Citrus Sinensis ID: 020752

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--
MGAPKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAIWGSRQKAKLALKKTSLTPKLDGRTPVIPKHDGRTPVTPKQDGRTQMTPKHDDNTIALSTAPQNDEVVDAKPLAISSGTMQASGSKEPVARLDKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRITPNTPVSVPKRSPKLLLEGRQKGSPKAQKKEINILTKSLVDADLSRMRGMTAQEAAAAAAQAIAEAEVAIAEAEEAAREAERAEAEAEAAQVFAKAAIKALKCRALHT
cccccccccHHHHHHHHHHHHHHccccHHHHHcccccccccccccHHHHHHHHHHHHHHHHHccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
cccccccccHHHHHHHHHHHHHcccccHHHHHccccHHHHHHccccccHHHHHHccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccEEcccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccEEEEccEEEEcccccccccccccccccccccccccccccccccccccccccHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
MGAPKQKWTAEEEAALKAGVrkhgtgkwrtilsdpefsailhsrsnvdlkdkwrNINVTAIWGSRQKAKLALKktsltpkldgrtpvipkhdgrtpvtpkqdgrtqmtpkhddntialstapqndevvdakplaissgtmqasgskepvARLDKLILEAISnlkepngsdrasIASYIEDQYWAPANLRKLLATKLKFLSANGTlikakhkyritpntpvsvpkrspklllegrqkgspkaqKKEINILTKSLVDADLSRMRGMTAQEAAAAAAQAIAEAEVAIAEAEEAAREAERAEAEAEAAQVFAKAAIKALKCRALHT
mgapkqkwtAEEEAALkagvrkhgtgkWRTILSDPEFSAILhsrsnvdlkdkwRNINVTaiwgsrqkaklalkktsltpkldgrtpvipkhdgrtpvtpkqdgrtqmtpkhDDNTIalstapqndevVDAKPLAIssgtmqasgskepVARLDKLILEAIsnlkepngsdRASIASYIEDQYWAPANLRKLLATKLKFLSANGtlikakhkyritpntpvsvpkrspklllegrqkgspkaqkkeiniltkslvdadLSRMRGMTAQEAAAAAAQAIAEAEVAIAEAEEAAREAERAEAEAEAAQVFAKAAIKALKCRALHT
MGAPKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAIWGSRQkaklalkktsltpklDGRTPVIPKHDGRTPVTPKQDGRTQMTPKHDDNTIALSTAPQNDEVVDAKPLAISSGTMQASGSKEPVARLDKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRITPNTPVSVPKRSPKLLLEGRQKGSPKAQKKEINILTKSLVDADLSRMRGMTaqeaaaaaaqaiaeaevaiaeaeeaareaeraeaeaeaaqvfakaaikaLKCRALHT
********************RKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAIWGSRQKAKL***********************************************************************************KLILEAI************SIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRIT******************************************************************************************VFAKAAIKALKC*****
***PKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI**************************************************************************************PVARLDKLILEAISN******SDRASIASYIEDQYWAPANLRKLLATKLKFLSANGT********************************************************************AAQAIAEAEVAIAEAE*************EAAQVFAKAAIKALKCRAL**
**********EEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAIWGSRQKAKLALKKTSLTPKLDGRTPVIPKHDG*****************HDDNTIALSTAPQNDEVVDAKPLAISS**********PVARLDKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRITPNTPVSVPKRSPKLLLEG**********KEINILTKSLVDADLSRMRG**************AEAEVAIAE******************QVFAKAAIKALKCRALHT
******KWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVT*******************************************************************VVD******************PVARLDKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRITPN*************************************DADLSR*RGMTAQEAAAAAAQAIAEAEVAIAEAEEAAREAERAEAEAEAAQVFAKAAIKALKCRAL**
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MGAPKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAIWGSRQKAKLALKKTSLTPKLDGRTPVIPKHDGRTPVTPKQDGRTQMTPKHDDNTIALSTAPQNDEVVDAKPLAISSGTMQASGSKEPVARLDKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRITPNTPVSVPKRSPKLLLEGRQKGSPKAQKKEINILTKSLVDADLSRMRGMTAQEAxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxAKAAIKALKCRALHT
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 ?
Query322 2.2.26 [Sep-21-2011]
Q9FJW5299 Telomere repeat-binding f yes no 0.897 0.966 0.559 1e-65
Q8VWK4300 Telomere repeat-binding f no no 0.717 0.77 0.460 3e-59
Q9M2X3295 Telomere repeat-binding f no no 0.903 0.986 0.504 2e-57
F4I7L1296 Telomere repeat-binding f no no 0.826 0.898 0.350 2e-28
F4IEY4287 Telomere repeat-binding f no no 0.810 0.909 0.346 2e-27
P23444246 Histone H1 OS=Zea mays PE N/A no 0.189 0.247 0.444 7e-07
P27806238 Histone H1 OS=Triticum ae N/A no 0.186 0.252 0.451 2e-06
Q9PU53718 Telomeric repeat-binding yes no 0.177 0.079 0.393 3e-06
P70371421 Telomeric repeat-binding yes no 0.149 0.114 0.442 2e-05
P40267202 Histone H1 OS=Solanum pen N/A no 0.189 0.301 0.412 5e-05
>sp|Q9FJW5|TRB2_ARATH Telomere repeat-binding factor 2 OS=Arabidopsis thaliana GN=TRB2 PE=1 SV=1 Back     alignment and function desciption
 Score =  249 bits (637), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 180/322 (55%), Positives = 216/322 (67%), Gaps = 33/322 (10%)

Query: 1   MGAPKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60
           MGAPKQKWT EEEAALKAGV KHGTGKWRTILSD EFS IL SRSNVDLKDKWRNI+VTA
Sbjct: 1   MGAPKQKWTPEEEAALKAGVLKHGTGKWRTILSDTEFSLILKSRSNVDLKDKWRNISVTA 60

Query: 61  IWGSRQKAKLALKKTSLTPKLDGRTPVIPKHDGRTPVTPKQDGRTQMTPKHDDNTIALST 120
           +WGSR+KAKLALK                    RTP   KQD         D+NT     
Sbjct: 61  LWGSRKKAKLALK--------------------RTPPGTKQD---------DNNTALTIV 91

Query: 121 APQNDE--VVDAKPLAISSGTMQASGSKEPVARLDKLILEAISNLKEPNGSDRASIASYI 178
           A  ND+       P     G+ +   SK  +  LDK+I EAI+NL+E  GSDR SI  YI
Sbjct: 92  ALTNDDERAKPTSPGGSGGGSPRTCASKRSITSLDKIIFEAITNLRELRGSDRTSIFLYI 151

Query: 179 EDQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRITPN-TPVSVPKRSPKLLLEGRQKG 237
           E+ +  P N+++ +A +LK LS+NGTL+K KHKYR + N  P    +++P+L LEG  K 
Sbjct: 152 EENFKTPPNMKRHVAVRLKHLSSNGTLVKIKHKYRFSSNFIPAGARQKAPQLFLEGNNKK 211

Query: 238 SP-KAQKKEINILTKSLVDADLSRMRGMTAQEAAAAAAQAIAEAEVAIAEAEEAAREAER 296
            P K ++   N LTK  VD +L  ++GMTAQEAA AAA+A+AEAE AI EAE+AA+EAER
Sbjct: 212 DPTKPEENGANSLTKFRVDGELYMIKGMTAQEAAEAAARAVAEAEFAITEAEQAAKEAER 271

Query: 297 AEAEAEAAQVFAKAAIKALKCR 318
           AEAEAEAAQ+FAKAA+KALK R
Sbjct: 272 AEAEAEAAQIFAKAAMKALKFR 293
Binds preferentially double-stranded telomeric repeats, but it can also bind to the single G-rich telomeric strand.
Arabidopsis thaliana (taxid: 3702)
>sp|Q8VWK4|TRB1_ARATH Telomere repeat-binding factor 1 OS=Arabidopsis thaliana GN=TRB1 PE=1 SV=1 Back     alignment and function description
>sp|Q9M2X3|TRB3_ARATH Telomere repeat-binding factor 3 OS=Arabidopsis thaliana GN=TRB3 PE=1 SV=1 Back     alignment and function description
>sp|F4I7L1|TRB4_ARATH Telomere repeat-binding factor 4 OS=Arabidopsis thaliana GN=At1g17520 PE=2 SV=2 Back     alignment and function description
>sp|F4IEY4|TRB5_ARATH Telomere repeat-binding factor 5 OS=Arabidopsis thaliana GN=At1g72740 PE=2 SV=1 Back     alignment and function description
>sp|P23444|H1_MAIZE Histone H1 OS=Zea mays PE=2 SV=2 Back     alignment and function description
>sp|P27806|H1_WHEAT Histone H1 OS=Triticum aestivum PE=2 SV=2 Back     alignment and function description
>sp|Q9PU53|TERF2_CHICK Telomeric repeat-binding factor 2 OS=Gallus gallus GN=TERF2 PE=1 SV=2 Back     alignment and function description
>sp|P70371|TERF1_MOUSE Telomeric repeat-binding factor 1 OS=Mus musculus GN=Terf1 PE=1 SV=1 Back     alignment and function description
>sp|P40267|H1_SOLPN Histone H1 OS=Solanum pennellii 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 ?
Query322
327412627301 putative MYB transcription factor [Rosa 0.900 0.963 0.664 2e-86
227937306292 MYB [Carica papaya] 0.900 0.993 0.654 3e-85
449448210308 PREDICTED: telomere repeat-binding facto 0.900 0.941 0.653 1e-84
449499856306 PREDICTED: LOW QUALITY PROTEIN: telomere 0.900 0.947 0.65 1e-83
224129728293 single myb histone [Populus trichocarpa] 0.900 0.989 0.649 7e-82
224095045293 single myb histone [Populus trichocarpa] 0.903 0.993 0.634 1e-81
71041114304 MYBR6 [Malus x domestica] 0.900 0.953 0.661 1e-81
255568611303 Histone H1.1, putative [Ricinus communis 0.903 0.960 0.656 1e-81
356496995298 PREDICTED: uncharacterized protein LOC77 0.897 0.969 0.633 3e-80
356540626313 PREDICTED: uncharacterized protein LOC10 0.897 0.923 0.629 8e-80
>gi|327412627|emb|CCA29102.1| putative MYB transcription factor [Rosa rugosa] Back     alignment and taxonomy information
 Score =  325 bits (832), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 214/322 (66%), Positives = 244/322 (75%), Gaps = 32/322 (9%)

Query: 1   MGAPKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60
           MGAPKQKWT EEEAALKAGV KHG GKWRTILSD EF AILH RSNVDLKDKWRNINVTA
Sbjct: 1   MGAPKQKWTPEEEAALKAGVLKHGAGKWRTILSDKEFGAILHLRSNVDLKDKWRNINVTA 60

Query: 61  IWGSRQKAKLALKKTSLTPKLDGRTPVIPKHDGRTPVTPKQDGRTQMTPKHDDNTIALST 120
           IWGSRQKAKLALK+T                      TP        T K+D++ +A+ST
Sbjct: 61  IWGSRQKAKLALKRT----------------------TP--------TAKNDNSPLAVST 90

Query: 121 APQ-NDEVVDAKPLAISSGTMQASGSKEPVARLDKLILEAISNLKEPNGSDRASIASYIE 179
           A Q N+E  DAKPLA S G +Q + SK P+ARLD LI EAI+NLKEP GSDR +I +YIE
Sbjct: 91  AVQSNEETADAKPLASSGGKVQTTESKPPIARLDHLIFEAITNLKEPRGSDRNTITTYIE 150

Query: 180 DQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRITPNTPVSVPKR-SPKLLLEGRQKGS 238
           DQYWAP+NL KLL+TKLK ++ANG L+K KH+YRI PN+  S  +R S  LL EG+QK S
Sbjct: 151 DQYWAPSNLSKLLSTKLKHMTANGKLVKVKHRYRIPPNSATSEKRRNSSTLLSEGKQKDS 210

Query: 239 PKAQKKEINILTKSLVDADLSRMRGMTAQEAAAAAAQAIAEAEVAIAEAEEAAREAERAE 298
            +A K  ++ILTKS VDA+L+ +R MTAQEAAAAAAQA+AEAE AIA AEEAAREAE AE
Sbjct: 211 TRADKSVVSILTKSQVDAELTMIRSMTAQEAAAAAAQAVAEAEAAIAAAEEAAREAEAAE 270

Query: 299 AEAEAAQVFAKAAIKALKCRAL 320
           AEAEAAQVFAKAA+KALKCR L
Sbjct: 271 AEAEAAQVFAKAAVKALKCRRL 292

Source: Rosa rugosa

Species: Rosa rugosa

Genus: Rosa

Family: Rosaceae

Order: Rosales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|227937306|gb|ACP30543.2| MYB [Carica papaya] Back     alignment and taxonomy information
>gi|449448210|ref|XP_004141859.1| PREDICTED: telomere repeat-binding factor 2-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449499856|ref|XP_004160935.1| PREDICTED: LOW QUALITY PROTEIN: telomere repeat-binding factor 2-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|224129728|ref|XP_002320656.1| single myb histone [Populus trichocarpa] gi|222861429|gb|EEE98971.1| single myb histone [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224095045|ref|XP_002310337.1| single myb histone [Populus trichocarpa] gi|222853240|gb|EEE90787.1| single myb histone [Populus trichocarpa] Back     alignment and taxonomy information
>gi|71041114|gb|AAZ20445.1| MYBR6 [Malus x domestica] Back     alignment and taxonomy information
>gi|255568611|ref|XP_002525279.1| Histone H1.1, putative [Ricinus communis] gi|223535437|gb|EEF37107.1| Histone H1.1, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356496995|ref|XP_003517350.1| PREDICTED: uncharacterized protein LOC778165 [Glycine max] Back     alignment and taxonomy information
>gi|356540626|ref|XP_003538788.1| PREDICTED: uncharacterized protein LOC100796539 [Glycine max] 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 ?
Query322
TAIR|locus:2158611299 TRB2 "AT5G67580" [Arabidopsis 0.503 0.541 0.419 5.4e-59
TAIR|locus:2031095300 TRB1 "telomere repeat binding 0.487 0.523 0.425 1.6e-55
TAIR|locus:2097325295 TRB3 "telomere repeat binding 0.204 0.223 0.833 2.6e-51
TAIR|locus:2007878296 AT1G17520 [Arabidopsis thalian 0.440 0.479 0.406 4.4e-20
TAIR|locus:2030275287 AT1G72740 [Arabidopsis thalian 0.403 0.452 0.406 1.9e-19
ZFIN|ZDB-GENE-090612-2386 terf1 "telomeric repeat bindin 0.142 0.119 0.52 7.3e-07
TAIR|locus:2020193197 AT1G54260 [Arabidopsis thalian 0.204 0.335 0.363 7.4e-06
TAIR|locus:2064332273 AT2G30620 [Arabidopsis thalian 0.341 0.402 0.292 8.7e-06
TAIR|locus:2033118274 AT1G06760 [Arabidopsis thalian 0.409 0.481 0.331 8.8e-06
TAIR|locus:2060984167 HIS1-3 "histone H1-3" [Arabido 0.288 0.556 0.326 1e-05
TAIR|locus:2158611 TRB2 "AT5G67580" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 315 (115.9 bits), Expect = 5.4e-59, Sum P(2) = 5.4e-59
 Identities = 70/167 (41%), Positives = 99/167 (59%)

Query:   104 RTQMTPKHDDNTIALSTAPQNDEVVDAKPLA---ISSGTMQASGSKEPVARLDKLILEAI 160
             RT    K DDN  AL+     ++   AKP +      G+ +   SK  +  LDK+I EAI
Sbjct:    74 RTPPGTKQDDNNTALTIVALTNDDERAKPTSPGGSGGGSPRTCASKRSITSLDKIIFEAI 133

Query:   161 SNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRITPN-TP 219
             +NL+E  GSDR SI  YIE+ +  P N+++ +A +LK LS+NGTL+K KHKYR + N  P
Sbjct:   134 TNLRELRGSDRTSIFLYIEENFKTPPNMKRHVAVRLKHLSSNGTLVKIKHKYRFSSNFIP 193

Query:   220 VSVPKRSPKLLLEGRQKGSP-KAQKKEINILTKSLVDADLSRMRGMT 265
                 +++P+L LEG  K  P K ++   N LTK  VD +L  ++GMT
Sbjct:   194 AGARQKAPQLFLEGNNKKDPTKPEENGANSLTKFRVDGELYMIKGMT 240
GO:0003677 "DNA binding" evidence=ISS
GO:0005634 "nucleus" evidence=ISM;IDA
GO:0006334 "nucleosome assembly" evidence=IEA
GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS
GO:0003691 "double-stranded telomeric DNA binding" evidence=IDA
GO:0042803 "protein homodimerization activity" evidence=IPI
GO:0043047 "single-stranded telomeric DNA binding" evidence=IDA
GO:0005515 "protein binding" evidence=IPI
GO:0009651 "response to salt stress" evidence=IEP
GO:0009723 "response to ethylene stimulus" evidence=IEP
GO:0009733 "response to auxin 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
GO:0042162 "telomeric DNA binding" evidence=IDA
TAIR|locus:2031095 TRB1 "telomere repeat binding factor 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2097325 TRB3 "telomere repeat binding factor 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2007878 AT1G17520 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2030275 AT1G72740 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-090612-2 terf1 "telomeric repeat binding factor (NIMA-interacting) 1" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
TAIR|locus:2020193 AT1G54260 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2064332 AT2G30620 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2033118 AT1G06760 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2060984 HIS1-3 "histone H1-3" [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

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q9FJW5TRB2_ARATHNo assigned EC number0.55900.89750.9665yesno

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:
SMH906
single myb histone (293 aa)
(Populus trichocarpa)
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 ?
Query322
cd1166050 cd11660, SANT_TRF, Telomere repeat binding factor- 1e-19
smart0052666 smart00526, H15, Domain in histone families 1 and 9e-12
pfam0024947 pfam00249, Myb_DNA-binding, Myb-like DNA-binding d 6e-09
smart0071749 smart00717, SANT, SANT SWI3, ADA2, N-CoR and TFIII 8e-09
cd0016745 cd00167, SANT, 'SWI3, ADA2, N-CoR and TFIIIB' DNA- 3e-08
cd0007388 cd00073, H15, linker histone 1 and histone 5 domai 5e-08
pfam0053877 pfam00538, Linker_histone, linker histone H1 and H 2e-06
cd03405242 cd03405, Band_7_HflC, Band_7_HflC: The band 7 doma 5e-05
COG0330291 COG0330, HflC, Membrane protease subunits, stomati 4e-04
cd1165846 cd11658, SANT_DMAP1_like, SANT/myb-like domain of 0.002
>gnl|CDD|212558 cd11660, SANT_TRF, Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family Back     alignment and domain information 
 Score = 80.7 bits (200), Expect = 1e-19
 Identities = 27/52 (51%), Positives = 36/52 (69%), Gaps = 3/52 (5%)

Query: 6  QKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNIN 57
          +KWT EE+ AL  GV K+G G W  IL D  F   +++R++VDLKDKWRN+ 
Sbjct: 1  RKWTDEEDEALVEGVEKYGVGNWAKILKDYFF---VNNRTSVDLKDKWRNLK 49

Human telomere repeat binding factors, TRF1 and TRF2, function as part of the 6 component shelterin complex. TRF2 binds DNA and recruits RAP1 (via binding to the RAP1 protein c-terminal (RCT)) and TIN2 in the protection of telomeres from DNA repair machinery. Metazoan shelterin consists of 3 DNA binding proteins (TRF2, TRF1, and POT1) and 3 recruited proteins that bind to one or more of these DNA-binding proteins (RAP1, TIN2, TPP1). Schizosaccharomyces pombe TAZ1 is an orthlog and binds RAP1. Human TRF1 and TRF2 bind double-stranded DNA. hTRF2 consists of a basic N-terminus, a TRF homology domain, the RAP1 binding motif (RBM), the TIN2 binding motif (TBM) and a myb-like DNA binding domain, SANT, named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. Tandem copies of the domain bind telomeric DNA tandem repeats as part of the capping complex. The single myb-like domain of TRF-type proteins is similar to the tandem myb_like domains found in yeast RAP1. Length = 50
>gnl|CDD|197772 smart00526, H15, Domain in histone families 1 and 5 Back     alignment and domain information
>gnl|CDD|215818 pfam00249, Myb_DNA-binding, Myb-like DNA-binding domain Back     alignment and domain information
>gnl|CDD|197842 smart00717, SANT, SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains Back     alignment and domain information
>gnl|CDD|238096 cd00167, SANT, 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains Back     alignment and domain information
>gnl|CDD|238028 cd00073, H15, linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated proteins that bind to the exterior of nucleosomes and dramatically stabilize the highly condensed states of chromatin fibers; stabilization of higher order folding occurs through electrostatic neutralization of the linker DNA segments, through a highly positively charged carboxy- terminal domain known as the AKP helix (Ala, Lys, Pro); thought to be involved in specific protein-protein and protein-DNA interactions and play a role in suppressing core histone tail domain acetylation in the chromatin fiber Back     alignment and domain information
>gnl|CDD|215982 pfam00538, Linker_histone, linker histone H1 and H5 family Back     alignment and domain information
>gnl|CDD|239499 cd03405, Band_7_HflC, Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins Back     alignment and domain information
>gnl|CDD|223407 COG0330, HflC, Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>gnl|CDD|212556 cd11658, SANT_DMAP1_like, SANT/myb-like domain of Human Dna Methyltransferase 1 Associated Protein 1-like Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 322
cd0007388 H15 linker histone 1 and histone 5 domains; the ba 99.83
smart0052666 H15 Domain in histone families 1 and 5. 99.83
PF0053877 Linker_histone: linker histone H1 and H5 family; I 99.83
KOG4012243 consensus Histone H1 [Chromatin structure and dyna 99.5
PF0024948 Myb_DNA-binding: Myb-like DNA-binding domain; Inte 99.27
smart0071749 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-bindi 99.0
PLN03212249 Transcription repressor MYB5; Provisional 98.91
cd0016745 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding do 98.9
PF1392160 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 98.84
KOG0048238 consensus Transcription factor, Myb superfamily [T 98.66
PLN03091 459 hypothetical protein; Provisional 98.65
PLN03212249 Transcription repressor MYB5; Provisional 98.51
PLN03091459 hypothetical protein; Provisional 98.4
KOG0048238 consensus Transcription factor, Myb superfamily [T 97.92
TIGR0155757 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF c 97.81
KOG0051607 consensus RNA polymerase I termination factor, Myb 97.46
KOG0049 939 consensus Transcription factor, Myb superfamily [T 97.46
PF1383790 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; 97.3
KOG0457438 consensus Histone acetyltransferase complex SAGA/A 97.18
KOG0049 939 consensus Transcription factor, Myb superfamily [T 96.98
PF1387378 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain 96.46
PF09111118 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain 96.45
KOG1279506 consensus Chromatin remodeling factor subunit and 95.28
PF08074173 CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR01295 94.95
KOG0050 617 consensus mRNA splicing protein CDC5 (Myb superfam 94.94
PF13325199 MCRS_N: N-terminal region of micro-spherule protei 94.87
COG5147512 REB1 Myb superfamily proteins, including transcrip 94.32
PLN031421033 Probable chromatin-remodeling complex ATPase chain 94.18
COG5259531 RSC8 RSC chromatin remodeling complex subunit RSC8 93.67
COG5114432 Histone acetyltransferase complex SAGA/ADA, subuni 93.57
PF1026480 Stork_head: Winged helix Storkhead-box1 domain; In 93.28
PF1433892 Mrr_N: Mrr N-terminal domain 93.27
PF0025096 Fork_head: Fork head domain; InterPro: IPR001766 T 93.18
cd0005978 FH Forkhead (FH), also known as a "winged helix". 91.71
KOG4282345 consensus Transcription factor GT-2 and related pr 91.33
COG5147 512 REB1 Myb superfamily proteins, including transcrip 90.27
smart0033989 FH FORKHEAD. FORKHEAD, also known as a "winged hel 90.08
PF1277696 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; 88.82
PF0891465 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR0150 88.67
KOG03841373 consensus Chromodomain-helicase DNA-binding protei 88.05
KOG2656445 consensus DNA methyltransferase 1-associated prote 87.72
KOG0051607 consensus RNA polymerase I termination factor, Myb 85.65
>cd00073 H15 linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated proteins that bind to the exterior of nucleosomes and dramatically stabilize the highly condensed states of chromatin fibers; stabilization of higher order folding occurs through electrostatic neutralization of the linker DNA segments, through a highly positively charged carboxy- terminal domain known as the AKP helix (Ala, Lys, Pro); thought to be involved in specific protein-protein and protein-DNA interactions and play a role in suppressing core histone tail domain acetylation in the chromatin fiber Back     alignment and domain information 
Probab=99.83  E-value=2.1e-20  Score=149.49  Aligned_cols=70  Identities=33%  Similarity=0.486  Sum_probs=66.7

Q ss_pred             CCCCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCc-hhHHHHHHHHHHhhhhcCceeecc-----cccccCC
Q 020752          147 EPVARLDKLILEAISNLKEPNGSDRASIASYIEDQYWAP-ANLRKLLATKLKFLSANGTLIKAK-----HKYRITP  216 (322)
Q Consensus       147 ~~hp~y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~vp-~nf~~lL~~~LKrlVa~GkLvkvK-----~syKi~~  216 (322)
                      .+||+|.+||+|||.+|+||+|||+++|++||+++|++. ++|+.+|+.+|+++|++|.|++++     |+|+|+.
T Consensus         2 ~~hP~y~~MI~eAI~~l~er~GsS~~aI~kyI~~~y~~~~~~~~~~l~~aLkk~v~~G~l~~~kG~g~~gsfkl~~   77 (88)
T cd00073           2 PSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVDDENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKLSK   77 (88)
T ss_pred             CCCCCHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHCCcchHHHHHHHHHHHHHHHHCCCeEeecCCCCccceEeCC
Confidence            479999999999999999999999999999999999865 999999999999999999999999     8999974

>smart00526 H15 Domain in histone families 1 and 5 Back     alignment and domain information
>PF00538 Linker_histone: linker histone H1 and H5 family; InterPro: IPR005818 Histone proteins have central roles in both chromatin organisation (as structural units of the nucleosome) and gene regulation (as dynamic components that have a direct impact on DNA transcription and replication) Back     alignment and domain information
>KOG4012 consensus Histone H1 [Chromatin structure and dynamics] 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
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains Back     alignment and domain information
>PLN03212 Transcription repressor MYB5; Provisional Back     alignment and domain information
>cd00167 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
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription] Back     alignment and domain information
>PLN03091 hypothetical protein; Provisional Back     alignment and domain information
>PLN03212 Transcription repressor MYB5; Provisional Back     alignment and domain information
>PLN03091 hypothetical protein; Provisional Back     alignment and domain information
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription] Back     alignment and domain information
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class Back     alignment and domain information
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription] Back     alignment and domain information
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription] Back     alignment and domain information
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A Back     alignment and domain information
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics] Back     alignment and domain information
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription] Back     alignment and domain information
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain Back     alignment and domain information
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices Back     alignment and domain information
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics] Back     alignment and domain information
>PF08074 CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR012957 The CHDCT2 C-terminal domain is found in PHD/RING fingers and chromo domain-associated CHD-like helicases [] Back     alignment and domain information
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>PF13325 MCRS_N: N-terminal region of micro-spherule protein Back     alignment and domain information
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning] Back     alignment and domain information
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional Back     alignment and domain information
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription] Back     alignment and domain information
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics] Back     alignment and domain information
>PF10264 Stork_head: Winged helix Storkhead-box1 domain; InterPro: IPR019391 In humans the Storkhead-box protein controls polyploidization of extravillus trophoblast and is implicated in pre-eclampsia [] Back     alignment and domain information
>PF14338 Mrr_N: Mrr N-terminal domain Back     alignment and domain information
>PF00250 Fork_head: Fork head domain; InterPro: IPR001766 The fork head protein of Drosophila melanogaster, a transcription factor that promotes terminal rather than segmental development, contains neither homeodomains nor zinc-fingers characteristic of other transcription factors [] Back     alignment and domain information
>cd00059 FH Forkhead (FH), also known as a "winged helix" Back     alignment and domain information
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription] Back     alignment and domain information
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning] Back     alignment and domain information
>smart00339 FH FORKHEAD Back     alignment and domain information
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains Back     alignment and domain information
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif Back     alignment and domain information
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription] Back     alignment and domain information
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription] Back     alignment and domain information
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [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 ?
Query322
1w0t_A53 Htrf1 Dna-Binding Domain In Complex With Telomeric 3e-05
1ba5_A53 Dna-Binding Domain Of Human Telomeric Protein, Htrf 3e-05
3sjm_A64 Crystal Structure Analysis Of Trf2-Dbd-Dna Complex 3e-05
1iv6_A70 Solution Structure Of The Dna Complex Of Human Trf1 3e-05
1vf9_A64 Solution Structure Of Human Trf2 Length = 64 3e-05
1xg1_A67 Solution Structure Of Myb-Domain Of Human Trf2 Leng 3e-05
1ity_A69 Solution Structure Of The Dna Binding Domain Of Hum 3e-05
1vfc_A63 Solution Structure Of The Dna Complex Of Human Trf2 3e-05
1w0u_A55 Htrf2 Dna-Binding Domain In Complex With Telomeric 3e-05
>pdb|1W0T|A Chain A, Htrf1 Dna-Binding Domain In Complex With Telomeric Dna. Length = 53 Back     alignment and structure 
Iteration: 1

 Score = 46.2 bits (108), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 22/53 (41%), Positives = 34/53 (64%), Gaps = 4/53 (7%)
Query: 4  PKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNI 56
           +Q W  EE+  L++GVRK+G G W  IL   +F+    +R++V LKD+WR +
Sbjct: 1  KRQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFN----NRTSVMLKDRWRTM 49
>pdb|1BA5|A Chain A, Dna-Binding Domain Of Human Telomeric Protein, Htrf1, Nmr, 18 Structures Length = 53 Back     alignment and structure
>pdb|3SJM|A Chain A, Crystal Structure Analysis Of Trf2-Dbd-Dna Complex Length = 64 Back     alignment and structure
>pdb|1IV6|A Chain A, Solution Structure Of The Dna Complex Of Human Trf1 Length = 70 Back     alignment and structure
>pdb|1VF9|A Chain A, Solution Structure Of Human Trf2 Length = 64 Back     alignment and structure
>pdb|1XG1|A Chain A, Solution Structure Of Myb-Domain Of Human Trf2 Length = 67 Back     alignment and structure
>pdb|1ITY|A Chain A, Solution Structure Of The Dna Binding Domain Of Human Trf1 Length = 69 Back     alignment and structure
>pdb|1VFC|A Chain A, Solution Structure Of The Dna Complex Of Human Trf2 Length = 63 Back     alignment and structure
>pdb|1W0U|A Chain A, Htrf2 Dna-Binding Domain In Complex With Telomeric Dna. Length = 55 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query322
1w0u_A55 Telomeric repeat binding factor 2; telomere, DNA-b 8e-21
1vf9_A64 Telomeric repeat binding factor 2; MYB, helix-turn 6e-20
1w0t_A53 Telomeric repeat binding factor 1; telomere, DNA-b 9e-20
2ckx_A83 NGTRF1, telomere binding protein TBP1; nuclear pro 2e-18
1ity_A69 TRF1; helix-turn-helix, telomeres, DNA binding, MY 4e-18
2aje_A105 Telomere repeat-binding protein; DNA-binding, Trp, 1e-16
2roh_A122 RTBP1, telomere binding protein-1; plant, nucleus, 7e-16
2juh_A121 Telomere binding protein TBP1; helix, nucleus, nuc 3e-15
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-08
2d9a_A60 B-MYB, MYB-related protein B; DNA binding, structu 1e-07
1hst_A90 Histone H5; chromosomal protein; 2.60A {Gallus gal 2e-07
1uhm_A78 Histone H1, histone HHO1P; winged helix-turn-helix 3e-07
1ghc_A75 GH1; chromosomal protein; NMR {Gallus gallus} SCOP 5e-07
1guu_A52 C-MYB, MYB proto-oncogene protein; transcription, 5e-07
2dim_A70 Cell division cycle 5-like protein; MYB_DNA-bindin 7e-06
1ust_A93 Histone H1; DNA binding protein, linker histone, D 8e-06
1h89_C159 C-MYB, MYB proto-oncogene protein; transcription/D 1e-05
1h89_C159 C-MYB, MYB proto-oncogene protein; transcription/D 2e-04
1uss_A88 Histone H1; DNA binding protein, linker histone, D 1e-05
2lso_A83 Histone H1X; structural genomics, northeast struct 1e-05
2rqp_A88 Heterochromatin protein 1-binding protein 3; histo 1e-05
1x41_A60 Transcriptional adaptor 2-like, isoform B; transcr 3e-05
1x58_A62 Hypothetical protein 4930532D21RIK; MUS musculus a 3e-05
2llk_A73 Cyclin-D-binding MYB-like transcription factor 1; 3e-05
1gvd_A52 MYB proto-oncogene protein; transcription, transcr 4e-05
2k9n_A107 MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind 9e-05
2elk_A58 SPCC24B10.08C protein; hypothetical protein, struc 3e-04
4b4c_A211 Chromodomain-helicase-DNA-binding protein 1; chrom 8e-04
1gv2_A105 C-MYB, MYB proto-oncogene protein; transcription, 9e-04
>1w0u_A Telomeric repeat binding factor 2; telomere, DNA-binding protein, homeodomain, mitosis, cell cycle, nuclear protein; 1.8A {Homo sapiens} SCOP: a.4.1.4 Length = 55 Back     alignment and structure
 Score = 83.1 bits (206), Expect = 8e-21
 Identities = 23/57 (40%), Positives = 33/57 (57%), Gaps = 4/57 (7%)

Query: 5  KQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61
          KQKWT EE   +KAGV+K+G G W  I  +  F     +R+ V +KD+WR +    +
Sbjct: 2  KQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFV----NRTAVMIKDRWRTMKRLGM 54
>1vf9_A Telomeric repeat binding factor 2; MYB, helix-turn-helix, telomere, DNA binding protein; NMR {Homo sapiens} SCOP: a.4.1.4 PDB: 1xg1_A 1vfc_A Length = 64 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 Length = 53 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 Length = 83 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 Length = 69 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 Length = 105 Back     alignment and structure
>2roh_A RTBP1, telomere binding protein-1; plant, nucleus, DNA binding protein; NMR {Oryza sativa} Length = 122 Back     alignment and structure
>2juh_A Telomere binding protein TBP1; helix, nucleus, nuclear protein; NMR {Nicotiana glutinosa} Length = 121 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
>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics, unknown function, NPPSFA; NMR {Mus musculus} Length = 60 Back     alignment and structure
>1hst_A Histone H5; chromosomal protein; 2.60A {Gallus gallus} SCOP: a.4.5.13 Length = 90 Back     alignment and structure
>1uhm_A Histone H1, histone HHO1P; winged helix-turn-helix, linker histone, riken structural genomics/proteomics initiative, RSGI; NMR {Saccharomyces cerevisiae} SCOP: a.4.5.13 Length = 78 Back     alignment and structure
>1ghc_A GH1; chromosomal protein; NMR {Gallus gallus} SCOP: a.4.5.13 Length = 75 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 Length = 52 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} Length = 70 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 Length = 159 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 Length = 159 Back     alignment and structure
>1uss_A Histone H1; DNA binding protein, linker histone, DNA binding domain; NMR {Saccharomyces cerevisiae} SCOP: a.4.5.13 PDB: 1yqa_A Length = 88 Back     alignment and structure
>2lso_A Histone H1X; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, nuclear protein; NMR {Homo sapiens} Length = 83 Back     alignment and structure
>2rqp_A Heterochromatin protein 1-binding protein 3; histone H1, alternative splicing, chromosomal protein, DNA-binding, nucleus, phosphoprotein; NMR {Homo sapiens} Length = 88 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
>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 Length = 62 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} Length = 73 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 Length = 52 Back     alignment and structure
>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A Length = 107 Back     alignment and structure
>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe} Length = 58 Back     alignment and structure
>4b4c_A Chromodomain-helicase-DNA-binding protein 1; chromatin-remodeling, histone acetylation COMP chromatin regulation, transcription; 1.62A {Homo sapiens} Length = 211 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 Length = 105 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query322
1uss_A88 Histone H1; DNA binding protein, linker histone, D 99.87
1hst_A90 Histone H5; chromosomal protein; 2.60A {Gallus gal 99.87
1uhm_A78 Histone H1, histone HHO1P; winged helix-turn-helix 99.87
1ust_A93 Histone H1; DNA binding protein, linker histone, D 99.84
2rqp_A88 Heterochromatin protein 1-binding protein 3; histo 99.83
1ghc_A75 GH1; chromosomal protein; NMR {Gallus gallus} SCOP 99.78
1x58_A62 Hypothetical protein 4930532D21RIK; MUS musculus a 99.76
2lso_A83 Histone H1X; structural genomics, northeast struct 99.62
2aje_A105 Telomere repeat-binding protein; DNA-binding, Trp, 99.73
2roh_A122 RTBP1, telomere binding protein-1; plant, nucleus, 99.7
2ckx_A83 NGTRF1, telomere binding protein TBP1; nuclear pro 99.69
2juh_A121 Telomere binding protein TBP1; helix, nucleus, nuc 99.68
3sjm_A64 Telomeric repeat-binding factor 2; human telomeric 99.66
1w0t_A53 Telomeric repeat binding factor 1; telomere, DNA-b 99.58
1ity_A69 TRF1; helix-turn-helix, telomeres, DNA binding, MY 99.54
1guu_A52 C-MYB, MYB proto-oncogene protein; transcription, 99.45
2d9a_A60 B-MYB, MYB-related protein B; DNA binding, structu 99.44
1gvd_A52 MYB proto-oncogene protein; transcription, transcr 99.41
2dim_A70 Cell division cycle 5-like protein; MYB_DNA-bindin 99.35
1x41_A60 Transcriptional adaptor 2-like, isoform B; transcr 99.34
2elk_A58 SPCC24B10.08C protein; hypothetical protein, struc 99.28
2llk_A73 Cyclin-D-binding MYB-like transcription factor 1; 99.18
1gv2_A105 C-MYB, MYB proto-oncogene protein; transcription, 99.15
2cu7_A72 KIAA1915 protein; nuclear protein, SANT domain, DN 99.14
2k9n_A107 MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind 99.12
2yum_A75 ZZZ3 protein, zinc finger ZZ-type-containing prote 99.11
3zqc_A131 MYB3; transcription-DNA complex, DNA-binding prote 99.1
3osg_A126 MYB21; transcription-DNA complex, MYB2, R2R3 domai 99.08
2din_A66 Cell division cycle 5-like protein; MYB_DNA-bindin 99.08
1h8a_C128 AMV V-MYB, MYB transforming protein; transcription 99.07
2yus_A79 SWI/SNF-related matrix-associated actin- dependent 99.03
1gv2_A105 C-MYB, MYB proto-oncogene protein; transcription, 99.0
3zqc_A131 MYB3; transcription-DNA complex, DNA-binding prote 98.97
3osg_A126 MYB21; transcription-DNA complex, MYB2, R2R3 domai 98.96
2k9n_A107 MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind 98.95
2cqr_A73 RSGI RUH-043, DNAJ homolog subfamily C member 1; m 98.93
1h8a_C128 AMV V-MYB, MYB transforming protein; transcription 98.91
1h89_C159 C-MYB, MYB proto-oncogene protein; transcription/D 98.87
2ltp_A89 Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s 98.37
1h89_C159 C-MYB, MYB proto-oncogene protein; transcription/D 98.86
2cjj_A93 Radialis; plant development, DNA-binding protein, 98.61
1ign_A246 Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, 98.53
2eqr_A61 N-COR1, N-COR, nuclear receptor corepressor 1; SAN 98.37
2cqq_A72 RSGI RUH-037, DNAJ homolog subfamily C member 1; m 98.18
3hm5_A93 DNA methyltransferase 1-associated protein 1; DNA 97.91
2iw5_B235 Protein corest, REST corepressor 1; oxidoreductase 97.78
4b4c_A211 Chromodomain-helicase-DNA-binding protein 1; chrom 97.74
1wgx_A73 KIAA1903 protein; MYB DNA-binding domain, human cD 97.66
1fex_A59 TRF2-interacting telomeric RAP1 protein; helix tur 97.33
2xb0_X270 Chromo domain-containing protein 1; hydrolase, DNA 97.23
2ebi_A86 DNA binding protein GT-1; DNA-binding domain, phos 97.13
4iej_A93 DNA methyltransferase 1-associated protein 1; DNA 97.1
2yqk_A63 Arginine-glutamic acid dipeptide repeats protein; 97.04
1ofc_X304 ISWI protein; nuclear protein, chromatin remodelin 96.76
2crg_A70 Metastasis associated protein MTA3; transcription 96.76
2xag_B482 REST corepressor 1; amine oxidase, chromatin regul 96.4
4eef_G74 F-HB80.4, designed hemagglutinin binding protein; 96.14
4a69_C94 Nuclear receptor corepressor 2; transcription, hyd 96.0
2y9y_A374 Imitation switch protein 1 (DEL_ATPase); transcrip 95.71
2a07_F93 Forkhead box protein P2; double-helix, swapping, h 94.35
3g73_A142 Forkhead box protein M1; DNA-binding domain, forkh 94.29
1ug2_A95 2610100B20RIK gene product; hypothetical protein, 94.15
1irz_A64 ARR10-B; helix-turn-helix, DNA binding protein; NM 93.95
2c6y_A111 Forkhead box protein K2; transcription regulation, 93.77
4b4c_A211 Chromodomain-helicase-DNA-binding protein 1; chrom 93.69
1vtn_C102 HNF-3/FORK head DNA-recognition motif; protein-DNA 93.4
2hfh_A109 Genesis, HFH-2; HNF-3 homologues, winged helix pro 93.01
2hdc_A97 Protein (transcription factor); structure, dyanami 92.84
2lr8_A70 CAsp8-associated protein 2; structural genomics, n 91.41
1ign_A246 Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, 91.97
3l2c_A110 Forkhead box protein O4; winged helix, transcripti 91.77
1kq8_A100 HFH-1, hepatocyte nuclear factor 3 forkhead homolo 91.64
3bpy_A85 FORK head domain, forkhead transcription factor FO 91.3
3coa_C117 Forkhead box protein O1; winged helix, forkhead do 90.39
2xb0_X270 Chromo domain-containing protein 1; hydrolase, DNA 88.79
1e17_A150 AFX; DNA binding domain, winged helix; NMR {Homo s 84.44
>1uss_A Histone H1; DNA binding protein, linker histone, DNA binding domain; NMR {Saccharomyces cerevisiae} SCOP: a.4.5.13 PDB: 1yqa_A Back     alignment and structure
Probab=99.87  E-value=2e-22  Score=160.77  Aligned_cols=73  Identities=21%  Similarity=0.428  Sum_probs=68.6

Q ss_pred             CCCCCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCC----chhHHHHHHHHHHhhhhcCceeeccc---ccccCCCC
Q 020752          146 KEPVARLDKLILEAISNLKEPNGSDRASIASYIEDQYWA----PANLRKLLATKLKFLSANGTLIKAKH---KYRITPNT  218 (322)
Q Consensus       146 ~~~hp~y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~v----p~nf~~lL~~~LKrlVa~GkLvkvK~---syKi~~~~  218 (322)
                      ..+||+|.+||+|||.+|+||+|||++||++||+++|++    |++|+.+|+.+||+||++|+|+|+||   +|||+...
T Consensus         4 ~~~hP~y~~MI~eAI~alker~GsS~~AIkKyI~~~y~~~~~~~~~~~~~lk~aLK~~v~~G~lvq~KgasGsfkl~~k~   83 (88)
T 1uss_A            4 SPSSLTYKEMILKSMPQLNDGKGSSRIVLKKYVKDTFSSKLKTSSNFDYLFNSAIKKCVENGELVQPKGPSGIIKLNKKK   83 (88)
T ss_dssp             CCSSCCHHHHHHHHHHHSCCTTSBCHHHHHHHHHHHTTTTSCCSSTHHHHHHHHHHHHHHHSSEECSSTTSSCBEECCSC
T ss_pred             CCCCCCHHHHHHHHHHHhccCCCcCHHHHHHHHHHhCCCcccchHhHHHHHHHHHHHHHHcCCEEeccCCCCceecCccc
Confidence            457999999999999999999999999999999999975    68999999999999999999999999   99998754
>1hst_A Histone H5; chromosomal protein; 2.60A {Gallus gallus} SCOP: a.4.5.13 Back     alignment and structure
>1uhm_A Histone H1, histone HHO1P; winged helix-turn-helix, linker histone, riken structural genomics/proteomics initiative, RSGI; NMR {Saccharomyces cerevisiae} SCOP: a.4.5.13 Back     alignment and structure
>2rqp_A Heterochromatin protein 1-binding protein 3; histone H1, alternative splicing, chromosomal protein, DNA-binding, nucleus, phosphoprotein; NMR {Homo sapiens} Back     alignment and structure
>1ghc_A GH1; chromosomal protein; NMR {Gallus gallus} SCOP: a.4.5.13 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
>2lso_A Histone H1X; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, nuclear protein; NMR {Homo sapiens} 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
>2roh_A RTBP1, telomere binding protein-1; plant, nucleus, DNA binding protein; NMR {Oryza sativa} 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
>2juh_A Telomere binding protein TBP1; helix, nucleus, nuclear protein; NMR {Nicotiana glutinosa} 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
>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
>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
>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
>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics, unknown function, NPPSFA; NMR {Mus musculus} 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
>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
>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
>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe} 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
>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
>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
>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A Back     alignment and structure
>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis} 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
>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
>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
>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
>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
>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis} 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
>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
>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
>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural genomics consortium, NESG, north structural genomics consortium; NMR {Homo sapiens} 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
>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
>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
>2eqr_A N-COR1, N-COR, nuclear receptor corepressor 1; SANT domain, 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
>3hm5_A DNA methyltransferase 1-associated protein 1; DNA methylation, chromatin, structural genomics consortium, SGC, activator, chromatin regulator; HET: DNA; 1.80A {Homo sapiens} 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
>4b4c_A Chromodomain-helicase-DNA-binding protein 1; chromatin-remodeling, histone acetylation COMP chromatin regulation, transcription; 1.62A {Homo sapiens} 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
>1fex_A TRF2-interacting telomeric RAP1 protein; helix turn helix, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Synthetic} SCOP: a.4.1.3 Back     alignment and structure
>2xb0_X Chromo domain-containing protein 1; hydrolase, DNA-binding protein, transcription, chromatin REG; HET: GOL; 2.00A {Saccharomyces cerevisiae} PDB: 3ted_A Back     alignment and structure
>2ebi_A DNA binding protein GT-1; DNA-binding domain, phosphorylation; HET: DNA; NMR {Arabidopsis thaliana} PDB: 2jmw_A* Back     alignment and structure
>4iej_A DNA methyltransferase 1-associated protein 1; DNA methylation, chromatin regulator, repressor, structural joint center for structural genomics; HET: DNA; 1.45A {Homo sapiens} PDB: 3hm5_A* 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
>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
>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
>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
>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
>4a69_C Nuclear receptor corepressor 2; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} PDB: 1xc5_A 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
>2a07_F Forkhead box protein P2; double-helix, swapping, homodimer, monomer, winged-helix, magnesium, transcription/DNA complex; 1.90A {Homo sapiens} SCOP: a.4.5.14 PDB: 2as5_F 2kiu_A 3qrf_F Back     alignment and structure
>3g73_A Forkhead box protein M1; DNA-binding domain, forkhead transcription factors, FOXM1, W helix; HET: DNA; 2.21A {Homo sapiens} Back     alignment and structure
>1ug2_A 2610100B20RIK gene product; hypothetical protein, MYB-like DNA binding domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.4.1.3 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
>2c6y_A Forkhead box protein K2; transcription regulation, DNA-binding domain, forkhead transcription factors, interleukin enhancer binding factor; 2.4A {Homo sapiens} SCOP: a.4.5.14 PDB: 1jxs_A 2a3s_A 2d2w_A Back     alignment and structure
>4b4c_A Chromodomain-helicase-DNA-binding protein 1; chromatin-remodeling, histone acetylation COMP chromatin regulation, transcription; 1.62A {Homo sapiens} Back     alignment and structure
>1vtn_C HNF-3/FORK head DNA-recognition motif; protein-DNA complex, double helix, transcription-DNA complex; HET: DNA; 2.50A {Homo sapiens} PDB: 1d5v_A Back     alignment and structure
>2hfh_A Genesis, HFH-2; HNF-3 homologues, winged helix protein; NMR {Rattus norvegicus} SCOP: a.4.5.14 Back     alignment and structure
>2hdc_A Protein (transcription factor); structure, dyanamics, genesis, winged helix protein, protein/DNA complex; HET: DNA; NMR {Rattus norvegicus} SCOP: a.4.5.14 Back     alignment and structure
>2lr8_A CAsp8-associated protein 2; structural genomics, northeast structural genomics consortiu PSI-biology, apoptosis; NMR {Homo sapiens} 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
>3l2c_A Forkhead box protein O4; winged helix, transcription-DNA COMP; 1.87A {Homo sapiens} SCOP: a.4.5.14 PDB: 3co6_C* Back     alignment and structure
>1kq8_A HFH-1, hepatocyte nuclear factor 3 forkhead homolog 1, winged; winged helix protein, structure, transcription; NMR {Rattus norvegicus} SCOP: a.4.5.14 Back     alignment and structure
>3bpy_A FORK head domain, forkhead transcription factor FOXO4, DNA binding domain; forkhead BOX, winged helix; 1.87A {Homo sapiens} Back     alignment and structure
>3coa_C Forkhead box protein O1; winged helix, forkhead domain, chromosomal rearrangement; HET: DNA; 2.20A {Homo sapiens} PDB: 3co7_C* 2k86_A 2uzk_A Back     alignment and structure
>2xb0_X Chromo domain-containing protein 1; hydrolase, DNA-binding protein, transcription, chromatin REG; HET: GOL; 2.00A {Saccharomyces cerevisiae} PDB: 3ted_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 322
d1ghca_75 a.4.5.13 (A:) Histone H1, globular domain {Chicken 7e-12
d1hsta_74 a.4.5.13 (A:) Histone H5, globular domain {Chicken 8e-12
d1w0ta_52 a.4.1.4 (A:) DNA-binding domain of human telomeric 2e-11
d1usta_92 a.4.5.13 (A:) Histone H1 homologue Hho1p {Baker's 2e-10
d1ussa_88 a.4.5.13 (A:) Histone H1 homologue Hho1p {Baker's 1e-09
d1w0ua_55 a.4.1.4 (A:) Telomeric repeat binding factor 2, TR 2e-09
d2ckxa183 a.4.1.3 (A:578-660) Telomere binding protein TBP1 8e-09
d1guua_50 a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus 2e-08
d1gvda_52 a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus 2e-05
d1x41a147 a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, T 5e-04
d1igna186 a.4.1.6 (A:360-445) DNA-binding domain of rap1 {Ba 0.001
d2cjja163 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Anti 0.002
d2iw5b165 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Hu 0.003
d1x58a149 a.4.1.1 (A:8-56) Hypothetical protein 4930532d21ri 0.003
d1xc5a168 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 0.004
>d1ghca_ a.4.5.13 (A:) Histone H1, globular domain {Chicken (Gallus gallus) [TaxId: 9031]} Length = 75 Back     information, alignment and structure

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Linker histone H1/H5
domain: Histone H1, globular domain
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 58.2 bits (141), Expect = 7e-12
 Identities = 15/58 (25%), Positives = 26/58 (44%)

Query: 154 KLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHK 211
           +LI +A+S  KE  G   A++   +    +        +   LK L + GTL++ K  
Sbjct: 8   ELITKAVSASKERKGLSLAALKKALAAGGYDVEKNNSRIKLGLKSLVSKGTLVQTKGT 65
>d1hsta_ a.4.5.13 (A:) Histone H5, globular domain {Chicken (Gallus gallus) [TaxId: 9031]} Length = 74 Back     information, alignment and structure
>d1w0ta_ a.4.1.4 (A:) DNA-binding domain of human telomeric protein, hTRF1 {Human (Homo sapiens) [TaxId: 9606]} Length = 52 Back     information, alignment and structure
>d1usta_ a.4.5.13 (A:) Histone H1 homologue Hho1p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 92 Back     information, alignment and structure
>d1ussa_ a.4.5.13 (A:) Histone H1 homologue Hho1p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 88 Back     information, alignment and structure
>d1w0ua_ a.4.1.4 (A:) Telomeric repeat binding factor 2, TRF2 {Human (Homo sapiens) [TaxId: 9606]} Length = 55 Back     information, alignment and structure
>d2ckxa1 a.4.1.3 (A:578-660) Telomere binding protein TBP1 {Tobacco (Nicotiana tabacum) [TaxId: 4097]} Length = 83 Back     information, alignment and structure
>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 50 Back     information, alignment and structure
>d1gvda_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 52 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]} Length = 47 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]} Length = 86 Back     information, alignment and structure
>d2cjja1 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Antirrhinum majus) [TaxId: 4151]} Length = 63 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
>d1x58a1 a.4.1.1 (A:8-56) Hypothetical protein 4930532d21rik {Mouse (Mus musculus) [TaxId: 10090]} Length = 49 Back     information, alignment and structure
>d1xc5a1 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 68 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 ?
Query322
d1hsta_74 Histone H5, globular domain {Chicken (Gallus gallu 99.88
d1ussa_88 Histone H1 homologue Hho1p {Baker's yeast (Sacchar 99.85
d1usta_92 Histone H1 homologue Hho1p {Baker's yeast (Sacchar 99.84
d1ghca_75 Histone H1, globular domain {Chicken (Gallus gallu 99.82
d1w0ua_55 Telomeric repeat binding factor 2, TRF2 {Human (Ho 99.69
d1w0ta_52 DNA-binding domain of human telomeric protein, hTR 99.67
d2ckxa183 Telomere binding protein TBP1 {Tobacco (Nicotiana 99.62
d1guua_50 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 99.46
d1gvda_52 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 99.45
d1gv2a247 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 99.34
d1x41a147 Transcriptional adaptor 2-like, TADA2L, isoform b 99.18
d2cqra160 DnaJ homolog subfamily C member 1 {Human (Homo sap 99.09
d1x58a149 Hypothetical protein 4930532d21rik {Mouse (Mus mus 99.05
d1igna186 DNA-binding domain of rap1 {Baker's yeast (Sacchar 99.05
d2cu7a165 MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 960 98.98
d2cjja163 Radialis {Garden snapdragon (Antirrhinum majus) [T 98.97
d2iw5b165 REST corepressor 1, CoREST {Human (Homo sapiens) [ 98.78
d1xc5a168 Nuclear receptor corepressor 2 {Human (Homo sapien 98.63
d1ug2a_95 2610100b20rik gene product {Mouse (Mus musculus) [ 98.28
d2crga157 Metastasis associated protein MTA3 {Mouse (Mus mus 97.52
d1irza_64 Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId 97.13
d2cqqa159 DnaJ homolog subfamily C member 1 {Human (Homo sap 97.04
d1ofcx2128 SLIDE domain of the nucleosome remodeling ATPase I 96.43
d2a07f182 Forkhead box protein P2, FOXP2 {Human (Homo sapien 94.62
d2c6ya198 Interleukin enhancer binding factor {Human (Homo s 94.12
d1d5va_94 Adipocyte-transcription factor FREAC-11 (s12, fkh- 93.26
d2hdca_97 Genesis {Rat (Rattus norvegicus) [TaxId: 10116]} 92.4
d1fexa_59 Rap1 {Human (Homo sapiens) [TaxId: 9606]} 92.0
d3bpya185 Afx (Foxo4) {Human (Homo sapiens) [TaxId: 9606]} 91.62
d2fnaa173 Hypothetical protein SSO1545, C-terminal domain {S 91.6
d1kq8a_75 HFH-1 (HNF-3 forkhead homolog-1) {Rat (Rattus norv 89.98
>d1hsta_ a.4.5.13 (A:) Histone H5, globular domain {Chicken (Gallus gallus) [TaxId: 9031]} Back     information, alignment and structure
class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Linker histone H1/H5
domain: Histone H5, globular domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=99.88  E-value=2.6e-23  Score=159.19  Aligned_cols=69  Identities=28%  Similarity=0.386  Sum_probs=66.3

Q ss_pred             CCCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeecc-----cccccCC
Q 020752          148 PVARLDKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAK-----HKYRITP  216 (322)
Q Consensus       148 ~hp~y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKrlVa~GkLvkvK-----~syKi~~  216 (322)
                      +||+|.+||+|||.+|+||+|||+.||++||+++|+++.+|+.+|+.+|+++|++|.|+|+|     |+|||+.
T Consensus         1 sHP~y~~MI~eAI~al~er~GsS~~AI~kyI~~~y~~~~~~~~~l~~aLk~~v~~G~l~q~kg~GasGsfkl~k   74 (74)
T d1hsta_           1 SHPTYSEMIAAAIRAEKSRGGSSRQSIQKYIKSHYKVGHNADLQIKLSIRRLLAAGVLKQTKGVGASGSFRLAK   74 (74)
T ss_dssp             CCCCHHHHHHHHHHTCCCSSCEEHHHHHHHHHHHSCCCTTHHHHHHHHHHHHHHTTSEEEECCSSCCCEEEECC
T ss_pred             CCCCHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHCCCchhHHHHHHHHHHHHHHcCcEEeeccCCCcceeecCC
Confidence            69999999999999999999999999999999999999999999999999999999999999     4899963
>d1ussa_ a.4.5.13 (A:) Histone H1 homologue Hho1p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1usta_ a.4.5.13 (A:) Histone H1 homologue Hho1p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1ghca_ a.4.5.13 (A:) Histone H1, globular domain {Chicken (Gallus gallus) [TaxId: 9031]} 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
>d2ckxa1 a.4.1.3 (A:578-660) Telomere binding protein TBP1 {Tobacco (Nicotiana tabacum) [TaxId: 4097]} 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
>d1gvda_ 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
>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
>d2cqra1 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x58a1 a.4.1.1 (A:8-56) Hypothetical protein 4930532d21rik {Mouse (Mus musculus) [TaxId: 10090]} 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
>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]} 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
>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
>d1ug2a_ a.4.1.3 (A:) 2610100b20rik gene product {Mouse (Mus musculus) [TaxId: 10090]} 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
>d1irza_ a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} 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
>d1ofcx2 a.4.1.13 (X:851-978) SLIDE domain of the nucleosome remodeling ATPase ISWI {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d2a07f1 a.4.5.14 (F:503-584) Forkhead box protein P2, FOXP2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2c6ya1 a.4.5.14 (A:1-98) Interleukin enhancer binding factor {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1d5va_ a.4.5.14 (A:) Adipocyte-transcription factor FREAC-11 (s12, fkh-14) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2hdca_ a.4.5.14 (A:) Genesis {Rat (Rattus norvegicus) [TaxId: 10116]} Back     information, alignment and structure
>d1fexa_ a.4.1.3 (A:) Rap1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d3bpya1 a.4.5.14 (A:93-177) Afx (Foxo4) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2fnaa1 a.4.5.11 (A:284-356) Hypothetical protein SSO1545, C-terminal domain {Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d1kq8a_ a.4.5.14 (A:) HFH-1 (HNF-3 forkhead homolog-1) {Rat (Rattus norvegicus) [TaxId: 10116]} Back     information, alignment and structure