Citrus Sinensis ID: 024485

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-------
MLILILVPVFLSRWPYIIMILFRFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGTAEHLPPPRPKRKAAHPYPQKASKNAPMLSQVSGSFQSSSAQLEPGHFLRPDSSSMLMIPMASAATSWTNNVQTVSLSPASKGPEVANNRSNSTDSTPKARVSGELTDQGGELTDQGNNSHPLRVLPDFAQVYTFIGSVFDPNASDHVQKLKKMDPIDVETVLLLMRNLSINLTSPDFEDHRRLLSSYEIDPETANHSGTNNLLLGGGQ
ccEEEEcccccccHHHHHHHHHHcccHHHHHHHHHccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccHHHHHHHcccccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHcccccccccccccccccccccc
cEEEEEcHHHHccHHHHHHHHHHHcHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccHHHHHHHHHcccccHHHHHHHHHHHHHHcccccHHHHHHHHHHcccccccccccccccEEEEccc
MLILILVPVFLSRWPYIIMILFRFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVqkngtaehlppprpkrkaahpypqkasknapmlsqvsgsfqsssaqlepghflrpdsssmlmipmasaatswtnnvqtvslspaskgpevannrsnstdstpkarvsgeltdqggeltdqgnnshplrvlpdfAQVYTFigsvfdpnasdhvqklkkmdpiDVETVLLLMRNLsinltspdfedHRRLLSsyeidpetanhsgtnnlllgggq
MLILILVPVFLSRWPYIIMILFRFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQkngtaehlppprpkrkaAHPYPQKASKNAPMLSQVSGSFQSSSAQLEPGHFLRPDSSSMLMIPMASAATSWTNNVQTVSLSpaskgpevannrsnstdstpkarvSGELTDQGGELTDQGNNSHPLRVLPDFAQVYTFIGSVFDPNASDHVQKLKKMDPIDVETVLLLMRNLSInltspdfedHRRLLSsyeidpetanhsgtnnlllgggq
MLILILVPVFLSRWPYIIMILFRFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGTAEHLppprpkrkaahpypQKASKNAPMLsqvsgsfqsssaqLEPGHFLRPDSSSMLMIPMASAATSWTNNVQTVSLSPASKGPEVANNRSNSTDSTPKARVSGELTDQGGELTDQGNNSHPLRVLPDFAQVYTFIGSVFDPNASDHVQKLKKMDPIDVETVLLLMRNLSINLTSPDFEDHRRLLSSYEIDPETANHSGTNNLLLGGGQ
*LILILVPVFLSRWPYIIMILFRFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKV******************************************************************************************************************************LRVLPDFAQVYTFIGSVFDPNASDHVQKLKKMDPIDVETVLLLMRNLSINLTSPDF*******************************
*LILILVPVFLSRWPYIIMILFRFDRDWKKIEAFIGSKTVIQIRSHAQKYF**************************************************************************************************************************************DFAQVYTFIGSVF**************DPIDVETVLLLMRNLSINLTSPDFEDHRR**************************
MLILILVPVFLSRWPYIIMILFRFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGTAEHLP******************NAPMLSQ************EPGHFLRPDSSSMLMIPMASAATSWTNNVQTVSLSP**************************LTDQGGELTDQGNNSHPLRVLPDFAQVYTFIGSVFDPNASDHVQKLKKMDPIDVETVLLLMRNLSINLTSPDFEDHRRLLSSYEIDPETANHSGTNNLLLGGGQ
MLILILVPVFLSRWPYIIMILFRFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGTAEHLP*******************************************************************************************************************PLRVLPDFAQVYTFIGSVFDPNASDHVQKLKKMDPIDVETVLLLMRNLSINLTSPDFEDHRRLLSSYEID******SGTNN*******
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oooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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MLILILVPVFLSRWPYIIMILFRFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGTAEHLPPPRPKRKAAHPYPQKASKNAPMLSQVSGSFQSSSAQLEPGHFLRPDSSSMLMIPMASAATSWTNNVQTVSLSPASKGPEVANNRSNSTDSTPKARVSGELTDQGGELTDQGNNSHPLRVLPDFAQVYTFIGSVFDPNASDHVQKLKKMDPIDVETVLLLMRNLSINLTSPDFEDHRRLLSSYEIDPETANHSGTNNLLLGGGQ
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

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query267 2.2.26 [Sep-21-2011]
Q6R0H0287 Transcription factor ASG4 no no 0.767 0.714 0.513 2e-54
Q54IF9 423 Myb-like protein G OS=Dic yes no 0.779 0.491 0.361 1e-32
Q6R0H1 645 Protein LHY OS=Arabidopsi no no 0.303 0.125 0.364 2e-07
P92973 608 Protein CCA1 OS=Arabidops no no 0.168 0.074 0.488 2e-06
Q54Z40 1217 Myb-like protein H OS=Dic no no 0.127 0.027 0.542 2e-05
Q5VVJ2 828 Histone H2A deubiquitinas yes no 0.187 0.060 0.407 0.0003
Q5F3F2 832 Histone H2A deubiquitinas yes no 0.153 0.049 0.439 0.0008
>sp|Q6R0H0|ASG4_ARATH Transcription factor ASG4 OS=Arabidopsis thaliana GN=ASG4 PE=2 SV=1 Back     alignment and function desciption
 Score =  212 bits (540), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 118/230 (51%), Positives = 153/230 (66%), Gaps = 25/230 (10%)

Query: 21  LFRFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGTAEHLPPPRPKRKAAHPYPQKA 80
           L  FDRDWKKI+AF+GSKTVIQIRSHAQKYFLKVQKNGT EHLPPPRPKRKA HPYPQKA
Sbjct: 76  LHLFDRDWKKIKAFVGSKTVIQIRSHAQKYFLKVQKNGTKEHLPPPRPKRKANHPYPQKA 135

Query: 81  SKNAPMLSQVSGSFQSSSAQLEPGHFLRPDSSSMLMIPMASAATSWTNNVQTVSLS-PAS 139
            K          +  SS+A  +  +    +S  ++       +T+  + +    +S P+S
Sbjct: 136 PK---------FTLSSSNALFQHDYLYNTNSHPVI-------STTRKHGLVHCDVSIPSS 179

Query: 140 KGPE---VANNRSNSTDSTPKARVSGELTDQGGELTDQGNNSHPLRVLPDFAQVYTFIGS 196
              E   V+ N  +++ S  K R     T    E  DQ +   P RV P+FA+VY FIGS
Sbjct: 180 VIKEEFGVSENCCSTSSSRDKQR-----TRIVTETNDQESCGKPHRVAPNFAEVYNFIGS 234

Query: 197 VFDPNASDHVQKLKKMDPIDVETVLLLMRNLSINLTSPDFEDHRRLLSSY 246
           VFDP  + HV++LK+MDPI++ETVLLLM+NLS+NLTSP+F++ R+L+SSY
Sbjct: 235 VFDPKTTGHVKRLKEMDPINLETVLLLMKNLSVNLTSPEFDEQRKLISSY 284
Probable transcription factor.
Arabidopsis thaliana (taxid: 3702)
>sp|Q54IF9|MYBG_DICDI Myb-like protein G OS=Dictyostelium discoideum GN=mybG PE=3 SV=1 Back     alignment and function description
>sp|Q6R0H1|LHY_ARATH Protein LHY OS=Arabidopsis thaliana GN=LHY PE=1 SV=2 Back     alignment and function description
>sp|P92973|CCA1_ARATH Protein CCA1 OS=Arabidopsis thaliana GN=CCA1 PE=1 SV=1 Back     alignment and function description
>sp|Q54Z40|MYBH_DICDI Myb-like protein H OS=Dictyostelium discoideum GN=mybH PE=3 SV=1 Back     alignment and function description
>sp|Q5VVJ2|MYSM1_HUMAN Histone H2A deubiquitinase MYSM1 OS=Homo sapiens GN=MYSM1 PE=1 SV=1 Back     alignment and function description
>sp|Q5F3F2|MYSM1_CHICK Histone H2A deubiquitinase MYSM1 OS=Gallus gallus GN=MYSM1 PE=2 SV=1 Back     alignment and function description

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 ?
Query267
255545170318 DNA binding protein, putative [Ricinus c 0.853 0.716 0.733 3e-90
224079756317 predicted protein [Populus trichocarpa] 0.850 0.716 0.723 2e-89
302143788318 unnamed protein product [Vitis vinifera] 0.868 0.729 0.689 7e-89
359490474337 PREDICTED: transcription factor ASG4-lik 0.868 0.688 0.689 8e-89
295883125324 putative MYB transcription factor [Rosa 0.850 0.700 0.726 2e-87
358248018301 uncharacterized protein LOC100783949 [Gl 0.812 0.720 0.721 6e-87
351722518302 MYB transcription factor MYB136 [Glycine 0.827 0.731 0.700 9e-86
356534101314 PREDICTED: LOW QUALITY PROTEIN: transcri 0.868 0.738 0.666 1e-85
356576006304 PREDICTED: transcription factor ASG4 [Gl 0.827 0.726 0.704 1e-84
302398963319 MYBR domain class transcription factor [ 0.835 0.699 0.725 1e-83
>gi|255545170|ref|XP_002513646.1| DNA binding protein, putative [Ricinus communis] gi|223547554|gb|EEF49049.1| DNA binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  337 bits (864), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 173/236 (73%), Positives = 191/236 (80%), Gaps = 8/236 (3%)

Query: 24  FDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGTAEHLPPPRPKRKAAHPYPQKASKN 83
           FDRDWKKIEAF+GSKTVIQIRSHAQKYFLKVQK+G  EHLPPPRPKRKAAHPYPQKASKN
Sbjct: 77  FDRDWKKIEAFVGSKTVIQIRSHAQKYFLKVQKSGANEHLPPPRPKRKAAHPYPQKASKN 136

Query: 84  APMLSQVSGSFQSSSAQLEPGHFLRPDSSSMLMIPMAS-AATSWTNNVQTVSLSPASKGP 142
           A ML Q S SFQSSSA LEPG+  RPDSSSM   P+ S AA SWTNN+  VS S  +KGP
Sbjct: 137 AQMLLQPSVSFQSSSALLEPGYIRRPDSSSMPTNPITSAAAASWTNNLPAVSFSNQAKGP 196

Query: 143 EVANNRSNSTDSTPKARVSGELTDQGGELTDQGNNSHPLRVLPDFAQVYTFIGSVFDPNA 202
            V NN  +ST+STP+       T   GE  + GN+SHPLRVLPDF QVY+FIGSVFDPNA
Sbjct: 197 IVTNNCCSSTESTPR-------TKPIGETAELGNHSHPLRVLPDFVQVYSFIGSVFDPNA 249

Query: 203 SDHVQKLKKMDPIDVETVLLLMRNLSINLTSPDFEDHRRLLSSYEIDPETANHSGT 258
           + H+Q+LKKMDPIDVETVLLLMRNLS+NLTS DFEDHR+LLSSYEID E A  + T
Sbjct: 250 TGHLQRLKKMDPIDVETVLLLMRNLSVNLTSSDFEDHRKLLSSYEIDTEAAGANKT 305

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224079756|ref|XP_002305938.1| predicted protein [Populus trichocarpa] gi|222848902|gb|EEE86449.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|302143788|emb|CBI22649.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|359490474|ref|XP_002273319.2| PREDICTED: transcription factor ASG4-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|295883125|gb|ADG56764.1| putative MYB transcription factor [Rosa rugosa] Back     alignment and taxonomy information
>gi|358248018|ref|NP_001240048.1| uncharacterized protein LOC100783949 [Glycine max] gi|255634506|gb|ACU17617.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|351722518|ref|NP_001235967.1| MYB transcription factor MYB136 [Glycine max] gi|110931718|gb|ABH02858.1| MYB transcription factor MYB136 [Glycine max] Back     alignment and taxonomy information
>gi|356534101|ref|XP_003535596.1| PREDICTED: LOW QUALITY PROTEIN: transcription factor ASG4-like [Glycine max] Back     alignment and taxonomy information
>gi|356576006|ref|XP_003556126.1| PREDICTED: transcription factor ASG4 [Glycine max] Back     alignment and taxonomy information
>gi|302398963|gb|ADL36776.1| MYBR domain class transcription factor [Malus x domestica] 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 ?
Query267
TAIR|locus:2149589331 AT5G52660 [Arabidopsis thalian 0.861 0.694 0.599 2.5e-65
TAIR|locus:2124928303 AT4G01280 [Arabidopsis thalian 0.820 0.722 0.480 1.6e-45
TAIR|locus:2025411287 ASG4 "ALTERED SEED GERMINATION 0.288 0.268 0.623 5.9e-42
TAIR|locus:2075049298 RVE8 "REVEILLE 8" [Arabidopsis 0.808 0.724 0.464 5.9e-41
TAIR|locus:2151251293 LCL1 "LHY/CCA1-like 1" [Arabid 0.779 0.709 0.458 4.3e-38
DICTYBASE|DDB_G0288783 423 mybG "myb domain-containing pr 0.149 0.094 0.825 3.1e-25
TAIR|locus:2044345 608 CCA1 "circadian clock associat 0.142 0.062 0.526 0.00014
TAIR|locus:2167210387 RVE1 "REVEILLE 1" [Arabidopsis 0.134 0.093 0.555 0.00028
TAIR|locus:2169135287 RVE2 "REVEILLE 2" [Arabidopsis 0.127 0.118 0.529 0.0008
TAIR|locus:2149589 AT5G52660 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 665 (239.2 bits), Expect = 2.5e-65, P = 2.5e-65
 Identities = 145/242 (59%), Positives = 163/242 (67%)

Query:    24 FDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGTAEHLXXXXXXXXXXXXXXQKASKN 83
             FDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQK+GT EHL              QKA KN
Sbjct:    90 FDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKSGTGEHLPPPRPKRKAAHPYPQKAHKN 149

Query:    84 APMLXXXXXXXXXXXXXLEPGHFLRPDSSSMLMI-PMASAATSWTNNVQTVSLSPASKGP 142
               +               +P    RP+SSSMLM  P  +AA  WTNN QT+S +P  K  
Sbjct:   150 VQLQVPGSFKSTSEPN--DPSFMFRPESSSMLMTSPTTAAAAPWTNNAQTISFTPLPKAG 207

Query:   143 EVANNR-SNSTDSTPKARVSGELTDQGGELTDQGNNSHPLRVLPDFAQVYTFIGSVFDPN 201
               ANN  S+S+++TP+ R          +  D GN  H LRVLPDFAQVY FIGSVFDP 
Sbjct:   208 AGANNNCSSSSENTPRPR-------SNRDARDHGNVGHSLRVLPDFAQVYGFIGSVFDPY 260

Query:   202 ASDHVQKLKKMDPIDVETVLLLMRNLSINLTSPDFEDHRRLLSSYEIDPETA-NHSGTNN 260
             AS+H+QKLKKMDPIDVETVLLLMRNLSINL+SPDFEDHRRLLSSY+I  ETA +H G N 
Sbjct:   261 ASNHLQKLKKMDPIDVETVLLLMRNLSINLSSPDFEDHRRLLSSYDIGSETATDHGGVNK 320

Query:   261 LL 262
              L
Sbjct:   321 TL 322
GO:0003677 "DNA binding" evidence=IEA;ISS
GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS
GO:0005634 "nucleus" evidence=ISM
GO:0006355 "regulation of transcription, DNA-dependent" evidence=ISS
GO:0009651 "response to salt stress" evidence=IEP
GO:0009723 "response to ethylene stimulus" evidence=IEP
GO:0009737 "response to abscisic acid stimulus" evidence=IEP
GO:0009739 "response to gibberellin stimulus" evidence=IEP
GO:0009751 "response to salicylic acid stimulus" evidence=IEP
GO:0009753 "response to jasmonic acid stimulus" evidence=IEP
GO:0046686 "response to cadmium ion" evidence=IEP
TAIR|locus:2124928 AT4G01280 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2025411 ASG4 "ALTERED SEED GERMINATION 4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2075049 RVE8 "REVEILLE 8" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2151251 LCL1 "LHY/CCA1-like 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0288783 mybG "myb domain-containing protein" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
TAIR|locus:2044345 CCA1 "circadian clock associated 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2167210 RVE1 "REVEILLE 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2169135 RVE2 "REVEILLE 2" [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

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 ?Alignment Graph ?Length ? Definition ? E-value ?
Query267
TIGR0155757 TIGR01557, myb_SHAQKYF, myb-like DNA-binding domai 4e-04
>gnl|CDD|130620 TIGR01557, myb_SHAQKYF, myb-like DNA-binding domain, SHAQKYF class Back     alignment and domain information 
 Score = 37.4 bits (87), Expect = 4e-04
 Identities = 12/28 (42%), Positives = 15/28 (53%), Gaps = 2/28 (7%)

Query: 29 KKI-EAFIGSK-TVIQIRSHAQKYFLKV 54
          K+I E  +    T  Q+ SH QKY LK 
Sbjct: 30 KRILELMVVDGLTRDQVASHLQKYRLKQ 57

This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif. Length = 57

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 267
KOG0724335 consensus Zuotin and related molecular chaperones 99.48
TIGR0155757 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF c 99.46
PF0024948 Myb_DNA-binding: Myb-like DNA-binding domain; Inte 98.84
cd0016745 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding do 98.34
smart0071749 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-bindi 98.19
PF1392160 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 97.78
KOG0457 438 consensus Histone acetyltransferase complex SAGA/A 96.96
COG5259531 RSC8 RSC chromatin remodeling complex subunit RSC8 96.87
KOG0724335 consensus Zuotin and related molecular chaperones 96.52
KOG1279506 consensus Chromatin remodeling factor subunit and 96.19
PLN03091 459 hypothetical protein; Provisional 94.98
PLN03212249 Transcription repressor MYB5; Provisional 94.86
PLN03212249 Transcription repressor MYB5; Provisional 94.82
PLN03162526 golden-2 like transcription factor; Provisional 94.75
COG5114 432 Histone acetyltransferase complex SAGA/ADA, subuni 94.62
PLN03091 459 hypothetical protein; Provisional 94.11
smart0042668 TEA TEA domain. 90.61
PLN031421033 Probable chromatin-remodeling complex ATPase chain 90.3
KOG0049 939 consensus Transcription factor, Myb superfamily [T 85.1
KOG3841455 consensus TEF-1 and related transcription factor, 83.24
KOG4468 782 consensus Polycomb-group transcriptional regulator 81.95
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information 
Probab=99.48  E-value=3e-15  Score=137.66  Aligned_cols=236  Identities=16%  Similarity=0.085  Sum_probs=147.2

Q ss_pred             cccCcHHHHHHHHHHcCCchHHHHhhhcCCCHHHHHhHHHHHHHHHHhc----CCCCCCCCCCCCCCCCCCCCccccCCC
Q 024485            9 VFLSRWPYIIMILFRFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKN----GTAEHLPPPRPKRKAAHPYPQKASKNA   84 (267)
Q Consensus         9 ~~~GrW~~FLegL~~yGrdWkkIa~~VgTRT~~QVrSHAQKYF~Kl~k~----g~~~~~Pppr~kRks~hp~p~k~~~~~   84 (267)
                      |+-.+|++|.++|..|++.|++|.+|++.++.+|+++|+|+||-++.+.    ...+.+|++++++++.|+|+++...+.
T Consensus        56 ~t~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~k~~~~y~~~~~~~~  135 (335)
T KOG0724|consen   56 RTPDSWDKFAEALPLEKRLEDKIEEYIGLVFDVNIRESGQKPFPKYGKSDTSLAEVEEFYNFWPKFKSWRQYPQKDEPDE  135 (335)
T ss_pred             cchhhhhHHHhcCccccccchhHHhhhhhHHHHhhhhccCCCccccCccccccccccccCCccccccccccCCCCCCccc
Confidence            6889999999999999889999999999999999999999999999985    223349999999999999999987642


Q ss_pred             CccccccCcccCCCCcCCCCcccCCCCccccccccccCC-CCCCCC-CCcccCCCCC-CCCCccCCCCCCCCCCCccccc
Q 024485           85 PMLSQVSGSFQSSSAQLEPGHFLRPDSSSMLMIPMASAA-TSWTNN-VQTVSLSPAS-KGPEVANNRSNSTDSTPKARVS  161 (267)
Q Consensus        85 ~~~~q~~~~~qss~~~~~pg~~~~~dsss~~~~~~~s~~-~sw~~~-~~~~~~~~~~-kg~~~~~n~~s~~es~p~~~~~  161 (267)
                      ... +.... ....... +++....+..+..+++.+... ..|... .......... ........+....++-+.....
T Consensus       136 ~~~-~~~~~-~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~s~a~~~~~  212 (335)
T KOG0724|consen  136 EDS-ENRSQ-SRYSGGT-QRGKSNAEELRRKGTPVTERERKLVLLALKKDGKIDWRKISQNVEKERTPEQVASHAQEKAF  212 (335)
T ss_pred             ccc-cchhh-hhhcccc-cccccchhhhhhccchhHHHHHHHHHhhhcccccccceechhhhhhhhcchhhhhhhhhhhh
Confidence            211 11000 0111112 333333332222232222211 111111 0000000000 0000011111111110000000


Q ss_pred             CccccCCCCcccCCCCCCCCcCCCChHHHhh--hhhccc-----C----CCchhHHHHhhcCCcchHHHHHHHHH-Hhhh
Q 024485          162 GELTDQGGELTDQGNNSHPLRVLPDFAQVYT--FIGSVF-----D----PNASDHVQKLKKMDPIDVETVLLLMR-NLSI  229 (267)
Q Consensus       162 ~~~~~~~ge~~~~~~~~~~l~~~PdFaqVY~--FiGsvF-----D----p~~~~hlqkLk~MDPId~ETvLLLMr-NLsi  229 (267)
                      . .-..-....+.....+.++.++++++++.  +.++++     +    |...+|.+.++.|++++.++..+.|. |+..
T Consensus       213 ~-~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  291 (335)
T KOG0724|consen  213 E-KALARQKSGEEEKRRKSIEDITTASEAEDRKKEDEAAKEAKKKPRDTPSLKSRNKRLKSFDGIAEESSETEDSLELVA  291 (335)
T ss_pred             H-HHHHHHhhhccccccchhhhhhccchhhhhhcchhhhhhhhccccccccccchhhhcccCCccCCCchhHHHhHHHHH
Confidence            0 00000122334455667889999999988  999999     7    88999999999999999999999999 8999


Q ss_pred             cCCCcchHHHHHHhhhccCC
Q 024485          230 NLTSPDFEDHRRLLSSYEID  249 (267)
Q Consensus       230 NL~sp~fe~~~~llssy~~~  249 (267)
                      +|+++.|++++.+++. ...
T Consensus       292 ~~~~~~~~~~~~~~~~-~~~  310 (335)
T KOG0724|consen  292 ALSAPMEEPQWELKAA-AGS  310 (335)
T ss_pred             hhhccccccHHHHHhh-ccc
Confidence            9999999999766666 444

>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class Back     alignment and domain information
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins Back     alignment and domain information
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains Back     alignment and domain information
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains Back     alignment and domain information
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A Back     alignment and domain information
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics] Back     alignment and domain information
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription] Back     alignment and domain information
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics] Back     alignment and domain information
>PLN03091 hypothetical protein; Provisional Back     alignment and domain information
>PLN03212 Transcription repressor MYB5; Provisional Back     alignment and domain information
>PLN03212 Transcription repressor MYB5; Provisional Back     alignment and domain information
>PLN03162 golden-2 like transcription factor; Provisional Back     alignment and domain information
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics] Back     alignment and domain information
>PLN03091 hypothetical protein; Provisional Back     alignment and domain information
>smart00426 TEA TEA domain Back     alignment and domain information
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional Back     alignment and domain information
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription] Back     alignment and domain information
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription] Back     alignment and domain information
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query267
2cu7_A72 Solution Structure Of The Sant Domain Of Human Kiaa 2e-04
>pdb|2CU7|A Chain A, Solution Structure Of The Sant Domain Of Human Kiaa1915 Protein Length = 72 Back     alignment and structure 
Iteration: 1

 Score = 42.7 bits (99), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/38 (47%), Positives = 26/38 (68%)
Query: 21 LFRFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNG 58
          L +F R W KI   IGS+TV+Q++S+A++YF    K G
Sbjct: 24 LAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVKCG 61

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query267
2cu7_A72 KIAA1915 protein; nuclear protein, SANT domain, DN 3e-17
2yum_A75 ZZZ3 protein, zinc finger ZZ-type-containing prote 2e-12
2ltp_A89 Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s 3e-10
2iw5_B235 Protein corest, REST corepressor 1; oxidoreductase 5e-07
1x41_A60 Transcriptional adaptor 2-like, isoform B; transcr 9e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-04
>2cu7_A KIAA1915 protein; nuclear protein, SANT domain, DNA binding, regulation of transcription, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3 Length = 72 Back     alignment and structure
 Score = 73.3 bits (180), Expect = 3e-17
 Identities = 19/47 (40%), Positives = 29/47 (61%)

Query: 21 LFRFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGTAEHLPPPR 67
          L +F R W KI   IGS+TV+Q++S+A++YF    K G  +  P  +
Sbjct: 24 LAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVKCGLDKETPNQK 70
>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 75 Back     alignment and structure
>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural genomics consortium, NESG, north structural genomics consortium; NMR {Homo sapiens} Length = 89 Back     alignment and structure
>2iw5_B Protein corest, REST corepressor 1; oxidoreductase-transcription regulator complex, oxidoreductase/repressor complex, histone demethylase, FAD; HET: FAD; 2.57A {Homo sapiens} SCOP: a.4.1.3 PDB: 2uxn_B* 2uxx_B* 2y48_B* 2v1d_B* 2x0l_B* Length = 235 Back     alignment and structure
>1x41_A Transcriptional adaptor 2-like, isoform B; transcriptional adaptor protein2, transcriptional activation, MYB domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Length = 60 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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query267
2cu7_A72 KIAA1915 protein; nuclear protein, SANT domain, DN 99.26
2yum_A75 ZZZ3 protein, zinc finger ZZ-type-containing prote 99.18
2yus_A79 SWI/SNF-related matrix-associated actin- dependent 98.91
2xag_B482 REST corepressor 1; amine oxidase, chromatin regul 98.83
1irz_A64 ARR10-B; helix-turn-helix, DNA binding protein; NM 98.79
2elk_A58 SPCC24B10.08C protein; hypothetical protein, struc 98.78
2iw5_B235 Protein corest, REST corepressor 1; oxidoreductase 98.76
1x41_A60 Transcriptional adaptor 2-like, isoform B; transcr 98.63
2eqr_A61 N-COR1, N-COR, nuclear receptor corepressor 1; SAN 98.6
2ltp_A89 Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s 97.65
2yqk_A63 Arginine-glutamic acid dipeptide repeats protein; 98.31
1guu_A52 C-MYB, MYB proto-oncogene protein; transcription, 98.26
2din_A66 Cell division cycle 5-like protein; MYB_DNA-bindin 98.2
2cqq_A72 RSGI RUH-037, DNAJ homolog subfamily C member 1; m 98.19
2crg_A70 Metastasis associated protein MTA3; transcription 98.16
1gvd_A52 MYB proto-oncogene protein; transcription, transcr 98.11
2cqr_A73 RSGI RUH-043, DNAJ homolog subfamily C member 1; m 98.1
2cjj_A93 Radialis; plant development, DNA-binding protein, 98.1
2d9a_A60 B-MYB, MYB-related protein B; DNA binding, structu 98.07
2k9n_A107 MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind 97.96
1wgx_A73 KIAA1903 protein; MYB DNA-binding domain, human cD 97.95
2dim_A70 Cell division cycle 5-like protein; MYB_DNA-bindin 97.83
1w0t_A53 Telomeric repeat binding factor 1; telomere, DNA-b 97.71
3osg_A126 MYB21; transcription-DNA complex, MYB2, R2R3 domai 97.71
4a69_C94 Nuclear receptor corepressor 2; transcription, hyd 97.7
4eef_G74 F-HB80.4, designed hemagglutinin binding protein; 97.68
3zqc_A131 MYB3; transcription-DNA complex, DNA-binding prote 97.68
1gv2_A105 C-MYB, MYB proto-oncogene protein; transcription, 97.68
1ity_A69 TRF1; helix-turn-helix, telomeres, DNA binding, MY 97.63
1gv2_A105 C-MYB, MYB proto-oncogene protein; transcription, 97.52
3osg_A126 MYB21; transcription-DNA complex, MYB2, R2R3 domai 97.5
2k9n_A107 MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind 97.44
3zqc_A131 MYB3; transcription-DNA complex, DNA-binding prote 97.4
1h8a_C128 AMV V-MYB, MYB transforming protein; transcription 97.38
3sjm_A64 Telomeric repeat-binding factor 2; human telomeric 97.32
1h8a_C128 AMV V-MYB, MYB transforming protein; transcription 97.23
1h89_C159 C-MYB, MYB proto-oncogene protein; transcription/D 97.15
2llk_A73 Cyclin-D-binding MYB-like transcription factor 1; 97.1
2ckx_A83 NGTRF1, telomere binding protein TBP1; nuclear pro 96.99
1ofc_X304 ISWI protein; nuclear protein, chromatin remodelin 96.74
1h89_C159 C-MYB, MYB proto-oncogene protein; transcription/D 96.66
2aje_A105 Telomere repeat-binding protein; DNA-binding, Trp, 96.07
1x58_A62 Hypothetical protein 4930532D21RIK; MUS musculus a 95.65
2roh_A122 RTBP1, telomere binding protein-1; plant, nucleus, 95.6
2juh_A121 Telomere binding protein TBP1; helix, nucleus, nuc 95.19
2y9y_A374 Imitation switch protein 1 (DEL_ATPase); transcrip 94.05
1ign_A246 Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, 92.69
2xag_B482 REST corepressor 1; amine oxidase, chromatin regul 91.43
2hzd_A82 Transcriptional enhancer factor TEF-1; DNA-binding 88.35
>2cu7_A KIAA1915 protein; nuclear protein, SANT domain, DNA binding, regulation of transcription, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3 Back     alignment and structure
Probab=99.26  E-value=7.3e-12  Score=92.47  Aligned_cols=60  Identities=30%  Similarity=0.449  Sum_probs=50.9

Q ss_pred             ccccCcHHHHHHHHHHcCCchHHHHhhhcCCCHHHHHhHHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 024485            8 PVFLSRWPYIIMILFRFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGTAEHLPPPRPKRKAAH   74 (267)
Q Consensus         8 p~~~GrW~~FLegL~~yGrdWkkIa~~VgTRT~~QVrSHAQKYF~Kl~k~g~~~~~Pppr~kRks~h   74 (267)
                      ||..++-.+|++++++||.+|..||++|++||..||+.|+++||.+..+.|.       .+.+.++|
T Consensus        11 ~WT~eEd~~l~~~~~~~G~~W~~Ia~~~~~Rt~~q~k~r~~~~l~~~~~~g~-------~~~~~si~   70 (72)
T 2cu7_A           11 KWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVKCGL-------DKETPNQK   70 (72)
T ss_dssp             CCCHHHHHHHHHHHHHTCSCHHHHHHHHSSSCHHHHHHHHHHHHHHHSCSCT-------TCCCSCCC
T ss_pred             CCCHHHHHHHHHHHHHHCcCHHHHHHHcCCCCHHHHHHHHHHHHHHHHhcCC-------CCCccccc
Confidence            4555555699999999999999999999999999999999999999987764       34555666
>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2yus_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; SWI/SNF complex 155 kDa subunit, BRG1-associated factor 155; NMR {Homo sapiens} Back     alignment and structure
>2xag_B REST corepressor 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_B* 2xah_B* 2xaj_B* 2xaq_B* 2xas_B* Back     alignment and structure
>1irz_A ARR10-B; helix-turn-helix, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.11 Back     alignment and structure
>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe} Back     alignment and structure
>2iw5_B Protein corest, REST corepressor 1; oxidoreductase-transcription regulator complex, oxidoreductase/repressor complex, histone demethylase, FAD; HET: FAD; 2.57A {Homo sapiens} SCOP: a.4.1.3 PDB: 2uxn_B* 2uxx_B* 2y48_B* 2v1d_B* 2x0l_B* Back     alignment and structure
>1x41_A Transcriptional adaptor 2-like, isoform B; transcriptional adaptor protein2, transcriptional activation, MYB domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Back     alignment and structure
>2eqr_A N-COR1, N-COR, nuclear receptor corepressor 1; SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural genomics consortium, NESG, north structural genomics consortium; NMR {Homo sapiens} Back     alignment and structure
>2yqk_A Arginine-glutamic acid dipeptide repeats protein; structure genomics, SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1guu_A C-MYB, MYB proto-oncogene protein; transcription, transcription regulation, DNA binding, ION bindi proto-oncogene, nuclear protein, activator; 1.6A {Mus musculus} SCOP: a.4.1.3 PDB: 1mbe_A 1mbf_A Back     alignment and structure
>2din_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2cqq_A RSGI RUH-037, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3 Back     alignment and structure
>2crg_A Metastasis associated protein MTA3; transcription factor, helix turn helix, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.3 Back     alignment and structure
>1gvd_A MYB proto-oncogene protein; transcription, transcription regulation, C-MYB, DNA binding, ION binding, nuclear protein; 1.45A {Mus musculus} SCOP: a.4.1.3 PDB: 1gv5_A 1mbg_A 1mbh_A Back     alignment and structure
>2cqr_A RSGI RUH-043, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3 Back     alignment and structure
>2cjj_A Radialis; plant development, DNA-binding protein, MYB transcription FA DNA-binding, nuclear protein, floral asymmetry; 1.9A {Antirrhinum majus} SCOP: a.4.1.3 Back     alignment and structure
>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics, unknown function, NPPSFA; NMR {Mus musculus} Back     alignment and structure
>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A Back     alignment and structure
>1wgx_A KIAA1903 protein; MYB DNA-binding domain, human cDNA, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.4.1.3 Back     alignment and structure
>2dim_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1w0t_A Telomeric repeat binding factor 1; telomere, DNA-binding protein, homeodomain, mitosis, cell cycle; 2.00A {Homo sapiens} SCOP: a.4.1.4 PDB: 1ba5_A Back     alignment and structure
>3osg_A MYB21; transcription-DNA complex, MYB2, R2R3 domain, DNA binding PR transcription factor; 2.00A {Trichomonas vaginalis} PDB: 3osf_A Back     alignment and structure
>4a69_C Nuclear receptor corepressor 2; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} PDB: 1xc5_A Back     alignment and structure
>4eef_G F-HB80.4, designed hemagglutinin binding protein; immunoglobulin, fusion of virus membrane with membrane, membrane fusion, sialic acid, virion; HET: NAG BMA; 2.70A {Artificial gene} Back     alignment and structure
>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis} Back     alignment and structure
>1gv2_A C-MYB, MYB proto-oncogene protein; transcription, DNA binding, ION binding; 1.68A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 PDB: 1mse_C* 1msf_C* 1a5j_A 1idy_A 1idz_A 1mbj_A 1mbk_A Back     alignment and structure
>1ity_A TRF1; helix-turn-helix, telomeres, DNA binding, MYB domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.4 PDB: 1iv6_A Back     alignment and structure
>1gv2_A C-MYB, MYB proto-oncogene protein; transcription, DNA binding, ION binding; 1.68A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 PDB: 1mse_C* 1msf_C* 1a5j_A 1idy_A 1idz_A 1mbj_A 1mbk_A Back     alignment and structure
>3osg_A MYB21; transcription-DNA complex, MYB2, R2R3 domain, DNA binding PR transcription factor; 2.00A {Trichomonas vaginalis} PDB: 3osf_A Back     alignment and structure
>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A Back     alignment and structure
>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis} Back     alignment and structure
>1h8a_C AMV V-MYB, MYB transforming protein; transcription/DNA; 2.23A {Avian myeloblastosis virus} SCOP: a.4.1.3 a.4.1.3 Back     alignment and structure
>3sjm_A Telomeric repeat-binding factor 2; human telomeric repeat binding protein 2, telomere, telomeri homeodomain proteins amino acid sequence; HET: DNA; 1.35A {Homo sapiens} PDB: 1xg1_A 1vfc_A 1vf9_A 1w0u_A Back     alignment and structure
>1h8a_C AMV V-MYB, MYB transforming protein; transcription/DNA; 2.23A {Avian myeloblastosis virus} SCOP: a.4.1.3 a.4.1.3 Back     alignment and structure
>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C Back     alignment and structure
>2llk_A Cyclin-D-binding MYB-like transcription factor 1; helix bundle, SGC, structural genomics consortium, NESG, NOR structural genomics consortium; NMR {Homo sapiens} Back     alignment and structure
>2ckx_A NGTRF1, telomere binding protein TBP1; nuclear protein; 1.9A {Nicotiana tabacum} SCOP: a.4.1.3 PDB: 2qhb_A Back     alignment and structure
>1ofc_X ISWI protein; nuclear protein, chromatin remodeling factor, ATPase, SANT domain, nucleosome recognition; HET: GLC G4D; 1.9A {Drosophila melanogaster} SCOP: a.4.1.3 a.4.1.13 a.187.1.1 PDB: 2nog_A Back     alignment and structure
>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C Back     alignment and structure
>2aje_A Telomere repeat-binding protein; DNA-binding, Trp, MYB motif, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.3 Back     alignment and structure
>1x58_A Hypothetical protein 4930532D21RIK; MUS musculus adult MALE testis cDNA, riken FULL-length enriched library, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.1 Back     alignment and structure
>2roh_A RTBP1, telomere binding protein-1; plant, nucleus, DNA binding protein; NMR {Oryza sativa} Back     alignment and structure
>2juh_A Telomere binding protein TBP1; helix, nucleus, nuclear protein; NMR {Nicotiana glutinosa} Back     alignment and structure
>2y9y_A Imitation switch protein 1 (DEL_ATPase); transcription, nuclear protein complex, chromatin remodeling nucleosome remodeling; 3.25A {Saccharomyces cerevisiae} PDB: 2y9z_A Back     alignment and structure
>1ign_A Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, DNA binding protein/DNA complex; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: a.4.1.6 a.4.1.6 PDB: 3ukg_A Back     alignment and structure
>2xag_B REST corepressor 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_B* 2xah_B* 2xaj_B* 2xaq_B* 2xas_B* Back     alignment and structure
>2hzd_A Transcriptional enhancer factor TEF-1; DNA-binding, helix-turn-helix, gene regulation; NMR {Homo sapiens} 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 267
d2cu7a165 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sap 5e-08
d1irza_64 a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis th 7e-05
d2iw5b165 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Hu 4e-04
>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]} Length = 65 Back     information, alignment and structure

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: MYSM1 (KIAA1915)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.8 bits (111), Expect = 5e-08
 Identities = 21/56 (37%), Positives = 30/56 (53%), Gaps = 4/56 (7%)

Query: 17 IIMILFRFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKNGTAEHLPPPRPKRKA 72
              L +F R W KI   IGS+TV+Q++S+A++YF    K G    L    P +K 
Sbjct: 13 FEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVKCG----LDKETPNQKT 64
>d1irza_ a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 64 Back     information, alignment and structure
>d2iw5b1 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Human (Homo sapiens) [TaxId: 9606]} Length = 65 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 ?
Query267
d1irza_64 Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId 99.36
d2cu7a165 MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 960 99.22
d1x41a147 Transcriptional adaptor 2-like, TADA2L, isoform b 98.98
d2iw5b165 REST corepressor 1, CoREST {Human (Homo sapiens) [ 98.67
d1xc5a168 Nuclear receptor corepressor 2 {Human (Homo sapien 98.66
d2crga157 Metastasis associated protein MTA3 {Mouse (Mus mus 98.37
d2cjja163 Radialis {Garden snapdragon (Antirrhinum majus) [T 98.31
d1gvda_52 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 98.08
d1guua_50 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 98.07
d1gv2a247 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 98.04
d2cqra160 DnaJ homolog subfamily C member 1 {Human (Homo sap 98.01
d2cqqa159 DnaJ homolog subfamily C member 1 {Human (Homo sap 97.34
d1ofcx152 SANT domain of the nucleosome remodeling ATPase IS 97.24
d1w0ua_55 Telomeric repeat binding factor 2, TRF2 {Human (Ho 97.24
d1w0ta_52 DNA-binding domain of human telomeric protein, hTR 97.04
d1igna186 DNA-binding domain of rap1 {Baker's yeast (Sacchar 96.15
d2ckxa183 Telomere binding protein TBP1 {Tobacco (Nicotiana 94.93
d1ug2a_95 2610100b20rik gene product {Mouse (Mus musculus) [ 94.92
>d1irza_ a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: GARP response regulators
domain: Arr10-B
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.36  E-value=2.2e-13  Score=99.32  Aligned_cols=52  Identities=19%  Similarity=0.129  Sum_probs=45.5

Q ss_pred             EeccccCcHHHHHHHHHHcCCch---HHHHhh--hcCCCHHHHHhHHHHHHHHHHhc
Q 024485            6 LVPVFLSRWPYIIMILFRFDRDW---KKIEAF--IGSKTVIQIRSHAQKYFLKVQKN   57 (267)
Q Consensus         6 ~vp~~~GrW~~FLegL~~yGrdW---kkIa~~--VgTRT~~QVrSHAQKYF~Kl~k~   57 (267)
                      ++.|+.+.|++|++|++.||.+|   ++|.++  |.++|..||+||+||||++++|.
T Consensus         7 R~~WT~elH~~Fv~Av~~lG~~~atpk~I~~~m~v~~lT~~qV~SHlQKYrl~l~k~   63 (64)
T d1irza_           7 RVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKFRVALKKV   63 (64)
T ss_dssp             SCSSCHHHHHHHHHHHHHHCTTTCCHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHSC
T ss_pred             CCCCCHHHHHHHHHHHHHhCccccchHHHHHHcCCCCCCHHHHHHHHHHHHHHHHhc
Confidence            45788888999999999999977   788754  77889999999999999999864
>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x41a1 a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, TADA2L, isoform b {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2iw5b1 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1xc5a1 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2crga1 a.4.1.3 (A:8-64) Metastasis associated protein MTA3 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2cjja1 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Antirrhinum majus) [TaxId: 4151]} Back     information, alignment and structure
>d1gvda_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1gv2a2 a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2cqra1 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqqa1 a.4.1.3 (A:8-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ofcx1 a.4.1.3 (X:799-850) SANT domain of the nucleosome remodeling ATPase ISWI {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1w0ua_ a.4.1.4 (A:) Telomeric repeat binding factor 2, TRF2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1w0ta_ a.4.1.4 (A:) DNA-binding domain of human telomeric protein, hTRF1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1igna1 a.4.1.6 (A:360-445) DNA-binding domain of rap1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2ckxa1 a.4.1.3 (A:578-660) Telomere binding protein TBP1 {Tobacco (Nicotiana tabacum) [TaxId: 4097]} Back     information, alignment and structure
>d1ug2a_ a.4.1.3 (A:) 2610100b20rik gene product {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure