Citrus Sinensis ID: 010122

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------
MFGCILTQKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSDVTLASGAENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDEVSLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVGLPSSSQPSLIPENLSSASTHSTIELKGDKLTERPEAEDSSEKPGPSTQSSLDGHFKKPNTSSLLVVNRFSEPAKEKAEIIEGLKSQLNLVNSSMGAINTRPPFQIHQNSVIRPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPVTASSLNSDDPKLDCSRSLQNLESLGSAPSLPGNHQPTWQVSPHPKPDLGLTPQQKPDAVPPDLNVRFRSPGSPNSSRVDSTQPDLALQL
ccccccccccEEEEEcccccccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccHHHHHHHHHHHHHcHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
cccEEEEcccEEEEEcccHHccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccEEEcccccccccccccccccccHHHHcccccccEEEccccHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHcccccccccccccccccccccccccccccHccccccccccccccccccccccHHHcccccccccccccccccccHHHHccccccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccEEEEcccccccccccccccccEEcc
MFGCILTQKDVFLICSNamqynapdtiyFRQARSIHELAKKNFENlrqdsddnepetkvvrrgrpptknfkkplgrpslerarsdfssdvtlasgaentaltnrdlgngtphleksgftdssrrfsgswndlytgclaenklerndevslskgysmkhgkkqvvldenrrNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERclpagvrfgpgwvvendlapqrplllssatvglpsssqpslipenlssasthstielkgdklterpeaedssekpgpstqssldghfkkpntssllvvnrfsepakEKAEIIEGLKSQLNLVNssmgaintrppfqihqnsvirpgmngfngtygfnmpsqmgkligaagpagfsfqspqmvdrisrtdtnfvqpvtasslnsddpkldcSRSLQnleslgsapslpgnhqptwqvsphpkpdlgltpqqkpdavppdlnvrfrspgspnssrvdstqpdlalql
MFGCILTQKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNfenlrqdsddnepetkvvrrgrpptknfkkplgrpslerarsdfssdvtlasgaentaltnrdlgngtphleksgftdssrrfSGSWNDLYTGCLAENKLERNDEVslskgysmkhgkkqvvldenRRNTYKQFhqslressvltTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVGLPSSSQPslipenlssasthstielkgdklterpeaedssekpgpstqssldghfkkpnTSSLLVVNRFSEPAKEKAEIIEGLKSQLNLVNSSMGAINTRPPFQIHQNSVIRPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPvtasslnsddpkLDCSRSLQNLESLGSAPSLPGNHQPTWQVSPHPKPDLGLTPQQKPDAVPPDLNVRfrspgspnssrvdstqpdlalql
MFGCILTQKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSDVTLASGAENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDEVSLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVGLPSSSQPSLIPENLSSASTHSTIELKGDKLTERPEAEDSSEKPGPSTQSSLDGHFKKPNTSSLLVVNRFSEPAKEKAEIIEGLKSQLNLVNSSMGAINTRPPFQIHQNSVIRPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPVTASSLNSDDPKLDCSRSLQNLESLGSAPSLPGNHQPTWQVSPHPKPDLGLTPQQKPDAVPPDLNVRFRSPGSPNSSRVDSTQPDLALQL
***************************YF*************************************************************************************************GSWNDLYTGCLAE*********************************************VLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLL**************************************************************************************I**L***LNLVN**MGAINTRPPFQIHQNSVIRPGMNGFNGTYGFNMPSQMGKLIGAAG*******************************************************************************************************************
**GCILTQKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNF************************************************************************************************************************VLDENRRNT***************TFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWV*************************************************************************************************************************************************************************************************************************************************************************PDLALQL
MFGCILTQKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQD***********RRGRPPTKNFKKPLGRPSLERARSDFSSDVTLASGAENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDEVSLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSAT**********************STIELKGDKL**********************GHFKKPNTSSLLVVNRFSEPAKEKAEIIEGLKSQLNLVNSSMGAINTRPPFQIHQNSVIRPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPVTASSLNSDDPKLDCSRSLQNLESLGSAPSLPGNHQPTWQVSPHPKPDLGLTPQQKPDAVPPDLNVRFRS********************
MFGCILTQKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLR********************************************************************************************************KGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLL***************************************************************************************************************************FNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRI*******************************************************************DAVPPDLNVRFRSP*************D*****
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MFGCILTQKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPTKNFKKPLGRPSLERARSDFSSDVTLASGAENTALTNRDLGNGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLERNDEVSLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFGPGWVVENDLAPQRPLLLSSATVGLPSSSQPSLIPENLSSASTHSTIELKGDKLTERPEAEDSSEKPGPSTQSSLDGHFKKPNTSSLLVVNRFSEPAKEKAEIIEGLKSQLNLVNSSMGAINTRPPFQIHQNSVIRPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSPQMVDRISRTDTNFVQPVTASSLNSDDPKLDCSRSLQNLESLGSAPSLPGNHQPTWQVSPHPKPDLGLTPQQKPDAVPPDLNVRFRSPGSPNSSRVDSTQPDLALQL
no confident homologs detected

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 ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query517
225428300 750 PREDICTED: uncharacterized protein LOC10 0.951 0.656 0.562 1e-143
255559820 767 bromodomain-containing protein [Ricinus 0.955 0.644 0.562 1e-139
224102791 758 bromodomain protein [Populus trichocarpa 0.961 0.655 0.520 1e-135
449454289 776 PREDICTED: uncharacterized protein LOC10 0.976 0.650 0.482 1e-109
449528661 622 PREDICTED: LOW QUALITY PROTEIN: uncharac 0.976 0.811 0.480 1e-109
297744477 4608 unnamed protein product [Vitis vinifera] 0.570 0.064 0.618 1e-89
359491912 691 PREDICTED: uncharacterized protein LOC10 0.866 0.648 0.428 2e-89
147814821 688 hypothetical protein VITISV_012026 [Viti 0.866 0.651 0.428 3e-89
224132440546 bromodomain protein [Populus trichocarpa 0.444 0.421 0.621 6e-80
297745559 634 unnamed protein product [Vitis vinifera] 0.644 0.525 0.454 9e-77
>gi|225428300|ref|XP_002279830.1| PREDICTED: uncharacterized protein LOC100245230 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  516 bits (1328), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 298/530 (56%), Positives = 360/530 (67%), Gaps = 38/530 (7%)

Query: 8   QKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPETKVVRRGRPPT 67
           +KDVFLICSNAMQYNAPDTIYF+QARSI ELAKKNFENLRQDSDDNEPE K  RRGRPPT
Sbjct: 239 EKDVFLICSNAMQYNAPDTIYFKQARSIQELAKKNFENLRQDSDDNEPEPK--RRGRPPT 296

Query: 68  KNFKKPLGRPSLERARSDFSSDVTLASGAENTALTNRDLGNGTPHLEKSGFTDS-SRRFS 126
           KN KKPLGRPSLER  S+FSSD TLA+G ENT  +N DL  G    +KSG  DS  R   
Sbjct: 297 KNIKKPLGRPSLERPGSEFSSDATLATGGENTMWSNHDLRKGALISDKSGPADSFGRSLH 356

Query: 127 GS-WNDLYTGCLAENKLERNDEV--SLSKGYSMKHGKKQVVLDENRRNTYKQFHQSL--R 181
           G+ ++D  TG  A+ KLER+DE   S+ KG S+KH KK  VLDENRRNTYKQ       R
Sbjct: 357 GTRYSDGNTGWSADQKLERHDEFTGSILKGISLKHAKKPFVLDENRRNTYKQSSSIAVGR 416

Query: 182 ESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVRFG 241
           E SVLTTFD +KKQLM VGL++E+GY RSLARFA+NLGPVAWKIAA++IE+ LP GV+FG
Sbjct: 417 EPSVLTTFDGEKKQLMPVGLNAEYGYARSLARFASNLGPVAWKIAAKKIEKSLPPGVKFG 476

Query: 242 PGWVVENDLAPQRPLLLSSATVGLPSSSQPS-LIPENLSSASTHSTIELKGDKLTERPEA 300
           PGWV END+ P +PL + S+T   P SS P   IP ++ S     + +  G  L ER   
Sbjct: 477 PGWVGENDVIPPKPLFVPSST---PLSSLPGDSIPCSMDSQEDKPSQKTGGIGLPERNVL 533

Query: 301 EDSSEKPGPSTQSSLDGHFKKPNTSS------LLVVNRFSEPAKEKAEIIEGLKSQ--LN 352
                    S +++L  H  K   +S      +   N+ S P+    E   GL +Q   +
Sbjct: 534 ---------SARAALANHPGKSLLTSAAASPLINTANKASGPSSGSTEASIGLNAQSGFS 584

Query: 353 LVNSSMGAINTRPPFQIHQN-SVIRPGMNGFNGTYGFNMPSQMGKLIGAAGPAGFSFQSP 411
           ++NSS GA+  RPPFQIHQ  + + PGMNGFNG YGFN+P+QMGK +GAA P GF+ Q+P
Sbjct: 585 ILNSSAGAVRPRPPFQIHQGPTALHPGMNGFNGAYGFNIPTQMGKPMGAARPTGFNLQAP 644

Query: 412 QMVDRISRTDTNFVQPVTASSLNSDDPKLDCSRSLQNLESLGSAPSLP---GNHQPTWQV 468
           QM+D ISRT  NF  P   ++L  +DPK     +  N     S+P LP   G      +V
Sbjct: 645 QMLDAISRTTPNFGHPGMGNNLTPEDPKFLEKSTTTN----SSSPLLPHPGGEAAAAPRV 700

Query: 469 SPHPKPDL-GLTPQQKPDAVPPDLNVRFRSPGSPNSSRVDSTQPDLALQL 517
            PHP+P   GL PQQ+ D+VPPDLNVRF+SPGSP+SS+VDSTQPDLALQL
Sbjct: 701 GPHPQPSWPGLPPQQRQDSVPPDLNVRFQSPGSPSSSKVDSTQPDLALQL 750

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255559820|ref|XP_002520929.1| bromodomain-containing protein [Ricinus communis] gi|223539895|gb|EEF41474.1| bromodomain-containing protein [Ricinus communis] Back     alignment and taxonomy information
>gi|224102791|ref|XP_002312802.1| bromodomain protein [Populus trichocarpa] gi|222849210|gb|EEE86757.1| bromodomain protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449454289|ref|XP_004144888.1| PREDICTED: uncharacterized protein LOC101218234 [Cucumis sativus] gi|449473925|ref|XP_004154023.1| PREDICTED: uncharacterized protein LOC101210731 [Cucumis sativus] Back     alignment and taxonomy information
>gi|449528661|ref|XP_004171322.1| PREDICTED: LOW QUALITY PROTEIN: uncharacterized LOC101210731, partial [Cucumis sativus] Back     alignment and taxonomy information
>gi|297744477|emb|CBI37739.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|359491912|ref|XP_002272566.2| PREDICTED: uncharacterized protein LOC100244510 [Vitis vinifera] Back     alignment and taxonomy information
>gi|147814821|emb|CAN74748.1| hypothetical protein VITISV_012026 [Vitis vinifera] Back     alignment and taxonomy information
>gi|224132440|ref|XP_002328271.1| bromodomain protein [Populus trichocarpa] gi|222837786|gb|EEE76151.1| bromodomain protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|297745559|emb|CBI40724.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query517
TAIR|locus:2030422652 AT1G20670 "AT1G20670" [Arabido 0.591 0.469 0.399 5.4e-59
TAIR|locus:2014594580 AT1G76380 "AT1G76380" [Arabido 0.470 0.418 0.458 1.3e-57
TAIR|locus:2151948 916 AT5G55040 "AT5G55040" [Arabido 0.547 0.308 0.406 1.5e-56
TAIR|locus:2030422 AT1G20670 "AT1G20670" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 536 (193.7 bits), Expect = 5.4e-59, Sum P(2) = 5.4e-59
 Identities = 133/333 (39%), Positives = 192/333 (57%)

Query:     8 QKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPET--------KV 59
             ++DVFLIC+NAM+YN+ DT+Y+RQAR+I ELAKK+FENLRQDSDD EP++        KV
Sbjct:   237 ERDVFLICTNAMEYNSADTVYYRQARAIQELAKKDFENLRQDSDDEEPQSQQQQQQQPKV 296

Query:    60 VRRGRPPTKNFKKPLGRPSLERARSDFSSDVTLASGAENTALTNRDLGNGTPHLEKSGFT 119
              RRGRPP K+  +P    S++R  S+ S+D  +   + N      +L    P   K    
Sbjct:   297 ARRGRPPKKH-PEP---SSIDRTASEISADALIPGDSSNKFSGAYNLRKAPPSY-KFRQA 351

Query:   120 DSSRRFSGSWNDLYTGCLAENKLERNDEVSLSKGYSMKHGKKQVVLDENRRNTYKQFHQS 179
             +SS R + + ++  +G   +   E     S+ K  + K+G K   +D+NRR+TY     S
Sbjct:   352 ESSVRINHN-SETQSGWSVD--WESEFPSSVVKAVN-KYGMKHFNVDDNRRDTYNHLSTS 407

Query:   180 LRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKIAARRIERCLPAGVR 239
              +E SVLTT + + KQL+ VGL+ E+GY +SLAR+AANLGPVAWKIA+RRIE  LP+G++
Sbjct:   408 TQEPSVLTTLEDELKQLIPVGLNMEYGYAKSLARYAANLGPVAWKIASRRIETVLPSGIK 467

Query:   240 FGPGWVVENDLAPQRP------LLLSSATVGLPSSSQPSLIPENLSSASTHSTIELKGDK 293
             FG GWV EN   P+        +L+SS   G    S   L  ++ S+     T  +    
Sbjct:   468 FGQGWVGENPAGPEEDDSQKQNILMSS---GKQKCSN-DLASDDHSNRILSPTASVSSAF 523

Query:   294 LTERPEAEDSSEKPGPSTQSSLDGHFKKPNTSS 326
             +  R  +  + E+  P     L+     P++SS
Sbjct:   524 IGNRHASSQAIEETTPPPARVLNPEIDHPSSSS 556
GO:0003677 "DNA binding" evidence=ISS
GO:0005634 "nucleus" evidence=ISM
GO:0008150 "biological_process" evidence=ND
TAIR|locus:2014594 AT1G76380 "AT1G76380" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2151948 AT5G55040 "AT5G55040" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms

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

Your Input:
GSVIVG00036274001
SubName- Full=Chromosome chr3 scaffold_8, whole genome shotgun sequence; (602 aa)
(Vitis vinifera)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query517
cd0551398 cd05513, Bromo_brd7_like, Bromodomain, brd7_like s 7e-06
cd0436999 cd04369, Bromodomain, Bromodomain 9e-06
smart00297107 smart00297, BROMO, bromo domain 1e-04
cd05509101 cd05509, Bromo_gcn5_like, Bromodomain; Gcn5_like s 5e-04
>gnl|CDD|99945 cd05513, Bromo_brd7_like, Bromodomain, brd7_like subgroup Back     alignment and domain information 
 Score = 44.3 bits (105), Expect = 7e-06
 Identities = 14/28 (50%), Positives = 21/28 (75%)

Query: 8  QKDVFLICSNAMQYNAPDTIYFRQARSI 35
          + D  L+C NAM+YN PDTIY++ A+ +
Sbjct: 63 KDDFKLMCENAMKYNKPDTIYYKAAKKL 90

The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene involved in nasopharyngeal carcinoma. The protein interacts with acetylated histone H3 via its bromodomain. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. Length = 98
>gnl|CDD|99922 cd04369, Bromodomain, Bromodomain Back     alignment and domain information
>gnl|CDD|197636 smart00297, BROMO, bromo domain Back     alignment and domain information
>gnl|CDD|99941 cd05509, Bromo_gcn5_like, Bromodomain; Gcn5_like subfamily Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 517
KOG09551051 consensus PHD finger protein BR140/LIN-49 [General 99.73
cd0551398 Bromo_brd7_like Bromodomain, brd7_like subgroup. T 98.92
cd0551298 Bromo_brd1_like Bromodomain; brd1_like subfamily. 98.84
cd05492109 Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family 98.62
cd05507104 Bromo_brd8_like Bromodomain, brd8_like subgroup. I 98.59
cd05510112 Bromo_SPT7_like Bromodomain; SPT7_like subfamily. 98.57
cd05511112 Bromo_TFIID Bromodomain, TFIID-like subfamily. Hum 98.54
cd05509101 Bromo_gcn5_like Bromodomain; Gcn5_like subfamily. 98.51
cd05524113 Bromo_polybromo_I Bromodomain, polybromo repeat I. 98.49
cd0550899 Bromo_RACK7 Bromodomain, RACK7_like subfamily. RAC 98.48
cd05504115 Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_li 98.46
cd05497107 Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily 98.4
cd05495108 Bromo_cbp_like Bromodomain, cbp_like subfamily. Cb 98.4
smart00297107 BROMO bromo domain. 98.4
cd05529128 Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like 98.37
cd05520103 Bromo_polybromo_III Bromodomain, polybromo repeat 98.36
cd05516107 Bromo_SNF2L2 Bromodomain, SNF2L2-like subfamily, s 98.35
cd05501102 Bromo_SP100C_like Bromodomain, SP100C_like subfami 98.33
cd05502109 Bromo_tif1_like Bromodomain; tif1_like subfamily. 98.32
cd05519103 Bromo_SNF2 Bromodomain, SNF2-like subfamily, speci 98.3
cd0436999 Bromodomain Bromodomain. Bromodomains are found in 98.27
cd05525106 Bromo_ASH1 Bromodomain; ASH1_like sub-family. ASH1 98.27
cd0550597 Bromo_WSTF_like Bromodomain; Williams syndrome tra 98.27
cd05518103 Bromo_polybromo_IV Bromodomain, polybromo repeat I 98.27
PF0043984 Bromodomain: Bromodomain; InterPro: IPR001487 Brom 98.26
cd05528112 Bromo_AAA Bromodomain; sub-family co-occurring wit 98.25
cd05515105 Bromo_polybromo_V Bromodomain, polybromo repeat V. 98.25
cd0550397 Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like s 98.21
cd05521106 Bromo_Rsc1_2_I Bromodomain, repeat I in Rsc1/2_lik 98.21
cd05517103 Bromo_polybromo_II Bromodomain, polybromo repeat I 98.19
cd05499102 Bromo_BDF1_2_II Bromodomain. BDF1/BDF2 like subfam 98.17
cd05498102 Bromo_Brdt_II_like Bromodomain, Brdt_like subfamil 98.17
cd05500103 Bromo_BDF1_2_I Bromodomain. BDF1/BDF2 like subfami 98.16
cd0550699 Bromo_plant1 Bromodomain, uncharacterized subfamil 98.14
cd05526110 Bromo_polybromo_VI Bromodomain, polybromo repeat V 98.07
cd05522104 Bromo_Rsc1_2_II Bromodomain, repeat II in Rsc1/2_l 98.05
cd05496119 Bromo_WDR9_II Bromodomain; WDR9 repeat II_like sub 98.02
KOG1474640 consensus Transcription initiation factor TFIID, s 97.84
KOG1828418 consensus IRF-2-binding protein CELTIX-1, contains 97.42
COG5076371 Transcription factor involved in chromatin remodel 97.37
cd05491119 Bromo_TBP7_like Bromodomain; TBP7_like subfamily, 96.7
PF12024245 DUF3512: Domain of unknown function (DUF3512); Int 96.09
KOG1828418 consensus IRF-2-binding protein CELTIX-1, contains 95.98
KOG1827629 consensus Chromatin remodeling complex RSC, subuni 92.08
KOG00081563 consensus Transcription initiation factor TFIID, s 91.62
KOG1472720 consensus Histone acetyltransferase SAGA/ADA, cata 89.81
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only] Back     alignment and domain information 
Probab=99.73  E-value=3.8e-18  Score=192.25  Aligned_cols=234  Identities=23%  Similarity=0.227  Sum_probs=162.1

Q ss_pred             cChhhhhhhHHHHHhhhhccCCCCchHHHHHHHHHHHHHHHHHHhhcCCCCCC-cc--------ccccccCCCCCCCCCC
Q 010122            2 FGCILTQKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNE-PE--------TKVVRRGRPPTKNFKK   72 (517)
Q Consensus         2 ~sleeFe~Df~Li~sNaM~YN~pDTIYykaA~~l~e~~~k~f~~Lr~~~e~~E-~e--------~k~~rr~rppkk~~KK   72 (517)
                      .+||+||+||+|||.|||.||..||||||+|++++++++++|+++|++.+..+ .+        +.+.+..++..+..++
T Consensus       621 ~tle~ieed~~l~~~nc~~yn~~dtv~~r~av~~~e~~~~~~~~arke~e~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~  700 (1051)
T KOG0955|consen  621 STLEPIEEDVNLIVSNCMEYNAKDTVYYRAAVRLRELIKKDFRNARKEPESEGLLDRESLSHHDHLVKKLERPYRPNLWA  700 (1051)
T ss_pred             hhhhHHHHhHhHhHhHHHHhhccCeehHhhhHHHHhhhhhHHHhcccchhhhcccchhhhcccchhhhhhccCCcccccc
Confidence            47999999999999999999999999999999999999999999999998665 22        2244556666666777


Q ss_pred             CCCCCcccccCCCCCCccccccC-CCCccc-ccC-CCCCCCCCCCCCCcccccccccCCCCcccccccccccccc--ccc
Q 010122           73 PLGRPSLERARSDFSSDVTLASG-AENTAL-TNR-DLGNGTPHLEKSGFTDSSRRFSGSWNDLYTGCLAENKLER--NDE  147 (517)
Q Consensus        73 ~~~~~~~E~~gsd~SSgatLAt~-g~~~~~-sn~-~~~~~~~~~~k~~~~d~~~~~~~~rne~~~~~~~~~~~e~--~ee  147 (517)
                      ++........-.+++...-++.. +++... +.. ++++..    +   .-..+ .+-+|   .-.|.+. .-|.  ..+
T Consensus       701 ~e~~~v~~e~~~~~~~e~~~~~~~~~~~~~~a~~~~~~~~~----~---~~~~~-~~~s~---~r~~~~~-~~e~~~~~~  768 (1051)
T KOG0955|consen  701 PEEPQVDLETFINLSKEHDLKIPLDKNEKKKATKLSIPRNR----D---SRIIR-KEKSR---LRKCGIV-DTETSGSPS  768 (1051)
T ss_pred             ccccccccccccccChhhhhccccccchhhhhhhccccccc----c---cccch-hhHHH---HhhccCc-CccccCCCC
Confidence            76655544444555544433322 111100 000 111111    0   00000 00000   0001110 0010  001


Q ss_pred             c--ccccCCcccCCCcccccccccccccccccccccCCceeeeccCccceeEEeccCCchhhHHHHHHHHHhhChHHHHH
Q 010122          148 V--SLSKGYSMKHGKKQVVLDENRRNTYKQFHQSLRESSVLTTFDADKKQLMTVGLHSEHGYTRSLARFAANLGPVAWKI  225 (517)
Q Consensus       148 ~--s~~kG~s~K~GkKp~~vDE~RR~TYk~~~ss~~e~svft~~~~e~KqLV~VGlq~E~sYARSLARFAAdLGPvaW~I  225 (517)
                      +  +..+++ .|+|.+.    .+++.+|.+..++..++++++.+..+.|++-|+++-.+.+|+||+++.+++++++||.+
T Consensus       769 ~p~~~~~~~-~~~~~~~----~~~~~~~~~~~s~p~~~~~~sp~~~~~~~~~p~~l~~~s~~~~sn~~l~~n~t~~~~~~  843 (1051)
T KOG0955|consen  769 IPSGGEKTV-KKDGLNS----KNLKMSSDQALSSPPSEPLGSPYNDSVKGVKPSVLLEKSGLLRSNANLSQNPTASANNL  843 (1051)
T ss_pred             CCCccccch-hcccccc----cccccccchhhcCCCCCCCCCCccccccccCchhhHhhccccccccccccCCCcccccc
Confidence            1  123444 5666654    68999999987778899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCCCccCCcccccCCCCC
Q 010122          226 AARRIERCLPAGVRFGPGWVVENDLAP  252 (517)
Q Consensus       226 AskRIe~~LP~g~~FG~GWVgE~e~~p  252 (517)
                      |+.+++.+++.+..||.||+++....+
T Consensus       844 ~~~~~~~~~~~~~~~g~g~~~~tP~~~  870 (1051)
T KOG0955|consen  844 ASTSCSVTKATFTGNGVGGDVKTPKRP  870 (1051)
T ss_pred             cccccccccCCccCCCCCccccCCCCc
Confidence            999999999999999999976665533

>cd05513 Bromo_brd7_like Bromodomain, brd7_like subgroup Back     alignment and domain information
>cd05512 Bromo_brd1_like Bromodomain; brd1_like subfamily Back     alignment and domain information
>cd05492 Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family Back     alignment and domain information
>cd05507 Bromo_brd8_like Bromodomain, brd8_like subgroup Back     alignment and domain information
>cd05510 Bromo_SPT7_like Bromodomain; SPT7_like subfamily Back     alignment and domain information
>cd05511 Bromo_TFIID Bromodomain, TFIID-like subfamily Back     alignment and domain information
>cd05509 Bromo_gcn5_like Bromodomain; Gcn5_like subfamily Back     alignment and domain information
>cd05524 Bromo_polybromo_I Bromodomain, polybromo repeat I Back     alignment and domain information
>cd05508 Bromo_RACK7 Bromodomain, RACK7_like subfamily Back     alignment and domain information
>cd05504 Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_like subfamily Back     alignment and domain information
>cd05497 Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily, repeat I Back     alignment and domain information
>cd05495 Bromo_cbp_like Bromodomain, cbp_like subfamily Back     alignment and domain information
>smart00297 BROMO bromo domain Back     alignment and domain information
>cd05529 Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like subfamily Back     alignment and domain information
>cd05520 Bromo_polybromo_III Bromodomain, polybromo repeat III Back     alignment and domain information
>cd05516 Bromo_SNF2L2 Bromodomain, SNF2L2-like subfamily, specific to animals Back     alignment and domain information
>cd05501 Bromo_SP100C_like Bromodomain, SP100C_like subfamily Back     alignment and domain information
>cd05502 Bromo_tif1_like Bromodomain; tif1_like subfamily Back     alignment and domain information
>cd05519 Bromo_SNF2 Bromodomain, SNF2-like subfamily, specific to fungi Back     alignment and domain information
>cd04369 Bromodomain Bromodomain Back     alignment and domain information
>cd05525 Bromo_ASH1 Bromodomain; ASH1_like sub-family Back     alignment and domain information
>cd05505 Bromo_WSTF_like Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like) Back     alignment and domain information
>cd05518 Bromo_polybromo_IV Bromodomain, polybromo repeat IV Back     alignment and domain information
>PF00439 Bromodomain: Bromodomain; InterPro: IPR001487 Bromodomains are found in a variety of mammalian, invertebrate and yeast DNA-binding proteins [] Back     alignment and domain information
>cd05528 Bromo_AAA Bromodomain; sub-family co-occurring with AAA domains Back     alignment and domain information
>cd05515 Bromo_polybromo_V Bromodomain, polybromo repeat V Back     alignment and domain information
>cd05503 Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like subfamily Back     alignment and domain information
>cd05521 Bromo_Rsc1_2_I Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi Back     alignment and domain information
>cd05517 Bromo_polybromo_II Bromodomain, polybromo repeat II Back     alignment and domain information
>cd05499 Bromo_BDF1_2_II Bromodomain Back     alignment and domain information
>cd05498 Bromo_Brdt_II_like Bromodomain, Brdt_like subfamily, repeat II Back     alignment and domain information
>cd05500 Bromo_BDF1_2_I Bromodomain Back     alignment and domain information
>cd05506 Bromo_plant1 Bromodomain, uncharacterized subfamily specific to plants Back     alignment and domain information
>cd05526 Bromo_polybromo_VI Bromodomain, polybromo repeat VI Back     alignment and domain information
>cd05522 Bromo_Rsc1_2_II Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi Back     alignment and domain information
>cd05496 Bromo_WDR9_II Bromodomain; WDR9 repeat II_like subfamily Back     alignment and domain information
>KOG1474 consensus Transcription initiation factor TFIID, subunit BDF1 and related bromodomain proteins [Transcription] Back     alignment and domain information
>KOG1828 consensus IRF-2-binding protein CELTIX-1, contains BROMO domain [Transcription] Back     alignment and domain information
>COG5076 Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription] Back     alignment and domain information
>cd05491 Bromo_TBP7_like Bromodomain; TBP7_like subfamily, limited to fungi Back     alignment and domain information
>PF12024 DUF3512: Domain of unknown function (DUF3512); InterPro: IPR021900 This presumed domain is functionally uncharacterised Back     alignment and domain information
>KOG1828 consensus IRF-2-binding protein CELTIX-1, contains BROMO domain [Transcription] Back     alignment and domain information
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription] Back     alignment and domain information
>KOG0008 consensus Transcription initiation factor TFIID, subunit TAF1 [Transcription] Back     alignment and domain information
>KOG1472 consensus Histone acetyltransferase SAGA/ADA, catalytic subunit PCAF/GCN5 and related proteins [Chromatin structure and dynamics; Transcription] Back     alignment and domain information

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 RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query517
2d9e_A121 Peregrin; four-helix bundle, transcription activat 2e-12
3rcw_A135 Bromodomain-containing protein 1; transcription, s 4e-12
2i7k_A117 Bromodomain-containing protein 7; helix, LEFT-hand 1e-11
2grc_A129 Probable global transcription activator SNF2L4; br 8e-11
3hme_A123 Bromodomain-containing protein 9; BRD9, bromodomai 3e-10
3uv4_A158 Second bromodomain of human transcription initiat 2e-09
3mb4_A124 Protein polybromo-1; PB1, polybromo 1 isoform 1, B 1e-08
3uv5_A265 Transcription initiation factor TFIID subunit 1; t 3e-08
3g0l_A117 Hwalp4, bromodomain adjacent to zinc finger domain 3e-08
3iu5_A116 Protein polybromo-1; PB1, polybromo 1 isoform 1, B 4e-08
1e6i_A121 Transcriptional activator GCN5; gene regulation, b 6e-08
3aad_A292 Transcription initiation factor TFIID subunit 1; p 9e-08
3iu6_A147 Protein polybromo-1; PB1, polybromo 1 isoform 1, B 2e-07
2dat_A123 Possible global transcription activator SNF2L2; br 4e-07
3k2j_A130 Protein polybromo-1; PB1, polybromo 1 isoform 1, B 1e-06
3tlp_A150 Protein polybromo-1; PB1, polybromo 1 isoform 1, B 1e-06
3ljw_A120 Protein polybromo-1; alpha helix, alternative spli 1e-06
3dai_A130 ATPase family AAA domain-containing protein 2; anc 2e-06
3p1f_A119 CREB-binding protein; structural genomics consorti 2e-06
3mqm_A126 Probable histone-lysine N-methyltransferase ASH1L; 7e-06
2ri7_A174 Nucleosome-remodeling factor subunit BPTF; zinc fi 2e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-05
2dkw_A131 Hypothetical protein KIAA1240; bromodomain-like, f 2e-05
2r0y_A311 Chromatin structure-remodeling complex protein RSC 4e-05
2r10_A361 Chromatin structure-remodeling complex protein RSC 4e-05
3d7c_A112 General control of amino acid synthesis protein 5; 5e-05
3jvl_A120 Bromodomain-containing protein 4; alpha helical, N 1e-04
3nxb_A116 CAT eye syndrome critical region protein 2; struct 2e-04
3q2e_A123 Bromodomain and WD repeat-containing protein 1; st 3e-04
2ouo_A130 HUNK1 protein, bromodomain-containing protein 4; B 5e-04
>2d9e_A Peregrin; four-helix bundle, transcription activator, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 121 Back     alignment and structure
 Score = 63.2 bits (154), Expect = 2e-12
 Identities = 15/48 (31%), Positives = 24/48 (50%)

Query: 9   KDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPE 56
           +D  LI SN ++YNA DTI++R A  + E         R+ ++     
Sbjct: 70  EDFNLIVSNCLKYNAKDTIFYRAAVRLREQGGAVLRQARRQAEKMGSG 117
>3rcw_A Bromodomain-containing protein 1; transcription, structural genomics, structural consortium, SGC; 2.21A {Homo sapiens} Length = 135 Back     alignment and structure
>2i7k_A Bromodomain-containing protein 7; helix, LEFT-handed four-helix bundle, transcription; NMR {Homo sapiens} Length = 117 Back     alignment and structure
>2grc_A Probable global transcription activator SNF2L4; bromodomain, BRG1, chromatin remodelling, acely-lysine binding, protein-protein interactions; 1.50A {Homo sapiens} PDB: 3uvd_A 2h60_A Length = 129 Back     alignment and structure
>3hme_A Bromodomain-containing protein 9; BRD9, bromodomain containing 9 isoform 1, LAVS3040, rhabdomyosarcoma antigen MU-RMS-40.8; 2.23A {Homo sapiens} Length = 123 Back     alignment and structure
>3uv4_A Second bromodomain of human transcription initiat TFIID subunit 1 (TAF1); structural genomics consortium, SGC; 1.89A {Homo sapiens} PDB: 3hmh_A Length = 158 Back     alignment and structure
>3mb4_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo-1D, PBRM1, BRG associated factor 180, structural genomics consortium, SGC; 1.66A {Homo sapiens} PDB: 3g0j_A 2yqd_A Length = 124 Back     alignment and structure
>3uv5_A Transcription initiation factor TFIID subunit 1; tandem bromodomain, TAF1, cell cycle gene 1 protein, TBP-ASS factor 250 kDa; 2.03A {Homo sapiens} PDB: 1eqf_A Length = 265 Back     alignment and structure
>3g0l_A Hwalp4, bromodomain adjacent to zinc finger domain protei; BAZB2, KIAA1 WALP4, structural genomics consortium, SGC, transcription; 2.03A {Homo sapiens} PDB: 3q2f_A* 2e7o_A Length = 117 Back     alignment and structure
>3iu5_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo0ID, PBRM1, BRG associated factor 180, structural genomics, SGC; 1.63A {Homo sapiens} Length = 116 Back     alignment and structure
>1e6i_A Transcriptional activator GCN5; gene regulation, bromodomain, histone binding, N-acetyl lysine; HET: ALY; 1.87A {Saccharomyces cerevisiae} SCOP: a.29.2.1 Length = 121 Back     alignment and structure
>3aad_A Transcription initiation factor TFIID subunit 1; protein-protein complex, bromodomain, transcription, transcr regulation, chromatin regulator, transcription-C complex; 3.30A {Homo sapiens} Length = 292 Back     alignment and structure
>3iu6_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo0ID, PBRM1, BRG associated factor 180, structural genomics, SGC; HET: OCS; 1.79A {Homo sapiens} Length = 147 Back     alignment and structure
>2dat_A Possible global transcription activator SNF2L2; bromodomain, all alpha protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 123 Back     alignment and structure
>3k2j_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo01D, PBRM1, BRG associated factor 180, structural genomics consortium, SGC; 2.20A {Homo sapiens} Length = 130 Back     alignment and structure
>3tlp_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo-1D, PBRM1, BRG associated factor 180, structural genomics consortium, SGC; 2.13A {Homo sapiens} Length = 150 Back     alignment and structure
>3ljw_A Protein polybromo-1; alpha helix, alternative splicing, bromodomain, chromatin RE DNA-binding, nucleus, phosphoprotein, transcription; 1.50A {Homo sapiens} PDB: 2ktb_B* 3hmf_A Length = 120 Back     alignment and structure
>3dai_A ATPase family AAA domain-containing protein 2; ancca, AAA+ nuclear coregulator cancer-associated Pro2000 protein, two AAA DOMA containing protein; 1.95A {Homo sapiens} PDB: 3lxj_A Length = 130 Back     alignment and structure
>3p1f_A CREB-binding protein; structural genomics consortium, SGC, CBP, crebbp, CREB bindi protein isoform A, KAT3A, RSTS, RST, bromodomain, transcrip; HET: 3PF; 1.63A {Homo sapiens} PDB: 3dwy_A 3p1d_A 3p1c_A 3p1e_A* 3svh_A* 4a9k_A* 1jsp_B* 2d82_A* 2l84_A* 2l85_A* 2rny_A* 3i3j_A Length = 119 Back     alignment and structure
>3mqm_A Probable histone-lysine N-methyltransferase ASH1L; KIAA1420, absent small and homeotic disks prote homolog, lysine N-methyltransferase 2H, KMT2H; 2.54A {Homo sapiens} Length = 126 Back     alignment and structure
>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger, alpha-helical bundle, dimethyl-lysine, bromodom chromatin regulator, metal-binding, nucleus; HET: MLY; 1.45A {Homo sapiens} PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A* 3uv2_A* 3qzt_A* 3qzs_A* 2fui_A 2fuu_A* Length = 174 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 131 Back     alignment and structure
>2r0y_A Chromatin structure-remodeling complex protein RSC4; bromodomain, chromatin, remodeler, RSC, acetylation, transcription, chromatin regulator, nucleus, phosphorylation; HET: ALY; 1.75A {Saccharomyces cerevisiae} PDB: 2r0s_A Length = 311 Back     alignment and structure
>2r10_A Chromatin structure-remodeling complex protein RSC4, linker, histone H3; bromodomain, remodeler, acetylation, transcription; HET: ALY; 2.20A {Saccharomyces cerevisiae} PDB: 2r0v_A* Length = 361 Back     alignment and structure
>3d7c_A General control of amino acid synthesis protein 5; GCN5, bromodomain, structural genomics consortium, SGC, HOST-virus interaction, nucleus; 2.06A {Homo sapiens} SCOP: a.29.2.1 PDB: 1f68_A 1jm4_B* 1n72_A 1wug_A* 1wum_A* 1zs5_A* 2rnw_A* 2rnx_A* 3gg3_A Length = 112 Back     alignment and structure
>3jvl_A Bromodomain-containing protein 4; alpha helical, N-acetyl lysine binding domain, signaling protein; 1.20A {Mus musculus} PDB: 3jvm_A 2dww_A 2i8n_A 3oni_A* 2dvv_A* 2e3k_A* 2g4a_A 3s92_A* 2oo1_A* 2e7n_A 2wp1_A* Length = 120 Back     alignment and structure
>3nxb_A CAT eye syndrome critical region protein 2; structural genomics consortium, SGC, CECR2, CAT eye syndrome chromosome region candidate 2, bromodomain; 1.83A {Homo sapiens} Length = 116 Back     alignment and structure
>3q2e_A Bromodomain and WD repeat-containing protein 1; structural genomics consortium, SGC, cell cycle progression, signal transduction, apoptosis; 1.74A {Homo sapiens} Length = 123 Back     alignment and structure
>2ouo_A HUNK1 protein, bromodomain-containing protein 4; BRD4, structural genomics consortium, SGC, signaling protein; 1.89A {Homo sapiens} PDB: 2yem_A* Length = 130 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query517
2d9e_A121 Peregrin; four-helix bundle, transcription activat 98.98
3rcw_A135 Bromodomain-containing protein 1; transcription, s 98.91
2grc_A129 Probable global transcription activator SNF2L4; br 98.82
4alg_A154 Bromodomain-containing protein 2; signaling protei 98.8
3hme_A123 Bromodomain-containing protein 9; BRD9, bromodomai 98.78
2i7k_A117 Bromodomain-containing protein 7; helix, LEFT-hand 98.76
2yyn_A135 Transcription intermediary factor 1-alpha; bromo d 98.75
3mb4_A124 Protein polybromo-1; PB1, polybromo 1 isoform 1, B 98.73
3jvl_A120 Bromodomain-containing protein 4; alpha helical, N 98.72
3uv4_A158 Second bromodomain of human transcription initiat 98.71
3d7c_A112 General control of amino acid synthesis protein 5; 98.71
3iu5_A116 Protein polybromo-1; PB1, polybromo 1 isoform 1, B 98.7
2dat_A123 Possible global transcription activator SNF2L2; br 98.68
3k2j_A130 Protein polybromo-1; PB1, polybromo 1 isoform 1, B 98.66
3g0l_A117 Hwalp4, bromodomain adjacent to zinc finger domain 98.66
3ljw_A120 Protein polybromo-1; alpha helix, alternative spli 98.66
2ouo_A130 HUNK1 protein, bromodomain-containing protein 4; B 98.65
3p1f_A119 CREB-binding protein; structural genomics consorti 98.64
1e6i_A121 Transcriptional activator GCN5; gene regulation, b 98.64
3tlp_A150 Protein polybromo-1; PB1, polybromo 1 isoform 1, B 98.63
2oss_A127 HUNK1 protein, bromodomain-containing protein 4; B 98.63
3mqm_A126 Probable histone-lysine N-methyltransferase ASH1L; 98.61
3nxb_A116 CAT eye syndrome critical region protein 2; struct 98.61
3fkm_X166 Signaling protein; bromodomain, malaria, structura 98.55
3mb3_A135 PH-interacting protein; PHIP, pleckstrin homology 98.53
3q2e_A123 Bromodomain and WD repeat-containing protein 1; st 98.48
3aad_A292 Transcription initiation factor TFIID subunit 1; p 98.43
3uv5_A265 Transcription initiation factor TFIID subunit 1; t 98.39
2r0y_A311 Chromatin structure-remodeling complex protein RSC 98.38
2r0y_A311 Chromatin structure-remodeling complex protein RSC 98.31
2dkw_A131 Hypothetical protein KIAA1240; bromodomain-like, f 98.28
2r10_A361 Chromatin structure-remodeling complex protein RSC 98.27
2r10_A361 Chromatin structure-remodeling complex protein RSC 98.26
3uv5_A265 Transcription initiation factor TFIID subunit 1; t 98.2
3dai_A130 ATPase family AAA domain-containing protein 2; anc 98.19
3aad_A292 Transcription initiation factor TFIID subunit 1; p 97.91
3iu6_A147 Protein polybromo-1; PB1, polybromo 1 isoform 1, B 97.91
3u5n_A207 E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b 97.38
3lqh_A183 Histone-lysine N-methyltransferase MLL; PHD finger 95.58
>2d9e_A Peregrin; four-helix bundle, transcription activator, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
Probab=98.98  E-value=2.7e-10  Score=98.89  Aligned_cols=52  Identities=29%  Similarity=0.436  Sum_probs=48.4

Q ss_pred             cChhhhhhhHHHHHhhhhccCCCCchHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 010122            2 FGCILTQKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDN   53 (517)
Q Consensus         2 ~sleeFe~Df~Li~sNaM~YN~pDTIYykaA~~l~e~~~k~f~~Lr~~~e~~   53 (517)
                      .++++|++||.|||+||+.||.+++.+|+.|++|++.+.++|+.+|...+..
T Consensus        63 ~s~~ef~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~~~~~l~~~~~~~~~~  114 (121)
T 2d9e_A           63 LNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLREQGGAVLRQARRQAEKM  114 (121)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            3789999999999999999999999999999999999999999999876644
>3rcw_A Bromodomain-containing protein 1; transcription, structural genomics, structural consortium, SGC; 2.21A {Homo sapiens} Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>3hme_A Bromodomain-containing protein 9; BRD9, bromodomain containing 9 isoform 1, LAVS3040, rhabdomyosarcoma antigen MU-RMS-40.8; 2.23A {Homo sapiens} Back     alignment and structure
>2i7k_A Bromodomain-containing protein 7; helix, LEFT-handed four-helix bundle, transcription; NMR {Homo sapiens} Back     alignment and structure
>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural genomics, NPPSFA; 2.50A {Homo sapiens} Back     alignment and structure
>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 Back     alignment and structure
>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* Back     alignment and structure
>3uv4_A Second bromodomain of human transcription initiat TFIID subunit 1 (TAF1); structural genomics consortium, SGC; 1.89A {Homo sapiens} PDB: 3hmh_A Back     alignment and structure
>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 Back     alignment and structure
>3iu5_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180, polybromo0ID, PBRM1, BRG associated factor 180, structural genomics, SGC; 1.63A {Homo sapiens} Back     alignment and structure
>2dat_A Possible global transcription activator SNF2L2; bromodomain, all alpha protein, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>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} Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>2ouo_A HUNK1 protein, bromodomain-containing protein 4; BRD4, structural genomics consortium, SGC, signaling protein; 1.89A {Homo sapiens} PDB: 2yem_A* Back     alignment and structure
>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 Back     alignment and structure
>1e6i_A Transcriptional activator GCN5; gene regulation, bromodomain, histone binding, N-acetyl lysine; HET: ALY; 1.87A {Saccharomyces cerevisiae} SCOP: a.29.2.1 Back     alignment and structure
>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} Back     alignment and structure
>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 ... Back     alignment and structure
>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} Back     alignment and structure
>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 Back     alignment and structure
>3fkm_X Signaling protein; bromodomain, malaria, structural genomics, structural genomi consortium, SGC; 2.50A {Plasmodium falciparum 3D7} Back     alignment and structure
>3mb3_A PH-interacting protein; PHIP, pleckstrin homology domain interacting protein, DCAF14 DDB1 and CUL4 associated factor 14, SGC; 2.25A {Homo sapiens} Back     alignment and structure
>3q2e_A Bromodomain and WD repeat-containing protein 1; structural genomics consortium, SGC, cell cycle progression, signal transduction, apoptosis; 1.74A {Homo sapiens} Back     alignment and structure
>3aad_A Transcription initiation factor TFIID subunit 1; protein-protein complex, bromodomain, transcription, transcr regulation, chromatin regulator, transcription-C complex; 3.30A {Homo sapiens} Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2r10_A Chromatin structure-remodeling complex protein RSC4, linker, histone H3; bromodomain, remodeler, acetylation, transcription; HET: ALY; 2.20A {Saccharomyces cerevisiae} PDB: 2r0v_A* Back     alignment and structure
>2r10_A Chromatin structure-remodeling complex protein RSC4, linker, histone H3; bromodomain, remodeler, acetylation, transcription; HET: ALY; 2.20A {Saccharomyces cerevisiae} PDB: 2r0v_A* Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>3aad_A Transcription initiation factor TFIID subunit 1; protein-protein complex, bromodomain, transcription, transcr regulation, chromatin regulator, transcription-C complex; 3.30A {Homo sapiens} Back     alignment and structure
>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} Back     alignment and structure
>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* Back     alignment and structure
>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 Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 517
d1eqfa2128 a.29.2.1 (A:1498-1625) TAFII250 double bromodomain 1e-07
d1eqfa1139 a.29.2.1 (A:1359-1497) TAFII250 double bromodomain 2e-06
d3dwya1114 a.29.2.1 (A:1084-1197) CREB-binding protein, CBP { 3e-06
d1e6ia_111 a.29.2.1 (A:) GCN5 {Baker's yeast (Saccharomyces c 5e-06
d1wuma1118 a.29.2.1 (A:715-832) P300/CAF histone acetyltransf 9e-05
d3d7ca1102 a.29.2.1 (A:731-832) GCN5 {Human (Homo sapiens) [T 1e-04
>d1eqfa2 a.29.2.1 (A:1498-1625) TAFII250 double bromodomain module {Human (Homo sapiens) [TaxId: 9606]} Length = 128 Back     information, alignment and structure

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 = 12/55 (21%), Positives = 25/55 (45%)

Query: 7   TQKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQDSDDNEPETKVVR 61
              DV LI +N+++YN P++ Y + A+ I  +  +      +     E +    +
Sbjct: 71  FLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTAK 125
>d1eqfa1 a.29.2.1 (A:1359-1497) TAFII250 double bromodomain module {Human (Homo sapiens) [TaxId: 9606]} Length = 139 Back     information, alignment and structure
>d3dwya1 a.29.2.1 (A:1084-1197) CREB-binding protein, CBP {Human (Homo sapiens) [TaxId: 9606]} Length = 114 Back     information, alignment and structure
>d1e6ia_ a.29.2.1 (A:) GCN5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 111 Back     information, alignment and structure
>d1wuma1 a.29.2.1 (A:715-832) P300/CAF histone acetyltransferase bromodomain {Human (Homo sapiens) [TaxId: 9606]} Length = 118 Back     information, alignment and structure
>d3d7ca1 a.29.2.1 (A:731-832) GCN5 {Human (Homo sapiens) [TaxId: 9606]} Length = 102 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query517
d3dwya1114 CREB-binding protein, CBP {Human (Homo sapiens) [T 98.66
d1e6ia_111 GCN5 {Baker's yeast (Saccharomyces cerevisiae) [Ta 98.6
d3d7ca1102 GCN5 {Human (Homo sapiens) [TaxId: 9606]} 98.56
d1wuma1118 P300/CAF histone acetyltransferase bromodomain {Hu 98.56
d1eqfa1139 TAFII250 double bromodomain module {Human (Homo sa 98.55
d1eqfa2128 TAFII250 double bromodomain module {Human (Homo sa 98.54
>d3dwya1 a.29.2.1 (A:1084-1197) CREB-binding protein, CBP {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Bromodomain-like
superfamily: Bromodomain
family: Bromodomain
domain: CREB-binding protein, CBP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.66  E-value=7.2e-09  Score=86.84  Aligned_cols=48  Identities=19%  Similarity=0.265  Sum_probs=44.8

Q ss_pred             cChhhhhhhHHHHHhhhhccCCCCchHHHHHHHHHHHHHHHHHHhhcC
Q 010122            2 FGCILTQKDVFLICSNAMQYNAPDTIYFRQARSIHELAKKNFENLRQD   49 (517)
Q Consensus         2 ~sleeFe~Df~Li~sNaM~YN~pDTIYykaA~~l~e~~~k~f~~Lr~~   49 (517)
                      .++++|++||.||++||+.||.+++.+|+.|++|++...+.++.|.++
T Consensus        65 ~s~~ef~~Dv~li~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~i~~~  112 (114)
T d3dwya1          65 QEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQS  112 (114)
T ss_dssp             SSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence            478999999999999999999999999999999999999999888764
>d1e6ia_ a.29.2.1 (A:) GCN5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d3d7ca1 a.29.2.1 (A:731-832) GCN5 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wuma1 a.29.2.1 (A:715-832) P300/CAF histone acetyltransferase bromodomain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1eqfa1 a.29.2.1 (A:1359-1497) TAFII250 double bromodomain module {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1eqfa2 a.29.2.1 (A:1498-1625) TAFII250 double bromodomain module {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure