRENIMICFSKSYDIKHSR---------- 105
           AGL++EQ    + +A  Q        P+G   R+  ++   +  D+  S+          
Sbjct: 299 AGLHSEQPRRMNDAAPEQDSVLEGLPPEGPSVRDKAIVATGRKTDMLASKEEIVETSSIN 358

Query: 106 -----------------CCSLQSGETQGKG----GQPK-----------QKSGKRH---- 129
                            C S + G   G      G P             +S K H    
Sbjct: 359 AQQDWKNHRYTIPLSKNCVSCKLGHEPGSPVPEQGVPACCAVLGLEVALSRSQKFHESKI 418

Query: 130 -----GRRHKHDCLCAICVLKRRKREREENARIAQGQTDVVETQEPNQEESSLGESARGD 184
                 +RHK+DCLCAIC++KRRKRER    ++AQ    V+ T+       SL      D
Sbjct: 419 MDSITVKRHKNDCLCAICIMKRRKRER---LKMAQ----VIRTK-------SLHHDPGDD 464

Query: 185 DSSSDMGESQNLDADAEVEGKREEVKGESAKQEYSHMEVKHEEEQEEEEDDEEDEEEEDE 244
           D+SS+M  S + +ADA++  K EEVK E+A+Q+YS      E E E E            
Sbjct: 465 DTSSNMDNSLDPEADADLIEKGEEVKSEAAEQQYSSQLENQENESENE------------ 512

Query: 245 EGGDEENEIDMQKKGEGEGLAQSKIGERLGEESMRQSEPGKPENSGGIQTHSDEHDEEAV 304
                     ++K GEGE   QS++G+R GE+   Q+ P +   SG I    +E   +  
Sbjct: 513 ----------IRKNGEGETSEQSQLGDRTGEDPNSQT-PTQIAESGAIPKKKEEKSVQNE 561

Query: 305 AVQKQAHKNSQEWAEKAKLYSSF-NSENPMLLRLCGTLFPNDHTSVWSGPHSLVQRPVSA 363
                A ++ ++  EK K+Y  F  +ENPMLL LCGTLFPN+ +S WS PHSLVQ P S 
Sbjct: 562 EEAAAAEQHKRKMDEKTKMYKEFLQAENPMLLELCGTLFPNNRSSAWSRPHSLVQHPGSE 621

Query: 364 HTNSFHAAIESFM 376
             +S H+AI + M
Sbjct: 622 RGSSVHSAIATLM 634

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297837677|ref|XP_002886720.1| hypothetical protein ARALYDRAFT_475449 [Arabidopsis lyrata subsp. lyrata] gi|297332561|gb|EFH62979.1| hypothetical protein ARALYDRAFT_475449 [Arabidopsis lyrata subsp. lyrata]

 Score =  214 bits (546), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 157/384 (40%), Positives = 206/384 (53%), Gaps = 66/384 (17%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA 60
           MDFGTIC+N E G KYMNSEDVYKDV YIW NC+KYN KGDYI+DLMKRVKKNFMK W A
Sbjct: 261 MDFGTICNNFEKGNKYMNSEDVYKDVNYIWNNCSKYNKKGDYIVDLMKRVKKNFMKYWTA 320

Query: 61  AGLYTEQSSGSAVYQKFQRSKKMPDGCRENIMICFSKSYDIKHSRCCSLQSGETQGKGGQ 120
           AGLYTEQS+          ++   DG                         G+   KG Q
Sbjct: 321 AGLYTEQSA----------AENTEDG-------------------------GKASTKGSQ 345

Query: 121 PKQKSGKRHGRRHKHDCLCAICVLKRRKREREENARIAQGQTDVVETQEPNQEESSLGES 180
            KQKS KRHGR HK DC+CA+CVLKRRKRERE ++                QEESS   S
Sbjct: 346 SKQKSHKRHGRHHKSDCMCAVCVLKRRKRERERDSGA--------------QEESSPTGS 391

Query: 181 ARGDDSSSDMGESQNLDA---DAEVEGKREEVKGESAKQEYSHMEVKHEEEQEEEEDDEE 237
              D+SS +MGE Q++D    D   + K E V+ +S       +   ++E  EEE  + E
Sbjct: 392 PSVDNSSINMGEEQDMDIGVDDKTEQEKTEIVELDSPVSRTQRVPENNQEVVEEENVEVE 451

Query: 238 DEEEEDEEGGDEENEIDMQKKGEGEGLAQSKIGERLGEESMRQSEPGKPENSGGIQTHSD 297
            E + +    D+   ID+  +  G+    S       E+S+  +    P+++   +   +
Sbjct: 452 SENKTEANVEDKTQSIDISMEETGDEPVTS-----AAEKSVVLASLEGPKSTQNEEEEKE 506

Query: 298 EHDEEAVAVQKQAHKNSQEWAEKAKLYSSFNSENPMLLRLCGTLFP--NDHTSVWSGPHS 355
           +  +E    Q+   K   EW  + K+   F   NP LL LC TLFP  N+H SVW+GPHS
Sbjct: 507 KQLQEQKKRQELERK---EW--RIKMQEKFQVRNPQLLSLCETLFPNENNHNSVWNGPHS 561

Query: 356 LVQRP--VSAHTNSFHAAIESFMQ 377
           L +R    S H+++ H A+ES M+
Sbjct: 562 LFKRRGGSSNHSSALHKAVESLMK 585

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297840767|ref|XP_002888265.1| hypothetical protein ARALYDRAFT_475462 [Arabidopsis lyrata subsp. lyrata] gi|297334106|gb|EFH64524.1| hypothetical protein ARALYDRAFT_475462 [Arabidopsis lyrata subsp. lyrata]

 Score =  210 bits (534), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 157/381 (41%), Positives = 204/381 (53%), Gaps = 68/381 (17%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA 60
           MDFGTIC+N E   KYMNSEDVYKDV+YIW NC+KYN KGDYI+DLMKRVKKNFMK W A
Sbjct: 266 MDFGTICNNFEKSNKYMNSEDVYKDVQYIWNNCSKYNKKGDYIVDLMKRVKKNFMKYWTA 325

Query: 61  AGLYTEQSSGSAVYQKFQRSKKMPDGCRENIMICFSKSYDIKHSRCCSLQSGETQGKGGQ 120
           AGLYTE ++           +   DG                         G++  KG Q
Sbjct: 326 AGLYTESAA-----------ENTEDG-------------------------GKSSTKGSQ 349

Query: 121 PKQKSGKRHGRRHKHDCLCAICVLKRRKREREENARIAQGQTDVVETQEPNQEESSLGES 180
            KQKS KRHGR HK DC+CAICVLKRRKRERE ++   QG +         QEESS   S
Sbjct: 350 SKQKSHKRHGRHHKSDCMCAICVLKRRKRERERDS---QGHSGA-------QEESSPAGS 399

Query: 181 ARGDDSSSDMGESQNLDADAEVEGKREEVKGESAKQEYSHMEVKHEEEQEEEEDDEEDEE 240
              D+SS +MGE Q++D D  V+ K E V+ +S   +   +    +E +EEE  + E E 
Sbjct: 400 PSVDNSSINMGEEQDMDID--VDNKTEIVELDSPVSKRQRVNEDKQEVEEEENVEVESEN 457

Query: 241 EEDEEGGDEENEIDMQKKGEGEGLAQSKIGERLGEESMRQSEPGKPENSGGIQTHSDEHD 300
           +      D+ + ID   +  G+    S   + +   S+           G   TH DE +
Sbjct: 458 KTKANVEDKTHSIDRVTEETGDERVTSAAEKLVVLASIE----------GPKSTHKDEEE 507

Query: 301 EEAVAVQKQAHKN--SQEWAEKAKLYSSFNSENPMLLRLCGTLFPND--HTSVWSGPHSL 356
           +E    +++  +    +EW  + K+   F   NP LL LC TLFP D  H SVW+GPHSL
Sbjct: 508 KEKQLQEQKKRQELERKEW--RMKMQEKFEVRNPQLLSLCETLFPKDDNHNSVWNGPHSL 565

Query: 357 VQRPVSAHTNSFHAAIESFMQ 377
            +   SA     H A+E+ M+
Sbjct: 566 FKYRNSA----LHKAVEALMK 582

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334183399|ref|NP_001185258.1| DNA-binding bromodomain-containing protein [Arabidopsis thaliana] gi|332195366|gb|AEE33487.1| DNA-binding bromodomain-containing protein [Arabidopsis thaliana]

 Score =  209 bits (532), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 153/381 (40%), Positives = 197/381 (51%), Gaps = 68/381 (17%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA 60
           MDFGTIC+N E G KYMNSEDVYKDV YIW NC+KYN KGDYI+DLMKRVKKNFMK W +
Sbjct: 257 MDFGTICNNFEKGNKYMNSEDVYKDVNYIWNNCSKYNKKGDYIVDLMKRVKKNFMKYWTS 316

Query: 61  AGLYTEQSSGSAVYQKFQRSKKMPDGCRENIMICFSKSYDIKHSRCCSLQSGETQGKGGQ 120
           AGLYTEQS+                                        ++ E  GK   
Sbjct: 317 AGLYTEQSAA---------------------------------------ENTEDGGKAST 337

Query: 121 PKQKSGKRHGRRHKHDCLCAICVLKRRKREREENARIAQGQTDVVETQEPNQEESSLGES 180
            KQKS KRHGR HK DC+CAICVLKRRKRERE ++                QEESS   S
Sbjct: 338 -KQKSHKRHGRHHKSDCMCAICVLKRRKRERERDSGA--------------QEESSPAGS 382

Query: 181 ARGDDSSSDMGESQNLDADAEVEG-KREEVKGESAKQEYSHMEVKHEEEQEEEEDDEEDE 239
              D+SS +MGE  ++D D + E  K E V+ +S   +   +    +E +EEE  + E E
Sbjct: 383 PSVDNSSVNMGEDMDIDVDKKPEQEKTEIVELDSPVSKTQRVIENKQEVEEEENVEVESE 442

Query: 240 EEEDEEGGDEENEIDMQKKGEGEGLAQSKIGERLGEESMRQSEPGKPENSGGIQTHSDEH 299
            +      D+   ID   +  G+    S   + +   S+        E     Q   +E 
Sbjct: 443 NKTKANVEDKTQSIDRSMEETGDEPVNSAAEKLVVLASL--------EGPKSTQNEEEEK 494

Query: 300 DEEAVAVQKQAHKNSQEWAEKAKLYSSFNSENPMLLRLCGTLFPND--HTSVWSGPHSLV 357
           ++     +K+     +EW  + K+   F   NP LL LC TLFPND  H SVW+GPHSL 
Sbjct: 495 EKRLQEQKKRLELERKEW--RMKMQEKFQVRNPQLLSLCETLFPNDNNHNSVWNGPHSLF 552

Query: 358 QRP-VSAHTNSFHAAIESFMQ 377
           +R   S  +++ H A+ES M+
Sbjct: 553 RRRGGSNRSSALHKAVESLMK 573

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|186491671|ref|NP_176101.3| DNA-binding bromodomain-containing protein [Arabidopsis thaliana] gi|332195364|gb|AEE33485.1| DNA-binding bromodomain-containing protein [Arabidopsis thaliana]

 Score =  208 bits (530), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 153/381 (40%), Positives = 197/381 (51%), Gaps = 69/381 (18%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA 60
           MDFGTIC+N E G KYMNSEDVYKDV YIW NC+KYN KGDYI+DLMKRVKKNFMK W +
Sbjct: 257 MDFGTICNNFEKGNKYMNSEDVYKDVNYIWNNCSKYNKKGDYIVDLMKRVKKNFMKYWTS 316

Query: 61  AGLYTEQSSGSAVYQKFQRSKKMPDGCRENIMICFSKSYDIKHSRCCSLQSGETQGKGGQ 120
           AGLYTEQS+                                        ++ E  GK   
Sbjct: 317 AGLYTEQSA----------------------------------------ENTEDGGKAST 336

Query: 121 PKQKSGKRHGRRHKHDCLCAICVLKRRKREREENARIAQGQTDVVETQEPNQEESSLGES 180
            KQKS KRHGR HK DC+CAICVLKRRKRERE ++                QEESS   S
Sbjct: 337 -KQKSHKRHGRHHKSDCMCAICVLKRRKRERERDSGA--------------QEESSPAGS 381

Query: 181 ARGDDSSSDMGESQNLDADAEVEG-KREEVKGESAKQEYSHMEVKHEEEQEEEEDDEEDE 239
              D+SS +MGE  ++D D + E  K E V+ +S   +   +    +E +EEE  + E E
Sbjct: 382 PSVDNSSVNMGEDMDIDVDKKPEQEKTEIVELDSPVSKTQRVIENKQEVEEEENVEVESE 441

Query: 240 EEEDEEGGDEENEIDMQKKGEGEGLAQSKIGERLGEESMRQSEPGKPENSGGIQTHSDEH 299
            +      D+   ID   +  G+    S   + +   S+        E     Q   +E 
Sbjct: 442 NKTKANVEDKTQSIDRSMEETGDEPVNSAAEKLVVLASL--------EGPKSTQNEEEEK 493

Query: 300 DEEAVAVQKQAHKNSQEWAEKAKLYSSFNSENPMLLRLCGTLFPND--HTSVWSGPHSLV 357
           ++     +K+     +EW  + K+   F   NP LL LC TLFPND  H SVW+GPHSL 
Sbjct: 494 EKRLQEQKKRLELERKEW--RMKMQEKFQVRNPQLLSLCETLFPNDNNHNSVWNGPHSLF 551

Query: 358 QRP-VSAHTNSFHAAIESFMQ 377
           +R   S  +++ H A+ES M+
Sbjct: 552 RRRGGSNRSSALHKAVESLMK 572

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

No hits with e-value below 0.001 by BLAST

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	377
cd04369	99	cd04369, Bromodomain, Bromodomain	3e-08
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	6e-08
cd05499	102	cd05499, Bromo_BDF1_2_II, Bromodomain	8e-08
smart00297	107	smart00297, BROMO, bromo domain	8e-08
pfam00439	84	pfam00439, Bromodomain, Bromodomain	9e-08
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-07
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	9e-07
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	3e-06
cd05506	99	cd05506, Bromo_plant1, Bromodomain, uncharacterize	3e-06
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-05
cd05500	103	cd05500, Bromo_BDF1_2_I, Bromodomain	1e-05
cd05504	115	cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like o	1e-05
cd05498	102	cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_lik	4e-05
cd05503	97	cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BA	4e-05
cd05510	112	cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like s	1e-04
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	2e-04
pfam03344	715	pfam03344, Daxx, Daxx Family	5e-04
pfam04147	809	pfam04147, Nop14, Nop14-like family	8e-04
cd05512	98	cd05512, Bromo_brd1_like, Bromodomain; brd1_like s	0.001
cd05497	107	cd05497, Bromo_Brdt_I_like, Bromodomain, Brdt_like	0.001
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	0.003
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	0.004
COG5177	769	COG5177, COG5177, Uncharacterized conserved protei	0.004
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	0.004
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	0.004
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	0.004

>gnl|CDD|99922 cd04369, Bromodomain, Bromodomain

 Score = 50.8 bits (122), Expect = 3e-08
 Identities = 22/58 (37%), Positives = 30/58 (51%), Gaps = 1/58 (1%)

Query: 1  MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58
          MD  TI   L+NG +Y + E+   DV  I+ N   YN  G  I    K+++K F KL 
Sbjct: 43 MDLSTIKKKLKNG-EYKSLEEFEADVRLIFSNAKTYNGPGSPIYKDAKKLEKLFEKLL 99

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

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 54.2 bits (130), Expect = 6e-08
 Identities = 50/181 (27%), Positives = 76/181 (41%), Gaps = 19/181 (10%)

Query: 147 RKREREENARIAQGQTDVV---ETQEPNQEESSLGESARGDDSSSDMGESQNLDADAEVE 203
           R  E  E    A+G+       E ++  + E+     + G+  +   GE +    + E+E
Sbjct: 644 RTGEEGERPTEAEGENGEESGGEAEQEGETETKGENESEGEIPAERKGEQEG---EGEIE 700

Query: 204 GKREEVKGESAKQEYSH---MEVKHEEEQEEEEDDEEDEEEEDEEGGDEENEIDMQKKGE 260
            K  + KGE+  +E  H    E +  E++ E E  EE EE EDE  G      + + K E
Sbjct: 701 AKEADHKGETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEG------EAEGKHE 754

Query: 261 GEGLAQSKIGERLGEESMRQSEPGKPENSGGIQTHSD-EHDEEAVAVQKQAHKNSQEWAE 319
            E     K  E  GE    ++E  + E+ G IQ   D E   +  A  K  H+   E  E
Sbjct: 755 VETEGDRKETEHEGET---EAEGKEDEDEGEIQAGEDGEMKGDEGAEGKVEHEGETEAGE 811

Query: 320 K 320
           K
Sbjct: 812 K 812

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|99931 cd05499, Bromo_BDF1_2_II, Bromodomain

 Score = 49.6 bits (119), Expect = 8e-08
 Identities = 18/58 (31%), Positives = 35/58 (60%), Gaps = 1/58 (1%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58
           MD GTI   L+NG +Y ++++  +DV  I++NC  +N +G  +  +  ++++ F   W
Sbjct: 46  MDLGTISKKLQNG-QYQSAKEFERDVRLIFKNCYTFNPEGTDVYMMGHQLEEVFNDKW 102

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|197636 smart00297, BROMO, bromo domain

 Score = 49.6 bits (119), Expect = 8e-08
 Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 1/58 (1%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58
           MD  TI   LENG KY + E+   D   ++ N   YN     +    K+++K F K  
Sbjct: 48  MDLKTIKKKLENG-KYSSVEEFVADFNLMFSNARTYNGPDSEVYKDAKKLEKFFEKKL 104

Length = 107

>gnl|CDD|215921 pfam00439, Bromodomain, Bromodomain

 Score = 48.9 bits (117), Expect = 9e-08
 Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 1/41 (2%)

Query: 1  MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGD 41
          MD  TI   L++G KY +  +  KDVE I+ N   YN +  
Sbjct: 37 MDLSTIRQKLKSG-KYKSLAEFLKDVELIFSNAITYNGEDS 76

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|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 53.5 bits (128), Expect = 1e-07
 Identities = 33/101 (32%), Positives = 51/101 (50%), Gaps = 2/101 (1%)

Query: 152 EENARIAQGQTDVVETQEPNQEESSLGESARGDDSSSDMGESQNLDADAEVEGKREEVKG 211
           +E A          E  E ++ E      A   +   + GE Q L+A+ + E K++E KG
Sbjct: 794 DEGAEGKVEHEGETEAGEKDEHEGQSETQADDTEVKDETGE-QELNAENQGEAKQDE-KG 851

Query: 212 ESAKQEYSHMEVKHEEEQEEEEDDEEDEEEEDEEGGDEENE 252
                     + + EEE+EEEE++EE+EEEE+EE  +E  E
Sbjct: 852 VDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENEE 892

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 50.8 bits (121), Expect = 9e-07
 Identities = 34/173 (19%), Positives = 66/173 (38%), Gaps = 8/173 (4%)

Query: 147 RKREREENARIAQGQTDVVETQEPNQEESSLGESARGDDSSSDMGESQNLDADAEVEGKR 206
           RK E+E    I   + D     E  + E      A G +   D GE +        EG+ 
Sbjct: 689 RKGEQEGEGEIEAKEADHKGETEAEEVEHEGETEAEGTE---DEGEIE-----TGEEGEE 740

Query: 207 EEVKGESAKQEYSHMEVKHEEEQEEEEDDEEDEEEEDEEGGDEENEIDMQKKGEGEGLAQ 266
            E +GE   +    +E + + ++ E E + E E +EDE+ G+ +   D + KG+     +
Sbjct: 741 VEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEGEIQAGEDGEMKGDEGAEGK 800

Query: 267 SKIGERLGEESMRQSEPGKPENSGGIQTHSDEHDEEAVAVQKQAHKNSQEWAE 319
            +           + E      +   +   +  ++E  A  +   K  ++  +
Sbjct: 801 VEHEGETEAGEKDEHEGQSETQADDTEVKDETGEQELNAENQGEAKQDEKGVD 853

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 49.2 bits (117), Expect = 3e-06
 Identities = 53/234 (22%), Positives = 88/234 (37%), Gaps = 26/234 (11%)

Query: 110 QSGETQGKGGQPKQKSGKRHGRRHKHDCLCAICVLKRRKREREENARIAQGQTDV----- 164
             GE   +    ++  G+   +   H            K E E      +G+T+      
Sbjct: 681 SEGEIPAERKGEQEGEGEIEAKEADH------------KGETEAEEVEHEGETEAEGTED 728

Query: 165 ---VETQEPNQEESSLGES-ARGDDSSSDMGESQ--NLDADAEVEGKREEVKGESAKQEY 218
              +ET E  +E    GE  A G       G+ +    + + E EGK +E +GE    E 
Sbjct: 729 EGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEGEIQAGED 788

Query: 219 SHMEVKHEEEQEEEEDDEEDEEEEDEEGGDEENEIDMQKKGEGEGLAQSKIGERLGEESM 278
             M+     E + E + E +  E+DE  G  E + D  +  +  G  Q    E  GE   
Sbjct: 789 GEMKGDEGAEGKVEHEGETEAGEKDEHEGQSETQADDTEVKDETG-EQELNAENQGE--A 845

Query: 279 RQSEPGKPENSGGIQTHSDEHDEEAVAVQKQAHKNSQEWAEKAKLYSSFNSENP 332
           +Q E G     G     S+E +EE    +++  +  +E  E+ +     + E P
Sbjct: 846 KQDEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENEEPLSLEWP 899

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

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

 Score = 45.0 bits (107), Expect = 3e-06
 Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 1/58 (1%)

Query: 1  MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58
          MD GT+   LE G  Y + E+   DV   + N  +YN  G+ +  + K + K F   W
Sbjct: 43 MDLGTVKKKLEKGE-YSSPEEFAADVRLTFANAMRYNPPGNDVHTMAKELLKIFETRW 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|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 46.9 bits (111), Expect = 1e-05
 Identities = 36/142 (25%), Positives = 61/142 (42%), Gaps = 5/142 (3%)

Query: 181 ARGDDSSSDMGESQNLDADAEVEGKREEVKGESAKQEYSHMEVKHEEEQEEEEDDEEDEE 240
           A GD S  D+ E+++       EG+R     E    E S  E + E E E + ++E + E
Sbjct: 626 ALGDLSKGDVAEAEHTGERTGEEGERPTE-AEGENGEESGGEAEQEGETETKGENESEGE 684

Query: 241 EEDEEGGDEENEIDMQKKG---EGEGLAQSKIGERLGEESMRQSEPGKPENSGGIQTHSD 297
              E  G++E E +++ K    +GE  A+    E   E    + E G+ E     +   D
Sbjct: 685 IPAERKGEQEGEGEIEAKEADHKGETEAEEVEHEGETEAEGTEDE-GEIETGEEGEEVED 743

Query: 298 EHDEEAVAVQKQAHKNSQEWAE 319
           E + EA    +   +  ++  E
Sbjct: 744 EGEGEAEGKHEVETEGDRKETE 765

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|99932 cd05500, Bromo_BDF1_2_I, Bromodomain

 Score = 43.5 bits (103), Expect = 1e-05
 Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 3/57 (5%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLM-KRVKKNFMK 56
           MD GTI   L     Y + E+   D   + +NC  +N   ++ +  M KR++  F K
Sbjct: 47  MDLGTIERKL-KSNVYTSVEEFTADFNLMVDNCLTFNGP-EHPVSQMGKRLQAAFEK 101

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 = 43.5 bits (103), Expect = 1e-05
 Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 5/61 (8%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKG----DYILDLMKRVKKNFMK 56
           MD GTI   L  G +Y  +E+   D++ ++ NC  YN +          L +   K   K
Sbjct: 53  MDLGTIKEKLNMG-EYKLAEEFLSDIQLVFSNCFLYNPEHTSVYKAGTRLQRFFIKRCRK 111

Query: 57  L 57
           L
Sbjct: 112 L 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|99930 cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_like subfamily, repeat II

 Score = 41.9 bits (99), Expect = 4e-05
 Identities = 16/58 (27%), Positives = 30/58 (51%), Gaps = 1/58 (1%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58
           MD  TI   L+N  +Y ++++   DV  ++ NC KYN     +  + ++++  F   W
Sbjct: 46  MDLSTIKKKLDNR-EYADAQEFAADVRLMFSNCYKYNPPDHPVHAMARKLQDVFEDRW 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|99935 cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BAZ2B_like subfamily

 Score = 42.0 bits (99), Expect = 4e-05
 Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 1/58 (1%)

Query: 1  MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58
          MDF TI   LE+G +Y   E+  +DV  +++NC  +N     +      ++K F K W
Sbjct: 41 MDFSTIREKLESG-QYKTLEEFAEDVRLVFDNCETFNEDDSEVGRAGHNMRKFFEKRW 97

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|99942 cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like subfamily

 Score = 40.9 bits (96), Expect = 1e-04
 Identities = 21/56 (37%), Positives = 29/56 (51%), Gaps = 5/56 (8%)

Query: 1  MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMK 56
          MD GT+   L+N  +Y +  +   D+  IW+NC  YNS   + L    R   NFMK
Sbjct: 49 MDLGTMLKKLKNL-QYKSKAEFVDDLNLIWKNCLLYNSDPSHPL----RRHANFMK 99

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|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 43.1 bits (101), Expect = 2e-04
 Identities = 26/114 (22%), Positives = 55/114 (48%), Gaps = 13/114 (11%)

Query: 149  REREENARIAQGQTDVVETQEPNQEESSLGESARGDDSSSDMGESQNLD--ADAEVEGKR 206
            ++R+E     +   DV    E   +          +++S    E+++LD   D +++ K 
Sbjct: 3948 KDRQEKEDEEEMSDDVGIDDEIQPDI--------QENNSQPPPENEDLDLPEDLKLDEKE 3999

Query: 207  EEVKGESAKQEYSHMEVKHEEEQEEEEDDEEDEEEEDEEGGDEENEIDMQKKGE 260
             +V  +S   +   M+++  +E +EE D E+DE  +DE+  +E N +D   + +
Sbjct: 4000 GDVSKDS---DLEDMDMEAADENKEEADAEKDEPMQDEDPLEENNTLDEDIQQD 4050

Length = 4600

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 41.8 bits (98), Expect = 5e-04
 Identities = 38/130 (29%), Positives = 54/130 (41%), Gaps = 6/130 (4%)

Query: 172 QEESSLGESARGDDSSSDMGESQNLDADAEVEGKREEVKGESAKQEYSHMEVKHEEEQEE 231
           QE    G S+R  D S     S    + A  E + EE   E  ++E    E + E E+EE
Sbjct: 407 QERERQGTSSRSSDPSKASSTSGESPSMASQESEEEESVEEEEEEEEEEEEEEQESEEEE 466

Query: 232 EEDDEEDEEEEDEEGGDEENEIDMQKKGEGEGLAQSKIGERLGEESMRQSEPGKPENSGG 291
            ED+EE+EE E + G +EE    M+   EG+G  +    E   E    +       + G 
Sbjct: 467 GEDEEEEEEVEADNGSEEE----MEGSSEGDGDGEE--PEEDAERRNSEMAGISRMSEGQ 520

Query: 292 IQTHSDEHDE 301
               S    E
Sbjct: 521 QPRGSSVQPE 530

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 41.1 bits (97), Expect = 8e-04
 Identities = 23/109 (21%), Positives = 50/109 (45%)

Query: 178 GESARGDDSSSDMGESQNLDADAEVEGKREEVKGESAKQEYSHMEVKHEEEQEEEEDDEE 237
           GE    ++       + +LD + E +       G+  + E    +   +E++E+++DD E
Sbjct: 284 GEEEDDEEEEDSKESADDLDDEFEPDDDDNFGLGQGEEDEEEEEDGVDDEDEEDDDDDLE 343

Query: 238 DEEEEDEEGGDEENEIDMQKKGEGEGLAQSKIGERLGEESMRQSEPGKP 286
           +EEE+ +   +EE+E D     E +   + +  E+  ++S   +    P
Sbjct: 344 EEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAESTRSELP 392

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

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

 Score = 37.8 bits (88), Expect = 0.001
 Identities = 16/39 (41%), Positives = 19/39 (48%), Gaps = 1/39 (2%)

Query: 1  MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSK 39
          MDF T+   LE+   Y   ED   D   I  NC  YN+K
Sbjct: 42 MDFSTMRKKLESQR-YRTLEDFEADFNLIINNCLAYNAK 79

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

 Score = 37.8 bits (88), Expect = 0.001
 Identities = 18/56 (32%), Positives = 32/56 (57%), Gaps = 1/56 (1%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMK 56
           MD GTI   LEN   Y ++ +  +D   ++ NC  YN  GD ++ + + ++K F++
Sbjct: 48  MDLGTIKKRLENN-YYWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLEKLFLQ 102

Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. Length = 107

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 38.2 bits (89), Expect = 0.003
 Identities = 18/61 (29%), Positives = 33/61 (54%)

Query: 194 QNLDADAEVEGKREEVKGESAKQEYSHMEVKHEEEQEEEEDDEEDEEEEDEEGGDEENEI 253
           + +    E E   +E      K+         +EE E++E++EE+EEEEDE+  D++++ 
Sbjct: 137 RKVGLFTEEEEDIDEKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDD 196

Query: 254 D 254
           D
Sbjct: 197 D 197

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 38.2 bits (89), Expect = 0.004
 Identities = 16/52 (30%), Positives = 31/52 (59%)

Query: 197 DADAEVEGKREEVKGESAKQEYSHMEVKHEEEQEEEEDDEEDEEEEDEEGGD 248
           D D ++    +++K   A+      E   EEE+EEEE+DE+ ++++D++  D
Sbjct: 148 DIDEKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDDDD 199

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|227504 COG5177, COG5177, Uncharacterized conserved protein [Function unknown]

 Score = 38.9 bits (90), Expect = 0.004
 Identities = 33/152 (21%), Positives = 56/152 (36%), Gaps = 21/152 (13%)

Query: 163 DVVETQEPNQEESSLGESA-RGDDSSSDMGESQNLDADAEV--------EGKREEVKGES 213
           D+    E N    +L E A  G+D  SD  E    D    V         G+ +  K  +
Sbjct: 321 DLQTVFESNMNRDTLDEYAPEGEDLRSDYDEDFEYDGLTTVRIDDHGFLPGREQTSKKAA 380

Query: 214 AKQEYSHMEVKHEEEQEEEED------------DEEDEEEEDEEGGDEENEIDMQKKGEG 261
             +  S  + K  E++EEE+             D++D +E D E    + E  +      
Sbjct: 381 VPKGTSFYQAKWAEDEEEEDGQCNDEESTMSAIDDDDPKENDNEEVAGDEESAIDDNEGF 440

Query: 262 EGLAQSKIGERLGEESMRQSEPGKPENSGGIQ 293
           E L+  +   +L E    + E  +  +   +Q
Sbjct: 441 EELSPEEEERQLREFRDMEKEDREFPDEAELQ 472

Length = 769

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 37.3 bits (87), Expect = 0.004
 Identities = 13/35 (37%), Positives = 23/35 (65%)

Query: 216 QEYSHMEVKHEEEQEEEEDDEEDEEEEDEEGGDEE 250
           Q     E    ++ EE+E++E+DEE++DE+  +EE
Sbjct: 104 QHLVASEEDESDDDEEDEEEEDDEEDDDEDESEEE 138

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 38.8 bits (90), Expect = 0.004
 Identities = 26/171 (15%), Positives = 45/171 (26%), Gaps = 12/171 (7%)

Query: 145 KRRKREREENARIAQGQTDVVETQEPNQEESSLGESARGDDSSSDMGESQNLDADAEVEG 204
           ++ + + E       G+ +      P+   S    S     S S    +  L  +     
Sbjct: 67  RQTESDTETAEESRHGEKEERGQGGPSGSGSESVGSPTPSPSGSAEELASGLSPENTSGS 126

Query: 205 KREEVKGESAKQEYSHMEVKHEE----------EQEEEEDDEEDEEEEDE--EGGDEENE 252
             E     S           HE            Q+     +   E+  E  E    E E
Sbjct: 127 SPESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPE 186

Query: 253 IDMQKKGEGEGLAQSKIGERLGEESMRQSEPGKPENSGGIQTHSDEHDEEA 303
            D     + E    S   +   +E      P   +        + EH++E 
Sbjct: 187 PDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSPNTQQAVEHEDEP 237

Length = 413

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 38.8 bits (90), Expect = 0.004
 Identities = 40/169 (23%), Positives = 60/169 (35%), Gaps = 12/169 (7%)

Query: 143 VLKRRKREREENARIAQGQTDVVETQEPNQEESSLGESARGDDSSSDMGESQNLDADAE- 201
           +L  + RE     R ++   D    +EP +  ++   SA         GE    D  AE 
Sbjct: 273 ILAPKGREAPGALRGSEYVVDEALEREPAELAAAAVASAASAVGPVGPGEPNQPDDVAEA 332

Query: 202 ----VEGKREEVKGESAKQEYSHMEVKHEEEQEEEEDDEEDEEEEDEEG-GDEENEIDMQ 256
               V    +EV  ES  Q            +E  E D E E+  D  G     +++D +
Sbjct: 333 VKAEVAEVTDEVAAESVVQVADRDGESTPAVEETSEADIEREQPGDLAGQAPAAHQVDAE 392

Query: 257 KKGEGEGLAQSKIGERLGEESMRQSEPGKPENSGGIQTHSDEHDEEAVA 305
                           L  E+  ++EP  PE +  I     + DE AVA
Sbjct: 393 AASAAPEEP-----AALASEAHDETEPEVPEKAAPI-PDPAKPDELAVA 435

Length = 460

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	377
cd05504	115	Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_li	99.62
cd05497	107	Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily	99.61
cd05501	102	Bromo_SP100C_like Bromodomain, SP100C_like subfami	99.6
KOG1474	640	consensus Transcription initiation factor TFIID, s	99.59
cd05503	97	Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like s	99.59
cd05495	108	Bromo_cbp_like Bromodomain, cbp_like subfamily. Cb	99.58
cd05505	97	Bromo_WSTF_like Bromodomain; Williams syndrome tra	99.57
cd05496	119	Bromo_WDR9_II Bromodomain; WDR9 repeat II_like sub	99.57
cd05506	99	Bromo_plant1 Bromodomain, uncharacterized subfamil	99.56
cd05509	101	Bromo_gcn5_like Bromodomain; Gcn5_like subfamily.	99.56
cd05498	102	Bromo_Brdt_II_like Bromodomain, Brdt_like subfamil	99.55
cd05499	102	Bromo_BDF1_2_II Bromodomain. BDF1/BDF2 like subfam	99.54
cd05516	107	Bromo_SNF2L2 Bromodomain, SNF2L2-like subfamily, s	99.54
cd05508	99	Bromo_RACK7 Bromodomain, RACK7_like subfamily. RAC	99.53
cd05507	104	Bromo_brd8_like Bromodomain, brd8_like subgroup. I	99.52
cd05502	109	Bromo_tif1_like Bromodomain; tif1_like subfamily.	99.52
cd05510	112	Bromo_SPT7_like Bromodomain; SPT7_like subfamily.	99.51
cd05524	113	Bromo_polybromo_I Bromodomain, polybromo repeat I.	99.51
cd05518	103	Bromo_polybromo_IV Bromodomain, polybromo repeat I	99.49
cd05520	103	Bromo_polybromo_III Bromodomain, polybromo repeat	99.49
cd05500	103	Bromo_BDF1_2_I Bromodomain. BDF1/BDF2 like subfami	99.48
smart00297	107	BROMO bromo domain.	99.48
cd05515	105	Bromo_polybromo_V Bromodomain, polybromo repeat V.	99.47
cd05519	103	Bromo_SNF2 Bromodomain, SNF2-like subfamily, speci	99.47
cd05511	112	Bromo_TFIID Bromodomain, TFIID-like subfamily. Hum	99.46
cd05517	103	Bromo_polybromo_II Bromodomain, polybromo repeat I	99.45
cd05528	112	Bromo_AAA Bromodomain; sub-family co-occurring wit	99.45
cd05525	106	Bromo_ASH1 Bromodomain; ASH1_like sub-family. ASH1	99.45
cd05529	128	Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like	99.44
cd05513	98	Bromo_brd7_like Bromodomain, brd7_like subgroup. T	99.44
cd05512	98	Bromo_brd1_like Bromodomain; brd1_like subfamily.	99.43
cd04369	99	Bromodomain Bromodomain. Bromodomains are found in	99.43
cd05522	104	Bromo_Rsc1_2_II Bromodomain, repeat II in Rsc1/2_l	99.42
cd05492	109	Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family	99.4
cd05521	106	Bromo_Rsc1_2_I Bromodomain, repeat I in Rsc1/2_lik	99.36
PF00439	84	Bromodomain: Bromodomain; InterPro: IPR001487 Brom	99.3
cd05526	110	Bromo_polybromo_VI Bromodomain, polybromo repeat V	99.24
COG5076	371	Transcription factor involved in chromatin remodel	99.19
cd05491	119	Bromo_TBP7_like Bromodomain; TBP7_like subfamily,	99.01
KOG1245	1404	consensus Chromatin remodeling complex WSTF-ISWI,	98.52
KOG1472	720	consensus Histone acetyltransferase SAGA/ADA, cata	98.04
KOG1827	629	consensus Chromatin remodeling complex RSC, subuni	97.4
KOG0955	1051	consensus PHD finger protein BR140/LIN-49 [General	97.37
KOG1472	720	consensus Histone acetyltransferase SAGA/ADA, cata	96.57
KOG0386	1157	consensus Chromatin remodeling complex SWI/SNF, co	96.35
KOG0008	1563	consensus Transcription initiation factor TFIID, s	96.07
KOG1474	640	consensus Transcription initiation factor TFIID, s	95.86
KOG1828	418	consensus IRF-2-binding protein CELTIX-1, contains	95.62
cd05493	131	Bromo_ALL-1 Bromodomain, ALL-1 like proteins. ALL-	95.27
KOG1828	418	consensus IRF-2-binding protein CELTIX-1, contains	92.92
cd05494	114	Bromodomain_1 Bromodomain; uncharacterized subfami	92.85
KOG0008	1563	consensus Transcription initiation factor TFIID, s	90.5
PF14372	101	DUF4413: Domain of unknown function (DUF4413)	82.58
COG5076	371	Transcription factor involved in chromatin remodel	80.65

>cd05504 Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_like subfamily

Probab=99.62  E-value=1.1e-15  Score=129.56  Aligned_cols=63  Identities=30%  Similarity=0.532  Sum_probs=61.1

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLY   64 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~   64 (377)
                      |||+||++||..+ .|.|+.+|..||+|||.||++||++++.++.+|..|+++|++.+.++++.
T Consensus        53 mDL~tI~~kL~~~-~Y~s~~~f~~Dv~LI~~Na~~yN~~~s~i~~~A~~l~~~f~~~~~~~~~~  115 (115)
T cd05504          53 MDLGTIKEKLNMG-EYKLAEEFLSDIQLVFSNCFLYNPEHTSVYKAGTRLQRFFIKRCRKLGLP  115 (115)
T ss_pred             ccHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHhCCC
Confidence            8999999999998 99999999999999999999999999999999999999999999998863

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.

>cd05497 Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily, repeat I

Probab=99.61  E-value=1.5e-15  Score=127.22  Aligned_cols=60  Identities=30%  Similarity=0.553  Sum_probs=57.9

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||+.+ .|.++.+|..||+|||.||++||++++.|+.+|..|+++|++.+.++
T Consensus        48 mDL~tI~~kL~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~A~~l~~~f~~~l~~~  107 (107)
T cd05497          48 MDLGTIKKRLENN-YYWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLEKLFLQKLAQM  107 (107)
T ss_pred             ccHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHcC
Confidence            8999999999997 99999999999999999999999999999999999999999988754

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.

>cd05501 Bromo_SP100C_like Bromodomain, SP100C_like subfamily

Probab=99.60  E-value=1.9e-15  Score=127.01  Aligned_cols=59  Identities=17%  Similarity=0.241  Sum_probs=57.1

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||.++ .|.|+.+|..||+|||.||++||+++ .++.+|..|++.|+++|..+
T Consensus        41 MDL~tI~~kL~~~-~Y~s~~ef~~D~~Lif~N~~~yN~~~-~~~~~a~~L~~~Fek~~~~~   99 (102)
T cd05501          41 MWLNKVKERLNER-VYHTVEGFVRDMRLIFHNHKLFYKDD-DFGQVGITLEKKFEKNFKEV   99 (102)
T ss_pred             CCHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHHHHHHHH
Confidence            9999999999998 99999999999999999999999999 99999999999999999864

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.

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

Probab=99.59  E-value=1.4e-15  Score=159.74  Aligned_cols=66  Identities=33%  Similarity=0.661  Sum_probs=63.2

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCCCCC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYTEQ   67 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~~Eq   67 (377)
                      |||+||++||.++ .|.+..+|+.||+|||.||++||++|+.||.||..|+++|+.+|+.+++..+.
T Consensus       265 MDLgTIK~kL~~~-~Y~~~~eF~~DVRL~F~Ncm~YNp~g~dV~~Ma~~L~~~Fe~rw~~~~~~~~~  330 (640)
T KOG1474|consen  265 MDLGTIKKKLEKG-EYKSAEEFAADVRLTFDNCMTYNPEGSDVYAMAKKLQEVFEERWASMPLEIEE  330 (640)
T ss_pred             ccHHHHHhhhccc-ccCCHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhhccccccc
Confidence            9999999999998 99999999999999999999999999999999999999999999998766663

>cd05503 Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like subfamily

Probab=99.59  E-value=2.5e-15  Score=123.05  Aligned_cols=57  Identities=33%  Similarity=0.640  Sum_probs=55.9

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW   58 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~   58 (377)
                      |||+||++||+.+ .|.|+.+|..||+|||.||+.||++++.++.+|..|+++|++.|
T Consensus        41 mdL~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~a~~l~~~f~~~~   97 (97)
T cd05503          41 MDFSTIREKLESG-QYKTLEEFAEDVRLVFDNCETFNEDDSEVGRAGHNMRKFFEKRW   97 (97)
T ss_pred             CCHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence            8999999999998 99999999999999999999999999999999999999999987

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.

>cd05495 Bromo_cbp_like Bromodomain, cbp_like subfamily

Probab=99.58  E-value=4.2e-15  Score=124.59  Aligned_cols=60  Identities=23%  Similarity=0.360  Sum_probs=57.7

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||.+| .|.++.+|..||+|||.||+.||++++.++.+|..|+++|++.+..+
T Consensus        47 mDL~tI~~kL~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~a~~l~~~F~~~~~~~  106 (108)
T cd05495          47 MDLSTIRRKLDTG-QYQDPWQYVDDVWLMFDNAWLYNRKTSRVYKYCTKLAEVFEQEIDPV  106 (108)
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 99999999999999999999999999999999999999999988753

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.

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

Probab=99.57  E-value=3.7e-15  Score=123.07  Aligned_cols=56  Identities=25%  Similarity=0.579  Sum_probs=54.6

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL   57 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~   57 (377)
                      |||+||++||+.+ .|.|+.+|.+||+|||.||++||++++.|+.+|..|+++|..+
T Consensus        41 mDL~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~a~~le~~f~~~   96 (97)
T cd05505          41 MDLQTMQTKCSCG-SYSSVQEFLDDMKLVFSNAEKYYENGSYVLSCMRKTEQCCVNL   96 (97)
T ss_pred             CCHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHh
Confidence            8999999999997 9999999999999999999999999999999999999999875

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.

>cd05496 Bromo_WDR9_II Bromodomain; WDR9 repeat II_like subfamily

Probab=99.57  E-value=5.4e-15  Score=126.64  Aligned_cols=61  Identities=26%  Similarity=0.382  Sum_probs=58.5

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCC-CCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSK-GDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~p-gS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||++ ++.|+.+|..|+++|++.+.++.
T Consensus        46 mDL~tIk~kL~~~-~Y~~~~ef~~D~~lif~Na~~yN~~~~s~i~~~a~~L~~~F~~~~~~l~  107 (119)
T cd05496          46 MDLGTVKETLFGG-NYDDPMEFAKDVRLIFSNSKSYTPNKRSRIYSMTLRLSALFEEHIKKII  107 (119)
T ss_pred             ccHHHHHHHHhCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 9999999999999999999999985 99999999999999999998774

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

>cd05506 Bromo_plant1 Bromodomain, uncharacterized subfamily specific to plants

Probab=99.56  E-value=6.5e-15  Score=119.86  Aligned_cols=57  Identities=33%  Similarity=0.625  Sum_probs=56.0

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW   58 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~   58 (377)
                      |||+||++||+++ .|.++.+|..||+|||.||++||++++.++.+|..|++.|+++|
T Consensus        43 ~dl~tI~~kL~~~-~Y~s~~ef~~D~~li~~Na~~yn~~~s~i~~~a~~l~~~fe~~w   99 (99)
T cd05506          43 MDLGTVKKKLEKG-EYSSPEEFAADVRLTFANAMRYNPPGNDVHTMAKELLKIFETRW   99 (99)
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence            8999999999997 99999999999999999999999999999999999999999987

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.

>cd05509 Bromo_gcn5_like Bromodomain; Gcn5_like subfamily

Probab=99.56  E-value=1e-14  Score=119.35  Aligned_cols=60  Identities=30%  Similarity=0.508  Sum_probs=57.8

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||..+ .|.|+.+|..||+|||.||++||++++.++.+|..|++.|++++.++
T Consensus        42 mdL~tI~~kl~~~-~Y~s~~~f~~Dv~li~~Na~~yN~~~s~~~~~a~~l~~~f~~~~~~~  101 (101)
T cd05509          42 MDLSTMEEKLENG-YYVTLEEFVADLKLIFDNCRLYNGPDTEYYKCANKLEKFFWKKLKEL  101 (101)
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhhC
Confidence            8999999999998 99999999999999999999999999999999999999999988753

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.

>cd05498 Bromo_Brdt_II_like Bromodomain, Brdt_like subfamily, repeat II

Probab=99.55  E-value=8.6e-15  Score=119.92  Aligned_cols=57  Identities=28%  Similarity=0.627  Sum_probs=55.9

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW   58 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~   58 (377)
                      |||+||++||..+ .|.|+.+|..||+|||.||+.||++++.++.+|..|++.|+++|
T Consensus        46 mdl~~I~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yn~~~s~i~~~a~~l~~~fe~~~  102 (102)
T cd05498          46 MDLSTIKKKLDNR-EYADAQEFAADVRLMFSNCYKYNPPDHPVHAMARKLQDVFEDRW  102 (102)
T ss_pred             CcHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence            8999999999997 99999999999999999999999999999999999999999987

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=99.54  E-value=1.1e-14  Score=119.66  Aligned_cols=57  Identities=32%  Similarity=0.714  Sum_probs=55.8

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW   58 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~   58 (377)
                      |||+||++||+.+ .|.++.+|..||+|||.||+.||++++.++.+|..|++.|+++|
T Consensus        46 ~dL~~I~~kl~~~-~Y~s~~ef~~D~~li~~N~~~yn~~~s~~~~~a~~l~~~fe~~~  102 (102)
T cd05499          46 MDLGTISKKLQNG-QYQSAKEFERDVRLIFKNCYTFNPEGTDVYMMGHQLEEVFNDKW  102 (102)
T ss_pred             CCHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence            8999999999998 99999999999999999999999999999999999999999876

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.

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

Probab=99.54  E-value=1.6e-14  Score=120.80  Aligned_cols=60  Identities=27%  Similarity=0.375  Sum_probs=57.8

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||++++.||.+|..|+++|..++.++
T Consensus        48 mdl~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~a~~l~~~f~~~~~~~  107 (107)
T cd05516          48 VDFKKIKERIRNH-KYRSLEDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFKSARQKI  107 (107)
T ss_pred             CCHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcC
Confidence            8999999999998 99999999999999999999999999999999999999999988753

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.

>cd05508 Bromo_RACK7 Bromodomain, RACK7_like subfamily

Probab=99.53  E-value=1.6e-14  Score=119.93  Aligned_cols=56  Identities=21%  Similarity=0.306  Sum_probs=54.0

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL   57 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~   57 (377)
                      |||+||++||.++ .|.++++|..||+|||.||++||+++|.++.+|..|.+.|...
T Consensus        43 mDL~tI~~kl~~~-~Y~s~~ef~~Dv~LI~~Na~~YN~~~s~i~~~A~~l~~~~~~e   98 (99)
T cd05508          43 MDLSTLEKNVRKK-AYGSTDAFLADAKWILHNAIIYNGGDHKLTQAAKAIVKICEQE   98 (99)
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhh
Confidence            8999999999998 9999999999999999999999999999999999999998763

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

>cd05507 Bromo_brd8_like Bromodomain, brd8_like subgroup

Probab=99.52  E-value=2.4e-14  Score=118.97  Aligned_cols=59  Identities=25%  Similarity=0.402  Sum_probs=56.7

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA   60 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kk   60 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||++++.++.+|..|++.|.+.+..
T Consensus        44 mDL~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~v~~~A~~l~~~~~~~~~~  102 (104)
T cd05507          44 MDLSTIKKNIENG-TIRSTAEFQRDVLLMFQNAIMYNSSDHDVYLMAVEMQREVMSQIQQ  102 (104)
T ss_pred             cCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHhhc
Confidence            8999999999998 9999999999999999999999999999999999999999987754

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.

>cd05502 Bromo_tif1_like Bromodomain; tif1_like subfamily

Probab=99.52  E-value=3.5e-14  Score=118.33  Aligned_cols=60  Identities=23%  Similarity=0.402  Sum_probs=58.1

Q ss_pred             CCHHHHHHHhhC---CCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLEN---GGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~---G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||+.   + .|.++.+|..||+|||.||+.||++++.++.+|..|++.|+++|..+
T Consensus        44 mdL~tI~~kL~~~~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~i~~~a~~l~~~f~~~~~~~  106 (109)
T cd05502          44 MDLSLIRKKLQPKSPQ-HYSSPEEFVADVRLMFKNCYKFNEEDSEVAQAGKELELFFEEQLKEI  106 (109)
T ss_pred             ccHHHHHHHHhcCCCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            899999999998   5 99999999999999999999999999999999999999999999875

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=99.51  E-value=4e-14  Score=119.94  Aligned_cols=61  Identities=30%  Similarity=0.457  Sum_probs=57.1

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCC-HHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGD-YILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS-~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||.++ .|.|+.+|.+||+|||.||+.||++++ .++.+|..|+++|++++..++
T Consensus        49 mdL~tI~~kl~~~-~Y~s~~ef~~D~~Li~~N~~~yN~~~s~~~~~~A~~l~~~~~~~~~~~~  110 (112)
T cd05510          49 MDLGTMLKKLKNL-QYKSKAEFVDDLNLIWKNCLLYNSDPSHPLRRHANFMKKKAEHLLKLIP  110 (112)
T ss_pred             cCHHHHHHHHhCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCC
Confidence            8999999999997 999999999999999999999999876 577999999999999988763

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.

>cd05524 Bromo_polybromo_I Bromodomain, polybromo repeat I

Probab=99.51  E-value=3.7e-14  Score=119.90  Aligned_cols=60  Identities=17%  Similarity=0.210  Sum_probs=58.3

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||..+ .|.|+.+|..||+|||.||++||++++.++.+|..|+++|++.++++
T Consensus        49 mdl~tI~~kl~~~-~Y~s~~~f~~D~~lm~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~  108 (113)
T cd05524          49 IDLLKIQQKLKTE-EYDDVDDLTADFELLINNAKAYYKPDSPEHKDACKLWELFLSARNEV  108 (113)
T ss_pred             cCHHHHHHHhCcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            8999999999997 99999999999999999999999999999999999999999998865

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=99.49  E-value=4.7e-14  Score=117.68  Aligned_cols=56  Identities=25%  Similarity=0.483  Sum_probs=54.2

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL   57 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~   57 (377)
                      |||+||++||..+ .|.|+.+|..||.|||.||+.||+++|.|+.+|..|+++|+..
T Consensus        47 mdl~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~A~~le~~~~~~  102 (103)
T cd05518          47 IDLKTIEHNIRND-KYATEEELMDDFKLMFRNARHYNEEGSQVYEDANILEKVLKEK  102 (103)
T ss_pred             cCHHHHHHHHCCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhc
Confidence            8999999999997 9999999999999999999999999999999999999999863

Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.

>cd05520 Bromo_polybromo_III Bromodomain, polybromo repeat III

Probab=99.49  E-value=6.5e-14  Score=116.69  Aligned_cols=56  Identities=23%  Similarity=0.438  Sum_probs=54.3

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL   57 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~   57 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||++++.++.+|..|+++|+..
T Consensus        47 mdL~tI~~kl~~~-~Y~s~~~f~~D~~lm~~Na~~yN~~~s~i~~~A~~L~~~f~~~  102 (103)
T cd05520          47 ISLQQIRTKLKNG-EYETLEELEADLNLMFENAKRYNVPNSRIYKDAEKLQKLMQAK  102 (103)
T ss_pred             cCHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHh
Confidence            8999999999997 9999999999999999999999999999999999999999863

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.

>cd05500 Bromo_BDF1_2_I Bromodomain

Probab=99.48  E-value=6.7e-14  Score=115.62  Aligned_cols=56  Identities=29%  Similarity=0.487  Sum_probs=54.6

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL   57 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~   57 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||+.||++++.++.+|..|++.|++.
T Consensus        47 ~dL~tI~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~l~~~fe~~  102 (103)
T cd05500          47 MDLGTIERKLKSN-VYTSVEEFTADFNLMVDNCLTFNGPEHPVSQMGKRLQAAFEKH  102 (103)
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHh
Confidence            8999999999997 9999999999999999999999999999999999999999975

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

>smart00297 BROMO bromo domain

Probab=99.48  E-value=1.2e-13  Score=111.64  Aligned_cols=59  Identities=34%  Similarity=0.513  Sum_probs=57.5

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA   60 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kk   60 (377)
                      |||+||++||..+ .|.|+.+|..||+|||.||+.||++++.++.+|..|.+.|.+.|.+
T Consensus        48 ~dl~~I~~kl~~~-~Y~s~~ef~~D~~li~~Na~~~n~~~s~~~~~a~~l~~~f~~~~~~  106 (107)
T smart00297       48 MDLSTIKKKLENG-KYSSVEEFVADVQLMFSNAKTYNGPDSEVYKDAKKLEKFFEKKLRE  106 (107)
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhh
Confidence            8999999999998 9999999999999999999999999999999999999999999875

>cd05515 Bromo_polybromo_V Bromodomain, polybromo repeat V

Probab=99.47  E-value=9.7e-14  Score=115.54  Aligned_cols=58  Identities=22%  Similarity=0.369  Sum_probs=55.6

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWM   59 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~k   59 (377)
                      |||+||++||..+ .|.++.+|..||.|||.||++||+++|.|+.+|..|+++|.+..+
T Consensus        47 mdL~tI~~kl~~~-~Y~s~~ef~~D~~l~~~Na~~yN~~~s~i~~~A~~L~~~~~~~~~  104 (105)
T cd05515          47 IDMEKIRSKIEGN-QYQSLDDMVSDFVLMFDNACKYNEPDSQIYKDALTLQKVLLETKR  104 (105)
T ss_pred             cCHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHc
Confidence            8999999999997 999999999999999999999999999999999999999987653

Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.

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

Probab=99.47  E-value=9e-14  Score=114.87  Aligned_cols=57  Identities=21%  Similarity=0.443  Sum_probs=54.9

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW   58 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~   58 (377)
                      |||+||++||..+ .|.|+.+|..||+|||.||++||++++.++.+|..|++.|+..+
T Consensus        47 mdl~~I~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yn~~~s~i~~~A~~l~~~f~~~~  103 (103)
T cd05519          47 IALDQIKRRIEGR-AYKSLEEFLEDFHLMFANARTYNQEGSIVYEDAVEMEKAFKKKY  103 (103)
T ss_pred             cCHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence            8999999999997 99999999999999999999999999999999999999998753

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.

>cd05511 Bromo_TFIID Bromodomain, TFIID-like subfamily

Probab=99.46  E-value=1.7e-13  Score=115.50  Aligned_cols=60  Identities=25%  Similarity=0.323  Sum_probs=58.2

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||+.||++++.++.+|..|.+.|...+..+
T Consensus        41 mdL~tI~~kl~~~-~Y~s~~ef~~Dv~li~~Na~~yN~~~s~i~~~A~~l~~~~~~~~~~~  100 (112)
T cd05511          41 MDLQTIRKKISKH-KYQSREEFLEDIELIVDNSVLYNGPDSVYTKKAKEMLELAEELLAER  100 (112)
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            8999999999997 99999999999999999999999999999999999999999988865

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.

>cd05517 Bromo_polybromo_II Bromodomain, polybromo repeat II

Probab=99.45  E-value=1.4e-13  Score=114.64  Aligned_cols=55  Identities=27%  Similarity=0.501  Sum_probs=53.7

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMK   56 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK   56 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||++++.|+.+|..|+++|..
T Consensus        47 mdL~tI~~kl~~~-~Y~s~~~f~~D~~lm~~Na~~yN~~~s~i~~~A~~l~~~f~~  101 (103)
T cd05517          47 IDLKTIAQRIQSG-YYKSIEDMEKDLDLMVKNAKTFNEPGSQVYKDANAIKKIFTA  101 (103)
T ss_pred             cCHHHHHHHHCcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHh
Confidence            8999999999997 999999999999999999999999999999999999999975

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.

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

Probab=99.45  E-value=2.2e-13  Score=115.26  Aligned_cols=61  Identities=25%  Similarity=0.380  Sum_probs=58.0

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCC----CHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKG----DYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pg----S~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||.++ .|.|+.+|..||+|||.||+.||+++    +.|+.+|..|++.|..++.++.
T Consensus        44 mdL~tI~~kl~~~-~Y~s~~ef~~Dv~li~~Na~~yN~~~s~~~s~i~~~A~~L~~~~~~~~~~~~  108 (112)
T cd05528          44 MDLQTILQKLDTH-QYLTAKDFLKDIDLIVTNALEYNPDRDPADKLIRSRACELRDEVHAMIEAEL  108 (112)
T ss_pred             CCHHHHHHHHcCC-CcCCHHHHHHHHHHHHHHHHHHCCCCCccccHHHHHHHHHHHHHHHHHHhcC
Confidence            8999999999997 99999999999999999999999994    6999999999999999998764

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

>cd05525 Bromo_ASH1 Bromodomain; ASH1_like sub-family

Probab=99.45  E-value=1.8e-13  Score=114.78  Aligned_cols=56  Identities=23%  Similarity=0.359  Sum_probs=54.4

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL   57 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~   57 (377)
                      |||+||++||..+ .|.|+.+|..||.|||.||++||+++|.|+.+|..|+++|+..
T Consensus        49 ~dL~tI~~kl~~~-~Y~s~~ef~~D~~l~f~Na~~yn~~~S~i~~~A~~L~~~f~~~  104 (106)
T cd05525          49 VDLSTIEKQILTG-YYKTPEAFDSDMLKVFRNAEKYYGRKSPIGRDVCRLRKAYYQA  104 (106)
T ss_pred             cCHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHc
Confidence            8999999999998 9999999999999999999999999999999999999999864

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.

>cd05529 Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like subfamily

Probab=99.44  E-value=2e-13  Score=117.69  Aligned_cols=58  Identities=31%  Similarity=0.424  Sum_probs=56.3

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWM   59 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~k   59 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||++++.++.+|..|+++|.+++.
T Consensus        69 mdL~tI~~kl~~~-~Y~s~~~f~~Dv~Li~~Na~~yN~~~s~i~~~A~~l~~~~~~~l~  126 (128)
T cd05529          69 MDLETIRSRLENR-YYRSLEALRHDVRLILSNAETFNEPNSEIAKKAKRLSDWLLRILS  126 (128)
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHhc
Confidence            8999999999998 999999999999999999999999999999999999999998875

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.

>cd05513 Bromo_brd7_like Bromodomain, brd7_like subgroup

Probab=99.44  E-value=1.6e-13  Score=113.81  Aligned_cols=54  Identities=28%  Similarity=0.433  Sum_probs=51.2

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFM   55 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~Fe   55 (377)
                      |||+||++||+.+ .|.|+.+|.+||+|||.||++||++++.++.+|..|...-.
T Consensus        42 mDL~tI~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~~~   95 (98)
T cd05513          42 MDFSTMKEKIKNN-DYQSIEEFKDDFKLMCENAMKYNKPDTIYYKAAKKLLHSGM   95 (98)
T ss_pred             cCHHHHHHHHhCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHhhh
Confidence            8999999999997 99999999999999999999999999999999999976543

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.

>cd05512 Bromo_brd1_like Bromodomain; brd1_like subfamily

Probab=99.43  E-value=2.2e-13  Score=112.57  Aligned_cols=53  Identities=32%  Similarity=0.494  Sum_probs=50.8

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNF   54 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~F   54 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||+.||.+++.+|.+|..|++.-
T Consensus        42 mDL~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~~~~~A~~l~~~~   94 (98)
T cd05512          42 MDFSTMRKKLESQ-RYRTLEDFEADFNLIINNCLAYNAKDTIFYRAAVRLRDQG   94 (98)
T ss_pred             cCHHHHHHHHhCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHhh
Confidence            8999999999998 9999999999999999999999999999999999998753

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.

>cd04369 Bromodomain Bromodomain

Probab=99.43  E-value=3.5e-13  Score=104.24  Aligned_cols=57  Identities=39%  Similarity=0.577  Sum_probs=55.0

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW   58 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~   58 (377)
                      |||+||+.||..+ .|.++.+|..||+|||.||+.||++++.++.+|..|...|.+.|
T Consensus        43 ~~l~~I~~kl~~~-~Y~s~~~f~~D~~li~~Na~~~n~~~~~~~~~a~~l~~~~~~~~   99 (99)
T cd04369          43 MDLSTIKKKLKNG-EYKSLEEFEADVRLIFSNAKTYNGPGSPIYKDAKKLEKLFEKLL   99 (99)
T ss_pred             ccHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence            8999999999998 99999999999999999999999999999999999999998754

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

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

Probab=99.42  E-value=3.6e-13  Score=112.09  Aligned_cols=56  Identities=18%  Similarity=0.284  Sum_probs=54.5

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL   57 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~   57 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||+.||++++.++.+|..|++.|+++
T Consensus        48 mdl~tI~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yn~~~s~i~~~A~~l~~~f~~l  103 (104)
T cd05522          48 ISLDDIKKKVKRR-KYKSFDQFLNDLNLMFENAKLYNENDSQEYKDAVLLEKEARLL  103 (104)
T ss_pred             cCHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHh
Confidence            8999999999997 9999999999999999999999999999999999999999874

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=99.40  E-value=6.6e-13  Score=112.75  Aligned_cols=60  Identities=13%  Similarity=0.189  Sum_probs=55.5

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||..+ .|+++++|..||+|||.||..||++++.++.+|..|-+-...-+.++
T Consensus        47 mDL~tI~~kl~~~-~Y~s~~ef~~Dv~LI~~N~~~yNg~~s~~~~~A~~l~~d~~~el~Ei  106 (109)
T cd05492          47 LDVADIQEKINSE-KYTSLEEFKADALLLLHNTAIFHGADSEQYDAARWLYRDTCHDLREL  106 (109)
T ss_pred             CcHHHHHHHHHcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 99999999999999999999999999999999999988766655554

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.

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

Probab=99.36  E-value=1.4e-12  Score=109.70  Aligned_cols=56  Identities=23%  Similarity=0.359  Sum_probs=53.8

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWM   59 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~k   59 (377)
                      |||+||++||..   |.++.+|..||.|||.||++||++++.++.+|..|+++|.+.+.
T Consensus        48 mdL~tI~~kl~~---Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~A~~le~~~~~~~~  103 (106)
T cd05521          48 LSLNTVKKRLPH---YTNAQEFVNDLAQIPWNARLYNTKGSVIYKYALILEKYINDVII  103 (106)
T ss_pred             CCHHHHHHHHHc---CCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHhhc
Confidence            899999999997   99999999999999999999999999999999999999998654

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.

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

Probab=99.30  E-value=3.8e-12  Score=98.79  Aligned_cols=48  Identities=38%  Similarity=0.605  Sum_probs=44.5

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKR   49 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~   49 (377)
                      |||+||+.||..+ .|.++.+|..||+|||.||+.||++++.++.+|..
T Consensus        37 ~dL~~I~~kl~~~-~Y~s~~~f~~Dv~~i~~Na~~yn~~~s~~~~~A~~   84 (84)
T PF00439_consen   37 MDLSTIRKKLENG-KYKSIEEFEADVRLIFQNARRYNPPDSPIYKAAEK   84 (84)
T ss_dssp             --HHHHHHHHHTT-SSSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHH
T ss_pred             cchhhhhHHhhcc-chhhHHHHHHHHHHHHHHHHHHCCCcCHHHHHhcC
Confidence            8999999999998 99999999999999999999999999999999863

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 ....

>cd05526 Bromo_polybromo_VI Bromodomain, polybromo repeat VI

Probab=99.24  E-value=1.8e-11  Score=104.48  Aligned_cols=60  Identities=15%  Similarity=0.285  Sum_probs=57.0

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||.+|++||..| .|.++++|..||.|||.||++||.++|.||..|..|+++|.+...++
T Consensus        48 i~l~~Ik~ki~~~-~Y~~ld~~~~D~~lmf~NAr~yN~~~S~iy~dA~eLq~~f~~~rd~~  107 (110)
T cd05526          48 LTLDIIKRNVDKG-RYRRLDKFQEDMFEVLERARRLSRTDSEIYEDAVELQQFFIKIRDEL  107 (110)
T ss_pred             ccHHHHHHHHHcC-CcCcHHHHHHHHHHHHHHHHHhCcccCHHHHHHHHHHHHHHHHHHHH
Confidence            7999999999998 99999999999999999999999999999999999999999876543

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=99.19  E-value=2.9e-11  Score=119.02  Aligned_cols=64  Identities=30%  Similarity=0.463  Sum_probs=60.3

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCCC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYT   65 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~~   65 (377)
                      |||+||+++|..+ .|.++++|..|++|||.||++||.+++.+|.+|..|++.|.+++..+....
T Consensus       189 m~L~~i~kkl~~~-~Y~s~eef~~D~~lM~~N~~~yN~~~s~v~~~a~~l~~~~~~~i~~~~~~~  252 (371)
T COG5076         189 MDLLTIQKKLKNG-RYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFLKLIEEIPEEM  252 (371)
T ss_pred             hhHHHHHHHHHhh-hhhhHHHHHHHHHHHHHhhhhccCCCcchhhhhHHHHHHHHHHHHhccccc
Confidence            8999999999998 999999999999999999999999999999999999999999998765433

>cd05491 Bromo_TBP7_like Bromodomain; TBP7_like subfamily, limited to fungi

Probab=99.01  E-value=2.2e-10  Score=99.43  Aligned_cols=40  Identities=30%  Similarity=0.457  Sum_probs=38.2

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGD   41 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS   41 (377)
                      |||+||++||.+| +|.++.+|+.||+|||.||++||.++.
T Consensus        65 MDL~tIe~RL~ng-~Y~tp~~F~~DiklI~~Nc~~ynd~dr  104 (119)
T cd05491          65 MDLDTIEERLWNG-YYATPKDFLKDIKRIVRDAKTIGDRER  104 (119)
T ss_pred             cCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHhCCHHH
Confidence            9999999999998 999999999999999999999998754

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.

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

Probab=98.52  E-value=1e-07  Score=108.58  Aligned_cols=59  Identities=31%  Similarity=0.562  Sum_probs=57.0

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||+.||..+ .|.+..+|..||.|||.||.+||.+ +.|+.++-.|.++|.+.|...
T Consensus      1342 mdl~tir~k~~~~-~Y~~~eef~~Di~lvf~Nc~~yN~~-s~i~~ag~~l~~ff~~~~~~~ 1400 (1404)
T KOG1245|consen 1342 MDLSTIREKLSKG-IYPSPEEFATDIELVFDNCETYNED-SEIGRAGTCLRRFFHKRWRKK 1400 (1404)
T ss_pred             hHHHHHHHHHhcc-cCCCHHHHHHHHHHHHHHHHHhccc-hhhhhhcchHHHHHHHHHHhh
Confidence            9999999999998 9999999999999999999999999 999999999999999988754

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

Probab=98.04  E-value=2.1e-06  Score=92.49  Aligned_cols=64  Identities=23%  Similarity=0.338  Sum_probs=59.7

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCCC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYT   65 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~~   65 (377)
                      |||.||..+|..+ +|..+..|+.|+.+||.||+.||+.++.+|..|..+..+|...+....++.
T Consensus       647 mDl~tM~~~l~~~-~y~~~~~f~ad~~~vf~ncr~yn~~~~~y~k~~~~le~~~~~k~~~~i~~~  710 (720)
T KOG1472|consen  647 MDLRTMQNRLKDN-QYTEVELFMADVVRVFANCRMYNGSDTQYYKCAQALEKFFLFKLNELILRV  710 (720)
T ss_pred             ccHHHHhhhcccc-chhhHHHHHHHHHHHHhhhhccCCccchheecccchhhhhcchhhhhhhhh
Confidence            8999999999998 999999999999999999999999999999999999999998887664443

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

Probab=97.40  E-value=0.00017  Score=77.26  Aligned_cols=57  Identities=21%  Similarity=0.280  Sum_probs=54.3

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW   58 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~   58 (377)
                      |.|.-|++|+..+ .|.+.+.|..||.|++.||+.||.+++.+|.++..|+..|..+.
T Consensus        99 isl~~ik~kv~k~-~y~~~~~f~~D~~lm~ena~~~n~~ds~~~~~s~~l~~~~~~~~  155 (629)
T KOG1827|consen   99 ISLDQIKRKVKKG-RYKRLSFFQLDFLLMTENARLYNRPDSLIYKDSGELEKYFISLE  155 (629)
T ss_pred             ccHHHHHHHHHhc-ccccHHHHHHHHHHHHHHHHHhcCcchhhhhhhhhhhcchhhhh
Confidence            6789999999998 99999999999999999999999999999999999999998755

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

Probab=97.37  E-value=0.00015  Score=81.23  Aligned_cols=61  Identities=33%  Similarity=0.442  Sum_probs=55.6

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||.||+.+++++ .|.++++|..|+.||..||+.||..++.+|..|..+...-.+.+..+.
T Consensus       606 md~~t~~~kl~s~-~y~tle~ieed~~l~~~nc~~yn~~dtv~~r~av~~~e~~~~~~~~ar  666 (1051)
T KOG0955|consen  606 MDFFTMRLKLESG-AYSTLEPIEEDVNLIVSNCMEYNAKDTVYYRAAVRLRELIKKDFRNAR  666 (1051)
T ss_pred             cchhhhhhhcccc-chhhhhHHHHhHhHhHhHHHHhhccCeehHhhhHHHHhhhhhHHHhcc
Confidence            8999999999998 999999999999999999999999999999999999886666665443

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

Probab=96.57  E-value=0.0017  Score=70.76  Aligned_cols=44  Identities=39%  Similarity=0.662  Sum_probs=40.2

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILD   45 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~   45 (377)
                      |||+|+.+||..+ .|.+.+.|+.|+.+||.||.+||...+....
T Consensus       327 mdl~t~~~k~~~~-~y~~~~~fv~d~~~~~~n~~~~n~ee~~~~~  370 (720)
T KOG1472|consen  327 MDLSTELKKLKSG-PYCSKEEFVNDLMLIWRNCEKYNSEESHGLI  370 (720)
T ss_pred             hHHHHHHHHhccc-cccchhHHHHHHHHHHhcchhhccccchhhh
Confidence            8999999999997 9999999999999999999999988665443

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

Probab=96.35  E-value=0.0033  Score=70.63  Aligned_cols=61  Identities=20%  Similarity=0.327  Sum_probs=56.9

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |+|..|+++|... .|.+..+...||.++|.|+++||..||.||..|..|+.+|......+.
T Consensus      1071 ~~~~~~~~~i~~~-~~~~~~~~~~~~~~~~~na~~~~~egs~~y~d~~~l~~~~~~~~~~~~ 1131 (1157)
T KOG0386|consen 1071 VAIDKIKKRIENH-KYNSLKELEKDFMLLFNNARTYNEEGSRVYEDAIVLQSVFKSARQEIS 1131 (1157)
T ss_pred             hhHHHHhhhcccc-ccchHHHHHHHHHhhcchhhhhccCCceechhHHHHHHHHhhhHHHHh
Confidence            5789999999997 999999999999999999999999999999999999999998777653

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

Probab=96.07  E-value=0.0057  Score=70.32  Aligned_cols=50  Identities=26%  Similarity=0.412  Sum_probs=44.4

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVK   51 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LE   51 (377)
                      |||.||.+++... .|.+.++|..||+||+.||..||+..+.+..-|..+-
T Consensus      1423 mdl~~i~~n~~~~-~y~s~~e~l~dv~~i~~n~~~~ng~e~~y~~k~~k~~ 1472 (1563)
T KOG0008|consen 1423 MDLETILKNIPPH-KYDSRSEFLDDVNLIYVNSVEYNGAESAYTKKARKIG 1472 (1563)
T ss_pred             hhHHHHhhcCCcc-ccccHHHHhhhhHhhcccceeecCccccccHHHHHHH
Confidence            8999999999996 9999999999999999999999999887665555443

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

Probab=95.86  E-value=0.0032  Score=67.55  Aligned_cols=61  Identities=28%  Similarity=0.489  Sum_probs=56.7

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      ||++||..+|+.+ +|.+..+..+|+.-+|.||+.||.+...|+.++..++..|.+....+.
T Consensus        35 ~d~~~~~~~~e~n-~~~~~~~~~~~f~~~~sn~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~   95 (640)
T KOG1474|consen   35 MDIGTIEKRVENN-YYFSASECIADFKTKFSNCYLFNDSGDDVVRMKQSLEKLFPKKLRSMP   95 (640)
T ss_pred             CCchhhhhhhccC-ccccHhhhhhhccccccchhcccCCccchhhccccchhhccccccccc
Confidence            8999999999995 999999999999999999999999999999999999999987776543

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

Probab=95.62  E-value=0.0053  Score=63.01  Aligned_cols=50  Identities=12%  Similarity=0.064  Sum_probs=46.9

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKK   52 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk   52 (377)
                      ||++|++.|..++ .|.| -+|..|+.||..|+++||.+...+|.+|+.+.-
T Consensus       249 ~~~~Tygdk~~an-dy~S-~~f~~D~kl~~l~amT~gehsk~yyelank~lh  298 (418)
T KOG1828|consen  249 EPPGTYGDKSSAN-DYES-LSFTQDRKLIALKAVTNGEHSKSYYELANKQLH  298 (418)
T ss_pred             CCCcchhhhhhhh-hhhh-hhhhcccchhhHHHHhcCCcchHHHHHHHhhhh
Confidence            6899999999997 9999 999999999999999999999999999988765

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

Probab=95.27  E-value=0.03  Score=49.98  Aligned_cols=65  Identities=20%  Similarity=0.192  Sum_probs=52.4

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCCCC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYTE   66 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~~E   66 (377)
                      .||..|++||+.| .|+++.+|..||-.|+.=++.-.+..-.+-+.-..++-+|-+++.++..|..
T Consensus        60 ~dL~~V~kkl~~G-~Y~sv~~F~~DvvkIiqa~l~~e~~~pe~~ka~s~~Ksf~ik~me~vf~Wf~  124 (131)
T cd05493          60 LDLEAVGKKLEAG-FYTSVLDFSDDIVKIIQAALNSEGGQPEIKKANSMAKSFFIKLMESVFPWFN  124 (131)
T ss_pred             ccHHHHHHHHhcc-ceehHHHHHHHHHHHHHHHHhhccCCccccCcchHHHHHHHHHHHHhccccc
Confidence            3899999999999 9999999999999999988766655555556555666688888888776654

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.

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

Probab=92.92  E-value=0.016  Score=59.58  Aligned_cols=52  Identities=21%  Similarity=0.128  Sum_probs=48.9

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKN   53 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~   53 (377)
                      ||+.||+.|+..+ +|.+..+|.-|..||..|+..||...+.++..|++|..+
T Consensus        60 md~~t~r~kidd~-~yl~L~~m~~d~kl~~~na~~yn~~~Tv~~~aaKrL~~v  111 (418)
T KOG1828|consen   60 MDRITKRSKIDDT-RYLVLSQMEFDRKLPDGNATLYNLHPTVPIVAAKRLCPV  111 (418)
T ss_pred             cccccccccCCCc-cceechhhhhhhcccccchhhhhcCCccccccccccchh
Confidence            8999999999997 999999999999999999999999999999888888653

>cd05494 Bromodomain_1 Bromodomain; uncharacterized subfamily

Probab=92.85  E-value=0.029  Score=48.09  Aligned_cols=41  Identities=20%  Similarity=0.038  Sum_probs=33.2

Q ss_pred             CCHHHHHHHhhCC------CCCCCHHHHHHHHHHHHhhhhccCCCCC
Q 017098            1 MDFGTICSNLENG------GKYMNSEDVYKDVEYIWENCNKYNSKGD   41 (377)
Q Consensus         1 MDLsTIKkKLe~G------~kYkSveEF~sDVrLIFsNC~kYN~pgS   41 (377)
                      |||+||+++|..+      ..|.--.++.+++..+|.||..||.-+-
T Consensus        46 MDL~ti~~kl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (114)
T cd05494          46 MSFGTKVNNIVETGARDLEDLQIVQEDPADKQIDDEGRRSPSNIYAV   92 (114)
T ss_pred             CChHHHHHHHHccccccccccccccccccccccccccccCcccccch
Confidence            9999999999993      2566567778888999999998887543

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

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

Probab=90.50  E-value=0.27  Score=57.28  Aligned_cols=55  Identities=22%  Similarity=0.247  Sum_probs=47.3

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHH-HHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRV-KKNFMK   56 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~L-Ek~FeK   56 (377)
                      |||.|+++.+..- .|.+-+.|..|+.||+.|..+||++.+.+...+..+ ...|++
T Consensus      1302 ~~lq~~kk~v~kr-~y~~r~~fle~~~~~~~ns~~yng~~~~~t~~~q~mls~~~~~ 1357 (1563)
T KOG0008|consen 1302 MDLQTQKKLVRKR-LYESREHFLEELPLIVSNSTKYNGPLASLTRQQQSMLSLCFEK 1357 (1563)
T ss_pred             cchHHHHHHHHHH-HHHHHHHHHHHhHHHhhchhhhcCchHHHHHHHHHHHHHHHHh
Confidence            8999999999995 999999999999999999999999988777666644 445543

>PF14372 DUF4413: Domain of unknown function (DUF4413)

Probab=82.58  E-value=4.5  Score=33.70  Aligned_cols=49  Identities=18%  Similarity=0.363  Sum_probs=43.3

Q ss_pred             CCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098           14 GKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus        14 ~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      ..|-|..-|...|-.|-.....++..+..+..+|..|...|.++|.+..
T Consensus         4 ~~~pTsn~~f~~i~~i~~~l~~~~~~d~~l~~ma~~M~~KfdKYw~~~~   52 (101)
T PF14372_consen    4 SSYPTSNLYFHEIWKIKDLLRDWNNDDPDLKNMAKKMKEKFDKYWKDCN   52 (101)
T ss_pred             CCcCcHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHhH
Confidence            4899999999999888888888887788999999999999999998653

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

Probab=80.65  E-value=0.59  Score=46.79  Aligned_cols=58  Identities=22%  Similarity=0.292  Sum_probs=52.3

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWM   59 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~k   59 (377)
                      |++.|..-+|..+ .|.....|..|..++|.||..||.....++.-+..+..+|...+.
T Consensus       304 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  361 (371)
T COG5076         304 MDLSTKELKLRNN-YYRPEETFVRDAKLFFDNCVMYNGEVTDYYKNANVLEDFVIKKTR  361 (371)
T ss_pred             cccccchhhhhcc-cCCCccccccccchhhhcccccchhhhhhhhhccchhhhHhhhhh
Confidence            6788889999997 999999999999999999999999999999989888888776554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	377
3d7c_A	112	General control of amino acid synthesis protein 5;	99.68
3g0l_A	117	Hwalp4, bromodomain adjacent to zinc finger domain	99.64
2dat_A	123	Possible global transcription activator SNF2L2; br	99.63
2ouo_A	130	HUNK1 protein, bromodomain-containing protein 4; B	99.63
3mb4_A	124	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.63
3tlp_A	150	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.63
2oss_A	127	HUNK1 protein, bromodomain-containing protein 4; B	99.63
3jvl_A	120	Bromodomain-containing protein 4; alpha helical, N	99.63
2grc_A	129	Probable global transcription activator SNF2L4; br	99.62
3ljw_A	120	Protein polybromo-1; alpha helix, alternative spli	99.62
4alg_A	154	Bromodomain-containing protein 2; signaling protei	99.62
1e6i_A	121	Transcriptional activator GCN5; gene regulation, b	99.62
2i7k_A	117	Bromodomain-containing protein 7; helix, LEFT-hand	99.61
3iu5_A	116	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.61
3nxb_A	116	CAT eye syndrome critical region protein 2; struct	99.61
3k2j_A	130	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.61
3p1f_A	119	CREB-binding protein; structural genomics consorti	99.6
2d9e_A	121	Peregrin; four-helix bundle, transcription activat	99.6
3mqm_A	126	Probable histone-lysine N-methyltransferase ASH1L;	99.6
3fkm_X	166	Signaling protein; bromodomain, malaria, structura	99.59
2yyn_A	135	Transcription intermediary factor 1-alpha; bromo d	99.59
3mb3_A	135	PH-interacting protein; PHIP, pleckstrin homology	99.58
3q2e_A	123	Bromodomain and WD repeat-containing protein 1; st	99.58
3rcw_A	135	Bromodomain-containing protein 1; transcription, s	99.57
3hme_A	123	Bromodomain-containing protein 9; BRD9, bromodomai	99.56
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	99.56
3uv4_A	158	Second bromodomain of human transcription initiat	99.54
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	99.53
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	99.52
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	99.44
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	99.43
2r10_A	361	Chromatin structure-remodeling complex protein RSC	99.42
3dai_A	130	ATPase family AAA domain-containing protein 2; anc	99.41
3uv5_A	265	Transcription initiation factor TFIID subunit 1; t	99.4
2dkw_A	131	Hypothetical protein KIAA1240; bromodomain-like, f	99.4
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	99.4
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	99.39
3aad_A	292	Transcription initiation factor TFIID subunit 1; p	99.31
3iu6_A	147	Protein polybromo-1; PB1, polybromo 1 isoform 1, B	99.24
2r0y_A	311	Chromatin structure-remodeling complex protein RSC	99.24
2r10_A	361	Chromatin structure-remodeling complex protein RSC	99.21
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	99.18

>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=99.68  E-value=8.7e-17  Score=132.67  Aligned_cols=64  Identities=20%  Similarity=0.325  Sum_probs=62.5

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCCC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYT   65 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~~   65 (377)
                      |||+||++||.+| .|.++.+|..||+|||.||++||++++.++.+|..|++.|++.|.+++++.
T Consensus        48 mdL~tI~~kl~~~-~Y~s~~~f~~Dv~li~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~~~~~  111 (112)
T 3d7c_A           48 IDLKTMTERLRSR-YYVTRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFKLKEGGLID  111 (112)
T ss_dssp             CCHHHHHHHHHTT-CCCSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHTTSSC
T ss_pred             cCHHHHHHHHcCC-CCcCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCCcC
Confidence            8999999999998 999999999999999999999999999999999999999999999999874

>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=99.64  E-value=3.8e-16  Score=129.51  Aligned_cols=60  Identities=33%  Similarity=0.582  Sum_probs=58.6

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||++++.|+.+|..|+++|++.|.++
T Consensus        54 mdl~tI~~kl~~~-~Y~~~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~  113 (117)
T 3g0l_A           54 MDFSTIREKLSSG-QYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKKWTDT  113 (117)
T ss_dssp             CCHHHHHHHHHTT-CCCSHHHHHHHHHHHHHHHHHHSCSSSHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHhCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 99999999999999999999999999999999999999999999875

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

Probab=99.63  E-value=3.7e-16  Score=131.20  Aligned_cols=61  Identities=25%  Similarity=0.335  Sum_probs=59.2

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||.+++.|+.+|..|+++|+++|++++
T Consensus        60 mdL~tI~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~p  120 (123)
T 2dat_A           60 VDFKKIKERIRNH-KYRSLGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVFKSARQSGP  120 (123)
T ss_dssp             CCHHHHHHHHTTT-CCCSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHSSS
T ss_pred             CCHHHHHHHHhCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHcC
Confidence            9999999999998 999999999999999999999999999999999999999999999764

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

Probab=99.63  E-value=3.9e-16  Score=132.56  Aligned_cols=61  Identities=26%  Similarity=0.499  Sum_probs=59.3

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||++++.|+.+|..|+++|++.|.+++
T Consensus        68 mDL~tI~~kl~~~-~Y~s~~ef~~Dv~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~lp  128 (130)
T 2ouo_A           68 MDMSTIKSKLEAR-EYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMP  128 (130)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHTSC
T ss_pred             CCHHHHHHHHHcC-CCCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHCC
Confidence            9999999999998 999999999999999999999999999999999999999999999764

>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=99.63  E-value=4.6e-16  Score=130.61  Aligned_cols=60  Identities=20%  Similarity=0.299  Sum_probs=58.8

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||++++.|+.+|..|+++|++.|.++
T Consensus        62 mdL~tI~~kl~~~-~Y~~~~~f~~D~~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l  121 (124)
T 3mb4_A           62 MDMEKIRSHMMAN-KYQDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETRRDL  121 (124)
T ss_dssp             CCHHHHHHHHHTT-CCCSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 99999999999999999999999999999999999999999999976

>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=99.63  E-value=5e-16  Score=133.94  Aligned_cols=67  Identities=22%  Similarity=0.406  Sum_probs=61.8

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCCCCCC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYTEQS   68 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~~Eq~   68 (377)
                      |||+||++||..+ .|.++.+|+.||+|||.||++||++++.||.+|..|+++|+++|.++...++..
T Consensus        72 mdL~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l~~~pd~d  138 (150)
T 3tlp_A           72 MDLKIIEHNIRND-KYAGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEKLLKEKRKELGPLPDDD  138 (150)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHCCC----
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHccCCCChh
Confidence            9999999999998 999999999999999999999999999999999999999999999998777643

>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=99.63  E-value=4.4e-16  Score=131.82  Aligned_cols=61  Identities=33%  Similarity=0.543  Sum_probs=59.1

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||++++.|+.+|..|++.|++.|.+++
T Consensus        64 mdL~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~lp  124 (127)
T 2oss_A           64 MDMGTIKKRLENN-YYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELP  124 (127)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             CCHHHHHHHHHcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCC
Confidence            8999999999998 999999999999999999999999999999999999999999998764

>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=99.63  E-value=4.9e-16  Score=129.33  Aligned_cols=61  Identities=26%  Similarity=0.505  Sum_probs=59.4

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||++++.|+.+|..|+++|++.|.++.
T Consensus        55 mdl~tI~~kl~~~-~Y~~~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~p  115 (120)
T 3jvl_A           55 MDMSTIKSKLESR-EYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMP  115 (120)
T ss_dssp             CCHHHHHHHHHTT-CCCSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHTTCC
T ss_pred             CCHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCc
Confidence            8999999999998 999999999999999999999999999999999999999999999775

>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=99.62  E-value=6.1e-16  Score=131.03  Aligned_cols=61  Identities=25%  Similarity=0.370  Sum_probs=59.3

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||++++.|+.+|..|+++|++.|.++.
T Consensus        59 mdL~tI~~kl~~~-~Y~s~~~f~~Dv~Li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l~  119 (129)
T 2grc_A           59 VDFKKIKERIRNH-KYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIE  119 (129)
T ss_dssp             CCHHHHHHHHHTT-CCCSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHcc
Confidence            9999999999998 999999999999999999999999999999999999999999999764

>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=99.62  E-value=5.1e-16  Score=129.66  Aligned_cols=61  Identities=25%  Similarity=0.423  Sum_probs=59.4

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||++++.|+.+|..|+++|++.|.++.
T Consensus        55 mdL~tI~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~i~  115 (120)
T 3ljw_A           55 IDLKTIAQRIQNG-SYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIE  115 (120)
T ss_dssp             CCHHHHHHHHHHT-CCCSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHhh
Confidence            8999999999998 999999999999999999999999999999999999999999999864

>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=99.62  E-value=7.3e-16  Score=134.60  Aligned_cols=61  Identities=30%  Similarity=0.489  Sum_probs=59.5

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||.++ .|.++.+|+.||+|||.||++||.+++.|+.+|..|+++|++.|.++.
T Consensus        75 MDL~tI~~kl~~~-~Y~s~~ef~~Dv~Lif~Na~~YN~~~s~i~~~A~~L~~~f~~~~~~l~  135 (154)
T 4alg_A           75 MDMGTIKRRLENN-YYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMP  135 (154)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHTTSC
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCC
Confidence            9999999999998 999999999999999999999999999999999999999999999875

>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=99.62  E-value=5.8e-16  Score=129.91  Aligned_cols=63  Identities=29%  Similarity=0.450  Sum_probs=60.6

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLY   64 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~   64 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||++++.|+.+|..|+++|++.|..++-|
T Consensus        54 mdL~tI~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~p~~  116 (121)
T 1e6i_A           54 MDLSTMEIKLESN-KYQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEIPEY  116 (121)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHTSGGG
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHcccc
Confidence            8999999999998 99999999999999999999999999999999999999999999987544

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

Probab=99.61  E-value=7.2e-16  Score=129.22  Aligned_cols=62  Identities=23%  Similarity=0.356  Sum_probs=59.9

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGL   63 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL   63 (377)
                      |||+||++||.+| .|.++.+|..||+|||.||++||+++|.|+.+|..|++.|+++|....+
T Consensus        49 MDL~tI~~kl~~~-~Y~s~~ef~~Dv~Li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~~~  110 (117)
T 2i7k_A           49 MDFSTMKEKIKNN-DYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKLLHSGMKILSQERL  110 (117)
T ss_dssp             CCHHHHHHHHTTT-SCCSHHHHHHHHHHHHHHHHHTSCSSSSHHHHHHHHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 9999999999999999999999999999999999999999999997654

>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=99.61  E-value=8.8e-16  Score=127.35  Aligned_cols=60  Identities=12%  Similarity=0.176  Sum_probs=58.6

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||++++.|+.+|..|+++|++.+.++
T Consensus        52 mdL~tI~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~l  111 (116)
T 3iu5_A           52 IDLMKIQQKLKME-EYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTRNEF  111 (116)
T ss_dssp             CCHHHHHHHHHTT-CCCSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 99999999999999999999999999999999999999999999876

>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=99.61  E-value=6.5e-16  Score=127.94  Aligned_cols=59  Identities=24%  Similarity=0.524  Sum_probs=57.5

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA   60 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kk   60 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||++++.|+.+|..|+++|++.|.+
T Consensus        57 mdl~tI~~kl~~~-~Y~~~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~k  115 (116)
T 3nxb_A           57 MDISSMEKKLNGG-LYCTKEEFVNDMKTMFRNCRKYNGESSEYTKMSDNLERCFHRAMMK  115 (116)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhh
Confidence            8999999999998 9999999999999999999999999999999999999999999874

>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=99.61  E-value=1e-15  Score=130.38  Aligned_cols=61  Identities=16%  Similarity=0.297  Sum_probs=59.1

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||+++|.|+.+|..|+++|++.|.++.
T Consensus        64 MdL~tI~~kL~~~-~Y~s~~ef~~Dv~Lif~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~l~  124 (130)
T 3k2j_A           64 ISLQQIRTKLKNQ-EYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELA  124 (130)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 999999999999999999999999999999999999999999998763

>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=99.60  E-value=1.3e-15  Score=126.58  Aligned_cols=60  Identities=23%  Similarity=0.350  Sum_probs=58.2

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||++++.|+.+|..|++.|++.|..+
T Consensus        55 mdl~tI~~kl~~~-~Y~~~~~f~~D~~li~~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~  114 (119)
T 3p1f_A           55 MDLSTIKRKLDTG-QYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPV  114 (119)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 99999999999999999999999999999999999999999999764

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

Probab=99.60  E-value=1.7e-15  Score=127.33  Aligned_cols=60  Identities=33%  Similarity=0.442  Sum_probs=58.2

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||++++.++.+|..|++.|+++|.++
T Consensus        48 mdL~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~~~~~l~~~  107 (121)
T 2d9e_A           48 MDFFTMKQNLEAY-RYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLREQGGAVLRQA  107 (121)
T ss_dssp             CCHHHHHHHHHTT-CCCSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999998 99999999999999999999999999999999999999999999865

>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=99.60  E-value=1.1e-15  Score=128.33  Aligned_cols=60  Identities=22%  Similarity=0.293  Sum_probs=58.4

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||++++.++.+|..|+++|++.|.++
T Consensus        56 mdL~tI~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~  115 (126)
T 3mqm_A           56 LDLITIEKQILTG-YYKTVEAFDADMLKVFRNAEKYYGRKSPVGRDVCRLRKAYYNARHEA  115 (126)
T ss_dssp             CCHHHHHHHHHHT-CCCSHHHHHHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 99999999999999999999999999999999999999999999865

>3fkm_X Signaling protein; bromodomain, malaria, structural genomics, structural genomi consortium, SGC; 2.50A {Plasmodium falciparum 3D7}

Probab=99.59  E-value=1.3e-15  Score=134.45  Aligned_cols=62  Identities=27%  Similarity=0.535  Sum_probs=60.1

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGL   63 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL   63 (377)
                      |||+||++||..+ .|.++.+|+.||+|||.||++||++++.|+.+|..|+++|++.|.++++
T Consensus        64 mDL~tI~~kL~~~-~Y~s~~ef~~Dv~Lif~Na~~yN~~~s~i~~~A~~L~~~f~~~l~~~~~  125 (166)
T 3fkm_X           64 MSFSCIKTKLKKG-QYAYPSEFVKDVQLIFDNCSLYNTSNSVVAITGKNIETYFNNQLIVMGY  125 (166)
T ss_dssp             CCHHHHHHHHHHT-CCCSHHHHHHHHHHHHHHHHHSSCTTSHHHHHHHHHHHHHHHHHHHTTH
T ss_pred             CCHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHccc
Confidence            9999999999998 9999999999999999999999999999999999999999999998763

>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural genomics, NPPSFA; 2.50A {Homo sapiens}

Probab=99.59  E-value=3e-15  Score=127.91  Aligned_cols=62  Identities=24%  Similarity=0.419  Sum_probs=58.9

Q ss_pred             CCHHHHHHHhhCC-CCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENG-GKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G-~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||..+ ..|.++.+|..||+|||.||++||.+++.|+.+|..|+++|+++|.++.
T Consensus        60 mDL~tI~~kL~~~~~~Y~s~~ef~~Dv~Lif~Na~~yN~~~s~i~~~A~~L~~~f~~~~~~~~  122 (135)
T 2yyn_A           60 MDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNLY  122 (135)
T ss_dssp             CCHHHHHHHHHSSSCCCSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHS
T ss_pred             CCHHHHHHHHhccccCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999982 2899999999999999999999999999999999999999999999874

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

Probab=99.58  E-value=2.6e-15  Score=127.46  Aligned_cols=60  Identities=28%  Similarity=0.467  Sum_probs=58.2

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCC-CCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSK-GDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~p-gS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||++ ++.||.+|..|+++|++.|..+
T Consensus        62 mdl~tI~~kl~~~-~Y~~~~~f~~D~~li~~Na~~yN~~~~s~i~~~A~~L~~~f~~~~~~~  122 (135)
T 3mb3_A           62 MDFATVRETLEAG-NYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEEHISSV  122 (135)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHSCCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHhCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 9999999999999999999999998 9999999999999999999865

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

Probab=99.58  E-value=3.5e-15  Score=125.11  Aligned_cols=61  Identities=26%  Similarity=0.469  Sum_probs=58.6

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCC-CCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSK-GDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~p-gS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||..+ .|.++.+|+.||+|||.||++||++ ++.|+.+|..|+++|++.|.++.
T Consensus        51 mdL~tI~~kl~~~-~Y~~~~~f~~D~~li~~Na~~yN~~~~s~i~~~A~~L~~~f~~~~~~~~  112 (123)
T 3q2e_A           51 MDFGTVRETLDAG-NYDSPLEFCKDIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEEKMKKIS  112 (123)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHSCCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 9999999999999999999999996 99999999999999999999763

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

Probab=99.57  E-value=4.1e-15  Score=126.27  Aligned_cols=60  Identities=28%  Similarity=0.426  Sum_probs=58.2

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||++++.+|.+|..|++.|.+.|..+
T Consensus        54 mdL~tI~~kl~~~-~Y~~~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~~~~~~~~~  113 (135)
T 3rcw_A           54 MDFATMRKRLEAQ-GYKNLHEFEEDFDLIIDNCMKYNARDTVFYRAAVRLRDQGGVVLRQA  113 (135)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 99999999999999999999999999999999999999999999865

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

Probab=99.56  E-value=3.5e-15  Score=125.45  Aligned_cols=61  Identities=21%  Similarity=0.361  Sum_probs=58.5

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||++++.|+.+|..|.+.|.+.|.+..
T Consensus        54 mdL~tI~~kl~~~-~Y~~~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~~~~~~~~~~  114 (123)
T 3hme_A           54 MDFGTMKDKIVAN-EYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKILHAGFKMMSKER  114 (123)
T ss_dssp             CCHHHHHHHHHTT-CCCSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTCHHH
T ss_pred             CCHHHHHHHhccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 999999999999999999999999999999999999999999987654

>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=99.56  E-value=3.3e-15  Score=130.25  Aligned_cols=60  Identities=18%  Similarity=0.340  Sum_probs=58.2

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||+++ .|.++.+|..||+|||.||++||++++.|+.+|..|+++|+++|.++
T Consensus       113 mdL~tI~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~  172 (174)
T 2ri7_A          113 MDLATMEERVQRR-YYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGF  172 (174)
T ss_dssp             CCHHHHHHHHHTT-CCCBHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTTC
T ss_pred             CCHHHHHHHHHcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHhc
Confidence            8999999999998 99999999999999999999999999999999999999999998765

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

Probab=99.54  E-value=8.7e-15  Score=128.61  Aligned_cols=61  Identities=25%  Similarity=0.313  Sum_probs=58.9

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||..+ .|.++.+|+.||+|||.||++||++++.|+.+|..|.+.|.+.|.++.
T Consensus        71 MDL~tI~~kl~~~-~Y~s~~ef~~Dv~Lif~Na~~yN~~~s~i~~~A~~L~~~~~~~l~e~~  131 (158)
T 3uv4_A           71 MDLETIRKNISKH-KYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYD  131 (158)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHTH
T ss_pred             cCHHHHHHHHHcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 999999999999999999999999999999999999999999998753

>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=99.53  E-value=1.6e-14  Score=127.56  Aligned_cols=60  Identities=25%  Similarity=0.455  Sum_probs=58.1

Q ss_pred             CCHHHHHHHhhC--CCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLEN--GGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~--G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||..  + .|.++.+|+.||+|||.||++||++++.|+.+|..|+++|+++|.++
T Consensus       121 mdL~tI~~kl~~~~~-~Y~s~~ef~~Dv~li~~Na~~yN~~~s~v~~~a~~L~~~f~~~~~~~  182 (184)
T 3o36_A          121 MDLSTIKKRLQEDYS-MYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNL  182 (184)
T ss_dssp             CCHHHHHHHHHSTTC-SCCSHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHhcCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            999999999998  5 89999999999999999999999999999999999999999999876

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=99.52  E-value=1.1e-14  Score=130.62  Aligned_cols=62  Identities=16%  Similarity=0.183  Sum_probs=57.5

Q ss_pred             CCHHHHHHHhhCCC--CCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCC
Q 017098            1 MDFGTICSNLENGG--KYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGL   63 (377)
Q Consensus         1 MDLsTIKkKLe~G~--kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL   63 (377)
                      |||+||++||.++.  .|.++.+|+.||+|||.||++|| +++.|+.+|..|+++|+++|.++..
T Consensus       115 MDL~tIk~kL~~~~~~~Y~s~~eF~~Dv~Lif~N~~~yN-~~s~~~~~a~~L~~~Fe~~~~~~~~  178 (189)
T 2ro1_A          115 LDLTLIRARLQEKLSPPYSSPQEFAQDVGRMFKQFNKLT-EDKADVQSIIGLQRFFETRMNEAFG  178 (189)
T ss_dssp             CCHHHHHHHHHTSSSSCCSCHHHHHHHHHHHHHHHHHHC-CSSCSSHHHHHHHHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHhcCCCcccCCHHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHhcC
Confidence            99999999999942  89999999999999999999999 5888899999999999999998753

>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=99.44  E-value=1.4e-13  Score=128.32  Aligned_cols=61  Identities=25%  Similarity=0.313  Sum_probs=58.9

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||++++.||.+|..|++.|.+.|.++.
T Consensus       178 mdl~tI~~kl~~~-~Y~~~~~f~~D~~lif~Na~~yN~~~s~~~~~A~~l~~~~~~~~~~~~  238 (265)
T 3uv5_A          178 MDLETIRKNISKH-KYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYD  238 (265)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHHHHHTH
T ss_pred             ccHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 999999999999999999999999999999999999999999998753

>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=99.43  E-value=1.3e-13  Score=132.31  Aligned_cols=60  Identities=22%  Similarity=0.315  Sum_probs=58.5

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||.++|.||.+|..|+++|+++|.+.
T Consensus       204 MDL~tI~~kl~~~-~Y~s~~ef~~Dv~Lif~N~~~yN~~~s~i~~~A~~L~~~f~~~~~~~  263 (311)
T 2r0y_A          204 MALSIVKQNLEIG-QYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKE  263 (311)
T ss_dssp             CCHHHHHHHHHHT-CCCBHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHT
T ss_pred             cCHHHHHHHHHcC-CCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999998 99999999999999999999999999999999999999999999874

>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=99.42  E-value=1.8e-13  Score=133.31  Aligned_cols=60  Identities=22%  Similarity=0.315  Sum_probs=58.5

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||.+++.||.+|..|+++|+++|.+.
T Consensus       254 mDL~tI~~kl~~~-~Y~s~~ef~~Dv~Lif~N~~~yN~~~s~i~~~A~~L~~~f~~~~~~~  313 (361)
T 2r10_A          254 MALSIVKQNLEIG-QYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKE  313 (361)
T ss_dssp             CCHHHHHHHHHHT-CCCBHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHT
T ss_pred             ccHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999998 99999999999999999999999999999999999999999999874

>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=99.41  E-value=4e-13  Score=113.70  Aligned_cols=58  Identities=21%  Similarity=0.339  Sum_probs=53.9

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHH----HHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYI----LDLMKRVKKNFMKLWM   59 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~I----y~~Ak~LEk~FeK~~k   59 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||++++.+    +..|..|+..|...+.
T Consensus        51 mdL~tI~~kl~~~-~Y~~~~~f~~D~~li~~Na~~yN~~~s~~~~~i~~~A~~L~~~~~~~i~  112 (130)
T 3dai_A           51 MDLSSVISKIDLH-KYLTVKDYLRDIDLICSNALEYNPDRDPGDRLIRHRACALRDTAYAIIK  112 (130)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHCCSSSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHhCC-CCCCHHHHHHHHHHHHHHHHHHCCCCChhHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 99999999999999999999999999866    6888899988888775

>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=99.40  E-value=3.1e-13  Score=126.07  Aligned_cols=60  Identities=18%  Similarity=0.250  Sum_probs=58.5

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||..+ .|.++.+|+.||+|||.||++||++++.|+.+|..|.++|.+.|.++
T Consensus        55 mdL~tI~~kl~~~-~Y~~~~~f~~D~~li~~Na~~yN~~~s~i~~~A~~l~~~~~~~~~~~  114 (265)
T 3uv5_A           55 MDLQTLRENVRKR-LYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEK  114 (265)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHcC-CCCCHHHHHHHHHHHHhhhhhcCCCCChHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 99999999999999999999999999999999999999999999875

>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.40  E-value=3.9e-13  Score=114.87  Aligned_cols=58  Identities=24%  Similarity=0.421  Sum_probs=54.1

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCH----HHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDY----ILDLMKRVKKNFMKLWM   59 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~----Iy~~Ak~LEk~FeK~~k   59 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||+++|.    |+..|..|+..|...++
T Consensus        48 mDL~tI~~kl~~~-~Y~s~~~f~~D~~Li~~Na~~yN~~~s~~~~~i~~~A~~L~~~~~~~l~  109 (131)
T 2dkw_A           48 MDLSTVITKIDKH-NYLTAKDFLKDIDLICSNALEYNPDKDPGDKIIRHRACTLKDTAHAIIA  109 (131)
T ss_dssp             CCHHHHHHHHHTT-CCCSSHHHHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHCCCCChhHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 9999999999999999999999999984    57889999999988775

>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=99.40  E-value=3.2e-13  Score=128.05  Aligned_cols=60  Identities=25%  Similarity=0.318  Sum_probs=58.3

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||..+ .|.++.+|..||+|||.||++||++++.||.+|..|++.|.+.|..+
T Consensus       211 mdL~tI~~kl~~~-~Y~s~~~f~~D~~Li~~Na~~yN~~~s~i~~~A~~L~~~~~~~~~~~  270 (292)
T 3aad_A          211 MDLETIRKNISKH-KYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEY  270 (292)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999998 99999999999999999999999999999999999999999998865

>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=99.39  E-value=3.3e-13  Score=121.58  Aligned_cols=61  Identities=25%  Similarity=0.394  Sum_probs=58.4

Q ss_pred             CCHHHHHHHhhC---CCCCCCHHHHHHHHHHHHhhhhccCC-----------------CCCHHHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLEN---GGKYMNSEDVYKDVEYIWENCNKYNS-----------------KGDYILDLMKRVKKNFMKLWMA   60 (377)
Q Consensus         1 MDLsTIKkKLe~---G~kYkSveEF~sDVrLIFsNC~kYN~-----------------pgS~Iy~~Ak~LEk~FeK~~kk   60 (377)
                      |||+||++||.+   + .|.++.+|..||+|||.||++||.                 +++.|+.+|..|+.+|+++|.+
T Consensus       121 mdL~tI~~kl~~~~~~-~Y~s~~~f~~Dv~li~~Na~~yN~~~s~v~~~A~~l~~~~~~~s~i~~~a~~L~~~fe~~~~~  199 (207)
T 3u5n_A          121 MDLSTVKKKLQKKHSQ-HYQIPDDFVADVRLIFKNCERFNEMMKVVQVYADTQEINLKADSEVAQAGKAVALYFEDKLTE  199 (207)
T ss_dssp             CCHHHHHHHHSTTSTT-CCSSHHHHHHHHHHHHHHHHHHHHHHHHHC----------CCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHhcccCC-CcCCHHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHhcccccCHHHHHHHHHHHHHHHHHHH
Confidence            999999999997   5 999999999999999999999999                 9999999999999999999997


Q ss_pred             cC
Q 017098           61 AG   62 (377)
Q Consensus        61 ig   62 (377)
                      +-
T Consensus       200 ~~  201 (207)
T 3u5n_A          200 IY  201 (207)
T ss_dssp             HS
T ss_pred             hC
Confidence            63

>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=99.31  E-value=7.9e-13  Score=125.37  Aligned_cols=60  Identities=18%  Similarity=0.250  Sum_probs=57.5

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||+++ .|.++.+|..||+|||.||++||++++.|+.+|..|.++|.+.|.++
T Consensus        88 mDL~tIk~kl~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~i~~~A~~L~~~~~~~~~~~  147 (292)
T 3aad_A           88 MDLQTLRENVRKR-LYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEK  147 (292)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHTCSSSHHHHHHTHHHHTTTTTGGGS
T ss_pred             CCHHHHHHHhhCC-CcCCHHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHhhhhcc
Confidence            9999999999998 99999999999999999999999999999999999999999887654

>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=99.24  E-value=1.4e-11  Score=108.60  Aligned_cols=60  Identities=18%  Similarity=0.272  Sum_probs=57.9

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |+|.+|++||..+ .|.++++|..||.|||.||++||.+||.||..|..|+++|.+.+.++
T Consensus        50 i~l~~Ikkri~~~-~Y~sld~f~~D~~lmf~NAr~yN~e~S~IyeDAv~Lq~~f~~~r~eL  109 (147)
T 3iu6_A           50 LTFDIIRKNVENN-RYRRLDLFQEHMFEVLERARRMNRTDSEIYEDAVELQQFFIKIRDEL  109 (147)
T ss_dssp             CCHHHHHHHHHTT-CCCCHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            7999999999998 99999999999999999999999999999999999999999988765

>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=99.24  E-value=6.4e-12  Score=120.67  Aligned_cols=58  Identities=24%  Similarity=0.246  Sum_probs=54.2

Q ss_pred             CCHHHHHHHhhCCCCCC-CHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYM-NSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYk-SveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||  + .|. ++.+|..||+|||.||++||.+++.|+.+|..|+++|.+.|.+.
T Consensus        71 mDL~tI~~kl--~-~y~~s~~~f~~D~~li~~Na~~yN~~~s~i~~~A~~l~~~~~~~~~k~  129 (311)
T 2r0y_A           71 MSINEIKSRD--Y-EYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVMLIEFEVLKA  129 (311)
T ss_dssp             CCHHHHHHSC--C-CSTTHHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHH--h-cccCCHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHhhc
Confidence            9999999999  3 444 89999999999999999999999999999999999999999865

>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=99.21  E-value=7.8e-12  Score=121.82  Aligned_cols=59  Identities=22%  Similarity=0.154  Sum_probs=54.2

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||  +.+|.++.+|..||+|||.||++||.+++.|+.+|..|+++|.+.|.+.
T Consensus       121 mdl~tI~~kl--~~y~~~~~~f~~D~~li~~Na~~yN~~~s~i~~~a~~l~~~~~~~~~k~  179 (361)
T 2r10_A          121 MSINEIKSRD--YEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVMLIEFEVLKA  179 (361)
T ss_dssp             CCHHHHHTSC--CCSTTHHHHHHHHHHHHHHHHHHHBCSSSHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHh--hccCCCHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhhc
Confidence            9999999999  3134489999999999999999999999999999999999999999865

>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=99.18  E-value=3.6e-11  Score=108.64  Aligned_cols=64  Identities=14%  Similarity=0.166  Sum_probs=60.9

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCCC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYT   65 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~~   65 (377)
                      |||.||++||+.+ .|.++.+|+.||.|||.||.+||.+.+.+..++..|+.+|.+++.++-+|-
T Consensus       105 mDL~~i~kKl~~~-~Y~s~~eF~~Dv~lIf~n~~~~~~~~~e~~~ag~~l~~~f~~~l~~vfpwf  168 (183)
T 3lqh_A          105 LDLEGVKRKMDQG-NYTSVLEFSDDIVKIIQAAINSDGGQPEIKKANSMVKSFFIRQMERVFPWF  168 (183)
T ss_dssp             CSHHHHHHHHHTT-CCCCHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHHHHCTTS
T ss_pred             ccHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHhhccCCChhhhhhhhHHHHHHHHHHHHHCCCC
Confidence            9999999999998 999999999999999999999999999999999999999999999875554

---

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	377
d3dwya1	114	a.29.2.1 (A:1084-1197) CREB-binding protein, CBP {	9e-09
d1eqfa1	139	a.29.2.1 (A:1359-1497) TAFII250 double bromodomain	1e-07
d1eqfa2	128	a.29.2.1 (A:1498-1625) TAFII250 double bromodomain	1e-07
d1wuma1	118	a.29.2.1 (A:715-832) P300/CAF histone acetyltransf	5e-07
d3d7ca1	102	a.29.2.1 (A:731-832) GCN5 {Human (Homo sapiens) [T	1e-06
d1e6ia_	111	a.29.2.1 (A:) GCN5 {Baker's yeast (Saccharomyces c	2e-06

>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 = 50.7 bits (121), Expect = 9e-09
 Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 1/58 (1%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58
           MD  TI   L+ G +Y        DV  ++ N   YN K   +     ++ + F +  
Sbjct: 50  MDLSTIKRKLDTG-QYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEI 106

>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 = 48.4 bits (115), Expect = 1e-07
 Identities = 11/58 (18%), Positives = 23/58 (39%), Gaps = 1/58 (1%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58
           MD  T+  N+     Y + E+  + +E I +N   YN     +  + + +     +  
Sbjct: 67  MDLQTLRENVRKR-LYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKL 123

>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 = 47.7 bits (113), Expect = 1e-07
 Identities = 13/58 (22%), Positives = 17/58 (29%), Gaps = 1/58 (1%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58
           MD  TI  N+         E    DV  I  N  KYN          + +     +  
Sbjct: 51  MDLETIRKNISKHKYQSR-ESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTL 107

>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 = 46.2 bits (109), Expect = 5e-07
 Identities = 16/63 (25%), Positives = 28/63 (44%), Gaps = 1/63 (1%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA 60
           MD  T+   L+N   Y++ +    D++ ++ NC +YN            ++K F      
Sbjct: 54  MDLKTMSERLKNR-YYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIKE 112

Query: 61  AGL 63
           AGL
Sbjct: 113 AGL 115

>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 = 44.2 bits (104), Expect = 1e-06
 Identities = 11/58 (18%), Positives = 22/58 (37%), Gaps = 1/58 (1%)

Query: 1  MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58
          +D  T+   L +   Y+  +    D++ +  NC +YN            ++K F    
Sbjct: 43 IDLKTMTERLRSR-YYVTRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFKL 99

>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 = 44.2 bits (104), Expect = 2e-06
 Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 1/58 (1%)

Query: 1   MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58
           MD  T+   LE+  KY   ED   D   ++ NC  YN +         R++K F    
Sbjct: 44  MDLSTMEIKLESN-KYQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKV 100

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	377
d3d7ca1	102	GCN5 {Human (Homo sapiens) [TaxId: 9606]}	99.6
d1wuma1	118	P300/CAF histone acetyltransferase bromodomain {Hu	99.59
d1e6ia_	111	GCN5 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.58
d3dwya1	114	CREB-binding protein, CBP {Human (Homo sapiens) [T	99.56
d1eqfa1	139	TAFII250 double bromodomain module {Human (Homo sa	99.54
d1eqfa2	128	TAFII250 double bromodomain module {Human (Homo sa	99.51

>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=99.60  E-value=7.7e-16  Score=123.61  Aligned_cols=59  Identities=19%  Similarity=0.294  Sum_probs=57.3

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHH
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA   60 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kk   60 (377)
                      |||+||++||.++ .|.|+.+|..||+|||.||++||+++|.++.+|..|+++|.++|++
T Consensus        43 mdL~tI~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~l~~~f~~~~ke  101 (102)
T d3d7ca1          43 IDLKTMTERLRSR-YYVTRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFKLKE  101 (102)
T ss_dssp             CCHHHHHHHHHTT-CCCSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHhccC-ccCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhc
Confidence            8999999999998 9999999999999999999999999999999999999999998874

>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=99.59  E-value=7e-16  Score=126.91  Aligned_cols=63  Identities=25%  Similarity=0.435  Sum_probs=61.4

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLY   64 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~   64 (377)
                      |||+||++||.++ .|.++.+|..||+|||.||++||++++.++.+|..|+++|.+.|+++++.
T Consensus        54 mdL~~I~~kl~~~-~Y~s~~ef~~Dv~li~~Na~~yn~~~s~~~~~A~~l~~~f~~~~~e~~l~  116 (118)
T d1wuma1          54 MDLKTMSERLKNR-YYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIKEAGLI  116 (118)
T ss_dssp             CCHHHHHHHHTTT-CCCSSHHHHHHHHHHHHHHHHHSCTTSSHHHHHHHHHHHHHHHHHHHTCC
T ss_pred             hhHHHHHHHhccc-ccCchHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHcccc
Confidence            8999999999998 99999999999999999999999999999999999999999999998875

>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=99.58  E-value=1.1e-15  Score=124.24  Aligned_cols=61  Identities=28%  Similarity=0.437  Sum_probs=59.1

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG   62 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig   62 (377)
                      |||+||++||.++ .|.|+.+|+.||+|||.||++||++++.++.+|..|+++|+++|.++.
T Consensus        44 mdL~tI~~kl~~~-~Y~s~~~f~~Dv~li~~Na~~yN~~~s~i~~~A~~l~~~f~~~~~~ip  104 (111)
T d1e6ia_          44 MDLSTMEIKLESN-KYQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEIP  104 (111)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHTSG
T ss_pred             hhHHHHHHHHHcc-ccchHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHhh
Confidence            8999999999998 999999999999999999999999999999999999999999998764

>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=99.56  E-value=3e-15  Score=122.23  Aligned_cols=60  Identities=23%  Similarity=0.350  Sum_probs=57.9

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||.++ .|.|+.+|..||+|||.||++||++++.++.+|..|++.|++.+.++
T Consensus        50 mdL~tI~~kl~~~-~Y~s~~ef~~Dv~li~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~i  109 (114)
T d3dwya1          50 MDLSTIKRKLDTG-QYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPV  109 (114)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHcC-ccccHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 99999999999999999999999999999999999999999988754

>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=99.54  E-value=5.9e-15  Score=124.56  Aligned_cols=60  Identities=18%  Similarity=0.250  Sum_probs=58.4

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||.++ .|.|+.+|..||+|||.||++||++++.|+.+|..|.++|+++|.++
T Consensus        67 mdL~tI~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~i~~~A~~L~~~~~~~~~~~  126 (139)
T d1eqfa1          67 MDLQTLRENVRKR-LYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEK  126 (139)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHcC-CcCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999998 99999999999999999999999999999999999999999999865

>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=99.51  E-value=1.1e-14  Score=121.58  Aligned_cols=60  Identities=25%  Similarity=0.318  Sum_probs=58.3

Q ss_pred             CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098            1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA   61 (377)
Q Consensus         1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki   61 (377)
                      |||+||++||.++ .|.|+.+|+.||+|||.||+.||++++.++.+|..|.+.|.+.+.++
T Consensus        51 mDL~tI~~kl~~~-~Y~s~~ef~~Dv~li~~Na~~yN~~~s~i~~~A~~L~~~~~~~l~~~  110 (128)
T d1eqfa2          51 MDLETIRKNISKH-KYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEY  110 (128)
T ss_dssp             CCHHHHHHHHHTT-CCSSHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHT
T ss_pred             ccHHHHHHHHHhh-ccccHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            8999999999998 99999999999999999999999999999999999999999998865