Citrus Sinensis ID: 006139

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------66
MDTYSSGEDLVLKTRKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFFSKLEKEALSKGVPIGQAIDIDIPPPRPKRKPRNPYPRKTCTNAPMSQIGAKDGKLRSSVSSLRCNQVLDLEKEPICDRPNGDEKPTYTIESQKDNCSEVFILHQEAHCSSVSSVNKNSMPTPVGLRDSCNLREFVPSLKEVVNQDETRESYVTVELKANEKFGKPDAKLALQDNGSSKPLNLENACPSHEKSVHGEKRDDVADALPTAEVQATQNYPRHVNVHILDGSLGTGTQSPSDMPMQESIFHPIGEVHGNPNLFTNPAASATTENESNVPKSTHQSFPTFHPPFTQFRHDQDDYRSFLHISSAFSSLIVSTLLQNPAAHAAASFAATFWPYTNMETSADSPTCPQGGFLSRQMSSPPSMAAIAAATVAAATAWWAAHGLLPLCAPFHAPFICPPACATAVSSMDTAQVPAAKTDKNDNTPPNPALKDHQPDLEYSEALQAQNSASKSLTVLTSDSEESASAKLKMELKATDHEKNSEENELHDSNKTKNRKQVDRSSCGSNTPSSSEVETDALEKQEKGKEESKEIDPSLPATDPGNRRSRSSSNITDSWKEVSEVLVMHVRGGWLFKHSSLERYCLKAFHLHMI
ccccccccccccccccccccccccccccHHHHHHHHHHHHHHcHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccHHHHHHHcccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccHHHHHHHHcccHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHHcEEEEccccccHHHHHHHHHHccccccc
cccccccccccccccccEEEccccccccHHHHHHHHHHHHHHcHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHcccccHHHHHHHHHHHHcHHHHHHHHHHHHccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccHHcHHHHHcccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccccccccccHccccHHcccccccccccccccccccccccEccccccccccHEcccEEEEEEcccHHEcccHHHHHHHHHHHHHcc
mdtyssgedlvlktrkpytitkqRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFFSKLEKEALskgvpigqaididippprpkrkprnpyprktctnapmsqigakdgklrsSVSSLrcnqvldlekepicdrpngdekptytiesqkdncsEVFILHQeahcssvssvnknsmptpvglrdscnlrefvpslkevvnqdetreSYVTVELKAnekfgkpdaklalqdngsskplnlenacpsheksvhgekrddvadalptaevqatqnyprhvnvhildgslgtgtqspsdmpmqesifhpigevhgnpnlftnpaasattenesnvpksthqsfptfhppftqfrhdqddyrsFLHISSAFSSLIVSTLLQNPAAHAAASFaatfwpytnmetsadsptcpqggflsrqmssppsMAAIAAATVAAATAWWAAhgllplcapfhapficppacatavssmdtaqvpaaktdkndntppnpalkdhqpdleYSEALQAQNSASKSLTVLTSDSEESASAKLKMELKAtdheknseenelhdsnktknrkqvdrsscgsntpssseveTDALEKqekgkeeskeidpslpatdpgnrrsrsssnitdSWKEVSEVLVMHVRggwlfkhssLERYCLKAFHLHMI
mdtyssgedlvlktrkpytitkqrerwteeehNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFFSKLEKEalskgvpigqaididippprpkrkprnpyprktctnapmsqigakdgklrsSVSSLRCnqvldlekepicdrpngDEKPTYTIESQKDNCSEVFILHQEAHCSSVSSVNKNSMPTPVGLRDSCNLREFVPslkevvnqdetreSYVTVelkanekfgkpdaKLALQDNGSSKPLNLENACPSHEKSVHGEKRDDVADALPTAEvqatqnyprhVNVHILDGSLGTGTQSPSDMPMQESIFHPIGEVHGNPNLFTNPAASATTENESNVPKSTHQSFPTFHPPFTQFRHDQDDYRSFLHISSAFSSLIVSTLLQNPAAHAAASFAATFWPYTNMETSADSPTCPQGGFLSRQMSSPPSMAAIAAATVAAATAWWAAHGLLPLCAPFHAPFICPPACATAVSSMDTAQVPAaktdkndntppnPALKDHQPDLEYSEALQAQNSASKSLTVLTSDSEESASAKLKMELkatdheknseenelhdsnktknrkqvdrsscgsntpsssevetdalekqekgkeeskeidpslpatdpgnrrsrsssnitdswkEVSEVLVMHVRGGWLFKHSSLERYCLKAFHLHMI
MDTYSSGEDLVLKTRKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFFSKLEKEALSKGVPIGQAIDIDIppprpkrkprnpyprkTCTNAPMSQIGAKDGKLRSSVSSLRCNQVLDLEKEPICDRPNGDEKPTYTIESQKDNCSEVFILHQEAHCSSVSSVNKNSMPTPVGLRDSCNLREFVPSLKEVVNQDETRESYVTVELKANEKFGKPDAKLALQDNGSSKPLNLENACPSHEKSVHGEKRDDVADALPTAEVQATQNYPRHVNVHILDGSLGTGTQSPSDMPMQESIFHPIGEVHGNPNLFTNPAASATTENESNVPKSTHQSFPTFHPPFTQFRHDQDDYRSFLHISSAFSSLIVSTLLQNPaahaaasfaaTFWPYTNMETSADSPTCPQGGFLSRQMSSPPSMaaiaaatvaaatawwaaHGLLPLCAPFHAPFICPPACATAVSSMDTAQVPAAKTDKNDNTPPNPALKDHQPDLEYSEALQAQNSASKSLTVLTSDSEESASAKLKMELKATDHEKNSEENELHDSNKTKNRKQVDRSSCGSNTPSSSEVETDALekqekgkeeskeIDPSLPATDPGNRRSRSSSNITDSWKEVSEVLVMHVRGGWLFKHSSLERYCLKAFHLHMI
*****************YTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFFSKL********************************************************************************************CSEVFILHQEAHC********************CNLREFVPSL*****************************************************************************YPRHVNVHILD**************************************************************FTQFRHDQDDYRSFLHISSAFSSLIVSTLLQNPAAHAAASFAATFWPYTN***************************AIAAATVAAATAWWAAHGLLPLCAPFHAPFICPPACATAV*****************************************************************************************************************************************************WKEVSEVLVMHVRGGWLFKHSSLERYCLKAFHLH**
******************************EHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFF***************************************************************************************************************************************************************************************************************************V************TQSPSDMPM********************************************HPPFTQ*************ISSAFSSLIVSTLLQNPAAHAAASFAATFWPYT***********************PPSMAAIAAATVAAATAWWAAHGLLPLCAPFHAPFICPPACAT**********************************************************************************************************************************************************VSEVLVMHVRGGWLFKHSSLERYCLKAFHLHMI
MDTYSSGEDLVLKTRKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFFSKLEKEALSKGVPIGQAIDIDIPPPRPKRKPRNPYPRKTCTNAPMSQIG***********SLRCNQVLDLEKEPICDRPNGDEKPTYTIESQKDNCSEVFILHQEAHCSSVSSVNKNSMPTPVGLRDSCNLREFVPSLKEVVNQDETRESYVTVELKANEKFGKPDAKLALQDNGSSKPLNLEN***************DVADALPTAEVQATQNYPRHVNVHILDGSLGTGTQSPSDMPMQESIFHPIGEVHGNPNLFTNPAA****************SFPTFHPPFTQFRHDQDDYRSFLHISSAFSSLIVSTLLQNPAAHAAASFAATFWPYTNME********PQGGFLSRQMSSPPSMAAIAAATVAAATAWWAAHGLLPLCAPFHAPFICPPACATAVSSMDTAQVPAAKTDKNDNTPPNPALKDHQPDLEYSEALQAQNSASKSLTVLTSDSEESASAKLKMELKA*****************************************************************************TDSWKEVSEVLVMHVRGGWLFKHSSLERYCLKAFHLHMI
*************TRKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFFSKLEKEA*********AIDIDIPPPRPKRK**********************************************************************************************************************ESYVTVELKANE******************************************DALPTAEVQATQNYPRHVNVHILDGSLGTGTQSPSDMPMQESIFHPIGEVHGNPNLFTNPAAS***************SFPTFHPPFTQFRHDQDDYRSFLHISSAFSSLIVSTLLQNPAAHAAASFAATFWPYTNME*******************SPPSMAAIAAATVAAATAWWAAHGLLPLCAPFHAPFICPPACATAVSSMDT**********************************************************************************************************************************************DSWKEVSEVLVMHVRGGWLFKHSSLERYCLKAFHLHMI
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MDTYSSGEDLVLKTRKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFFSKLEKEALSKGVPIGQAIDIDIPPPRPKRKPRNPYPRKTCTNAPMSQIGAKDGKLRSSVSSLRCNQVLDLEKEPICDRPNGDEKPTYTIESQKDNCSEVFILHQEAHCSSVSSVNKNSMPTPVGLRDSCNLREFVPSLKEVVNQDETRESYVTVELKANEKFGKPDAKLALQDNGSSKPLNLENACPSHEKSVHGEKRDDVADALPTAEVQATQNYPRHVNVHILDGSLGTGTQSPSDMPMQESIFHPIGEVHGNPNLFTNPAASATTENESNVPKSTHQSFPTFHPPFTQFRHDQDDYRSFLHISSAFSSLIVSTLLQNPAAHAAASFAATFWPYTNMETSADSPTCPQGGFLSRQMSSPPSMAAIAAATVAAATAWWAAHGLLPLCAPFHAPFICPPACATAVSSMDTAQVPAAKTDKNDNTPPNPALKDHQPDLEYSEALQAQNSASKSLTVLTSDSEESAxxxxxxxxxxxxxxxxxxxxxLHDSNKTKNRKQVDRSSCGSNTPSSSEVETDALEKQEKGKEESKEIDPSLPATDPGNRRSRSSSNITDSWKEVSEVLVMHVRGGWLFKHSSLERYCLKAFHLHMI
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 ?
Query659 2.2.26 [Sep-21-2011]
Q6R0H1645 Protein LHY OS=Arabidopsi yes no 0.779 0.796 0.458 1e-92
P92973608 Protein CCA1 OS=Arabidops no no 0.713 0.773 0.397 2e-73
Q54IF9423 Myb-like protein G OS=Dic yes no 0.130 0.203 0.552 1e-25
Q6R0H0287 Transcription factor ASG4 no no 0.144 0.331 0.514 2e-24
Q54Z40 1217 Myb-like protein H OS=Dic no no 0.080 0.043 0.518 2e-09
Q869R9734 Myb-like protein J OS=Dic no no 0.089 0.080 0.4 1e-08
Q54HX6 977 Myb-like protein I OS=Dic no no 0.081 0.055 0.436 1e-07
Q5RGA4822 Histone H2A deubiquitinas yes no 0.086 0.069 0.362 7e-05
Q5VVJ2828 Histone H2A deubiquitinas yes no 0.086 0.068 0.350 0.0002
Q5F3F2832 Histone H2A deubiquitinas yes no 0.066 0.052 0.386 0.0004
>sp|Q6R0H1|LHY_ARATH Protein LHY OS=Arabidopsis thaliana GN=LHY PE=1 SV=2 Back     alignment and function desciption
 Score =  341 bits (875), Expect = 1e-92,   Method: Compositional matrix adjust.
 Identities = 297/648 (45%), Positives = 367/648 (56%), Gaps = 134/648 (20%)

Query: 1   MDTYSSGEDLVLKTRKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQ 60
           MDT +SGE+L+ K RKPYTITKQRERWTE+EH RFLEAL+LYGRAWQRIEEHIGTK AVQ
Sbjct: 1   MDTNTSGEELLAKARKPYTITKQRERWTEDEHERFLEALRLYGRAWQRIEEHIGTKTAVQ 60

Query: 61  IRSHAQKFFSKLEKEALSKGVPIGQAIDIDIPPPRPKRKPRNPYPRKTCTNA-PMSQIG- 118
           IRSHAQKFF+KLEKEA  KG+P+ QA+DI+IPPPRPKRKP  PYPRK   N    SQ+  
Sbjct: 61  IRSHAQKFFTKLEKEAEVKGIPVCQALDIEIPPPRPKRKPNTPYPRKPGNNGTSSSQVSS 120

Query: 119 AKDGKLRSSVSSLRCNQV-LDLEKEPICDRPNGDEKPTYTIESQKDNCSEVFILHQEAHC 177
           AKD KL SS SS + NQ  LDLEK P        EK +   E+Q +NCS           
Sbjct: 121 AKDAKLVSSASSSQLNQAFLDLEKMPFS------EKTSTGKENQDENCS----------- 163

Query: 178 SSVSSVNKNSMPTPVGLRDSCNLREFVPSLKEVVNQDETRESYVTVELKANEKFGKPDAK 237
             VS+VNK  +PT                 K+V    ET                     
Sbjct: 164 -GVSTVNKYPLPT-----------------KQVSGDIET--------------------- 184

Query: 238 LALQDNGSSKPLNLENACPSHEKSVHGEKRDDVADALPTAEVQATQNYPRHVNVHILDGS 297
                   SK   ++NA     + V  + +D   D      V + QNYP H +  I++G+
Sbjct: 185 --------SKTSTVDNAV----QDVPKKNKD--KDGNDGTTVHSMQNYPWHFHADIVNGN 230

Query: 298 LGTGTQS-PSDMPMQESIFHPIGE-VHGNPNLFTNPAASATTENESNVPKSTHQSFPTFH 355
           +    Q+ PS M  Q+ +FHP+ E  HG+ NL    A++ TT        ++HQ+FP  H
Sbjct: 231 IAKCPQNHPSGMVSQDFMFHPMREETHGHANLQATTASATTT--------ASHQAFPACH 282

Query: 356 PPFTQFRHDQDDYRSFLHISSAFSSLIVSTLLQNPAAHAAASFAATFWPYTNMETSADSP 415
                    QDDYRSFL ISS FS+LI+STLLQNPAAHAAA+FAA+ WPY ++  S DS 
Sbjct: 283 --------SQDDYRSFLQISSTFSNLIMSTLLQNPAAHAAATFAASVWPYASVGNSGDS- 333

Query: 416 TCPQGGFLSRQMSSPPSMAAIAAATVAAATAWWAAHGLLPLCAPFHAPFICPPACATAV- 474
                   +   SSPPS+ AIAAATVAAATAWWA+HGLLP+CAP  AP  C P    AV 
Sbjct: 334 -------STPMSSSPPSITAIAAATVAAATAWWASHGLLPVCAP--APITCVPFSTVAVP 384

Query: 475 ----SSMDTAQVPAAKTDKNDNTPPNPALKDHQPDLEYSEALQAQNSASKSLTVLTSDSE 530
               + MDT                   +++ QP  + + ALQ QN ASKS    + DS+
Sbjct: 385 TPAMTEMDT-------------------VENTQPFEKQNTALQDQNLASKSPASSSDDSD 425

Query: 531 ESASAKLKMELKATDH--EKNSEENELHDSNKTKNRKQVDRSSCGSNTPSSSEVETDALE 588
           E+   KL  + K  D   E+      +HDSN  + +  VDRSSCGSNTPS S+ ETDAL+
Sbjct: 426 ETGVTKLNADSKTNDDKIEEVVVTAAVHDSNTAQKKNLVDRSSCGSNTPSGSDAETDALD 485

Query: 589 KQEKGKEESKEIDPSLP-ATDPGNRRSRSSSN------ITDSWKEVSE 629
           K EK KE+ KE D + P   +  NR+ +   N       TDSWKEVSE
Sbjct: 486 KMEKDKEDVKETDENQPDVIELNNRKIKMRDNNSNNNATTDSWKEVSE 533
Transcription factor involved in the circadian clock. Binds to the promoter region of APRR1/TOC1 and TCP21/CHE to repress their transcription. Represses both CCA1 and itself.
Arabidopsis thaliana (taxid: 3702)
>sp|P92973|CCA1_ARATH Protein CCA1 OS=Arabidopsis thaliana GN=CCA1 PE=1 SV=1 Back     alignment and function description
>sp|Q54IF9|MYBG_DICDI Myb-like protein G OS=Dictyostelium discoideum GN=mybG PE=3 SV=1 Back     alignment and function description
>sp|Q6R0H0|ASG4_ARATH Transcription factor ASG4 OS=Arabidopsis thaliana GN=ASG4 PE=2 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|Q869R9|MYBJ_DICDI Myb-like protein J OS=Dictyostelium discoideum GN=mybJ PE=3 SV=1 Back     alignment and function description
>sp|Q54HX6|MYBI_DICDI Myb-like protein I OS=Dictyostelium discoideum GN=mybI PE=3 SV=1 Back     alignment and function description
>sp|Q5RGA4|MYSM1_DANRE Histone H2A deubiquitinase MYSM1 OS=Danio rerio GN=mysm1 PE=2 SV=2 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 ?
Query659
255548073 768 conserved hypothetical protein [Ricinus 0.949 0.815 0.702 0.0
51980218 768 late elongated hypocotyl [Castanea sativ 0.951 0.816 0.688 0.0
225453650 771 PREDICTED: protein LHY-like [Vitis vinif 0.968 0.827 0.667 0.0
147856747 857 hypothetical protein VITISV_012722 [Viti 0.949 0.730 0.664 0.0
219687743 768 transcription factor LHY [Populus nigra] 0.952 0.817 0.674 0.0
118488480 764 unknown [Populus trichocarpa] 0.946 0.816 0.654 0.0
219687745 764 transcription factor LHY [Populus nigra] 0.946 0.816 0.651 0.0
224128077750 predicted protein [Populus trichocarpa] 0.925 0.813 0.643 0.0
356520209750 PREDICTED: protein LHY [Glycine max] 0.939 0.825 0.629 1e-176
351722167749 late elongated hypocotyl and circadian c 0.937 0.825 0.627 1e-175
>gi|255548073|ref|XP_002515093.1| conserved hypothetical protein [Ricinus communis] gi|223545573|gb|EEF47077.1| conserved hypothetical protein [Ricinus communis] Back     alignment and taxonomy information
 Score =  734 bits (1896), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 444/632 (70%), Positives = 502/632 (79%), Gaps = 6/632 (0%)

Query: 1   MDTYSSG-EDLVLKTRKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAV 59
           MDTYSSG EDLV+KTRKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTK AV
Sbjct: 1   MDTYSSGGEDLVIKTRKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKTAV 60

Query: 60  QIRSHAQKFFSKLEKEALSKGVPIGQAIDIDIPPPRPKRKPRNPYPRKTCTNAPMSQIGA 119
           QIRSHAQKFFSKLEKEA++KGVPIGQA+DIDIPPPRPKRKP NPYPRKT      SQ+ A
Sbjct: 61  QIRSHAQKFFSKLEKEAIAKGVPIGQALDIDIPPPRPKRKPSNPYPRKTGAGPTPSQVAA 120

Query: 120 KDGKLRSSVSSLRCNQVLDLEKEPICDRPNGDEKPTYTIESQKDNCSEVFILHQEAHCSS 179
           KDGKL S VS  RC QVLDLEKEP+ +R NG EK T   E+Q DNCSEVF L QEAHCSS
Sbjct: 121 KDGKLPSLVSFPRCTQVLDLEKEPLPERLNGHEKQTDATENQGDNCSEVFTLLQEAHCSS 180

Query: 180 VSSVNKNSMPTPVGLRDSCNLREFVPSLKEVVNQDETRESYVTVELKANEKFGKPDAKLA 239
           VSS NKNS+ T   L++SC+ REFVPSLK+VVNQD T ESYVT+EL+ N+K  KPDAK  
Sbjct: 181 VSSANKNSVVTAEALKNSCSFREFVPSLKKVVNQDATNESYVTIELEGNQKLDKPDAKQT 240

Query: 240 LQDNGSSKPLNLENACPSHEKSVHGEKRDDVADALPTAEVQATQNYPRHVNVHILDGSLG 299
           +QDNGSSK    E +C  HEK    +K D+   ALPT E++  Q YPRHV VH+L+GSLG
Sbjct: 241 VQDNGSSKASKSE-SCLFHEKFDQAKKSDEFNSALPTDEMETMQGYPRHVPVHVLEGSLG 299

Query: 300 TGTQSP-SDMPMQESIFHPIGEVHGNPNLFTNPAASATTENESNVPK-STHQSFPTFHPP 357
           T  Q+P SD+  QE IF P GEVHG+PNL+++PAASATTE+++  P+ STHQSFP+F PP
Sbjct: 300 TCMQTPTSDVSFQEPIFCPTGEVHGHPNLYSHPAASATTEHQNTAPRSSTHQSFPSF-PP 358

Query: 358 FTQFRHDQDDYRSFLHISSAFSSLIVSTLLQNPAAHAAASFAATFWPYTNMETSADSPTC 417
           F   +H+QDDYRSFLHISS FSSLIVSTLLQNPAAH+AASFAATFWPY N+E+SADSP C
Sbjct: 359 FNSTQHNQDDYRSFLHISSTFSSLIVSTLLQNPAAHSAASFAATFWPYANLESSADSPIC 418

Query: 418 PQGGFLSRQMSSPPSMAAIAAATVAAATAWWAAHGLLPLCAPFHAPFICPPACATAVSSM 477
           PQGGF SRQM+S PSMAAIAAATVAAATAWWAAHGLLPLCAP HA F CPPA  TAV+S 
Sbjct: 419 PQGGFPSRQMNSAPSMAAIAAATVAAATAWWAAHGLLPLCAPLHAAFTCPPASGTAVAST 478

Query: 478 DTAQVPAAKTDKNDNTPPNPALKDHQPDLEYSEALQAQNSASKSLTVLTSDSEESASAKL 537
              QVPAAKT++   T  NP L++ Q D+E+S+ LQAQNSASKSL +  SDSEES   K 
Sbjct: 479 GAGQVPAAKTERK-LTVENPLLQNQQFDVEHSKVLQAQNSASKSLEMSLSDSEESGGPKK 537

Query: 538 KMELKATDHEKNSEENELHDSNKTKNRKQVDRSSCGSNTPSSSEVETDALEKQEKGKEES 597
               KATDHE  +   E+ D +K K RK  DRSSCGSNT SSSEVETDALEK EKG EE 
Sbjct: 538 NTGSKATDHEMATPAPEVQDPSKAKARKPADRSSCGSNTSSSSEVETDALEKLEKGNEEL 597

Query: 598 KEIDPSLPATDPGNRRSRSSSNITDSWKEVSE 629
           KE D +   T+   RRSRS+S+I+DSWKEVSE
Sbjct: 598 KETDTNPEPTESSCRRSRSNSSISDSWKEVSE 629

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|51980218|gb|AAU20773.1| late elongated hypocotyl [Castanea sativa] Back     alignment and taxonomy information
>gi|225453650|ref|XP_002267720.1| PREDICTED: protein LHY-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|147856747|emb|CAN81352.1| hypothetical protein VITISV_012722 [Vitis vinifera] Back     alignment and taxonomy information
>gi|219687743|dbj|BAH09382.1| transcription factor LHY [Populus nigra] gi|219687747|dbj|BAH09384.1| PnLHY1 [Populus nigra] Back     alignment and taxonomy information
>gi|118488480|gb|ABK96054.1| unknown [Populus trichocarpa] Back     alignment and taxonomy information
>gi|219687745|dbj|BAH09383.1| transcription factor LHY [Populus nigra] gi|219687749|dbj|BAH09385.1| PnLHY2 [Populus nigra] Back     alignment and taxonomy information
>gi|224128077|ref|XP_002320238.1| predicted protein [Populus trichocarpa] gi|222861011|gb|EEE98553.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356520209|ref|XP_003528756.1| PREDICTED: protein LHY [Glycine max] Back     alignment and taxonomy information
>gi|351722167|ref|NP_001235187.1| late elongated hypocotyl and circadian clock associated-1-like protein 1 [Glycine max] gi|158999368|gb|ABW87008.1| late elongated hypocotyl and circadian clock associated-1-like protein 1 [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 ?
Query659
TAIR|locus:2200970645 LHY "LATE ELONGATED HYPOCOTYL" 0.261 0.266 0.544 2.7e-80
TAIR|locus:2044345608 CCA1 "circadian clock associat 0.323 0.350 0.489 2.8e-67
TAIR|locus:2169135287 RVE2 "REVEILLE 2" [Arabidopsis 0.107 0.247 0.746 6.6e-30
TAIR|locus:2014114372 EPR1 "EARLY-PHYTOCHROME-RESPON 0.133 0.236 0.647 2.2e-27
TAIR|locus:504955668336 AT3G10113 [Arabidopsis thalian 0.133 0.261 0.647 2.2e-27
TAIR|locus:2167210387 RVE1 "REVEILLE 1" [Arabidopsis 0.113 0.193 0.72 2.7e-27
TAIR|locus:2149589331 AT5G52660 [Arabidopsis thalian 0.118 0.235 0.589 4.9e-22
TAIR|locus:2075049298 RVE8 "REVEILLE 8" [Arabidopsis 0.106 0.234 0.6 3.7e-19
TAIR|locus:2025411287 ASG4 "ALTERED SEED GERMINATION 0.121 0.278 0.537 4.8e-19
TAIR|locus:2124928303 AT4G01280 [Arabidopsis thalian 0.121 0.264 0.537 4.8e-19
TAIR|locus:2200970 LHY "LATE ELONGATED HYPOCOTYL" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 448 (162.8 bits), Expect = 2.7e-80, Sum P(2) = 2.7e-80
 Identities = 105/193 (54%), Positives = 126/193 (65%)

Query:     1 MDTYSSGEDLVLKTRKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQ 60
             MDT +SGE+L+ K RKPYTITKQRERWTE+EH RFLEAL+LYGRAWQRIEEHIGTK AVQ
Sbjct:     1 MDTNTSGEELLAKARKPYTITKQRERWTEDEHERFLEALRLYGRAWQRIEEHIGTKTAVQ 60

Query:    61 IRSHAQKFFSKLEKEALSKGVPIGQAIDIDIXXXXXXXXXXXXXXXXTCTNAPMS-QIG- 118
             IRSHAQKFF+KLEKEA  KG+P+ QA+DI+I                   N   S Q+  
Sbjct:    61 IRSHAQKFFTKLEKEAEVKGIPVCQALDIEIPPPRPKRKPNTPYPRKPGNNGTSSSQVSS 120

Query:   119 AKDGKLRSSVSSLRCNQV-LDLEKEPICDRPNGDEKPTYTIESQKDNCSEVFILHQEAHC 177
             AKD KL SS SS + NQ  LDLEK P  ++ +          + K+N        Q+ +C
Sbjct:   121 AKDAKLVSSASSSQLNQAFLDLEKMPFSEKTS----------TGKEN--------QDENC 162

Query:   178 SSVSSVNKNSMPT 190
             S VS+VNK  +PT
Sbjct:   163 SGVSTVNKYPLPT 175
GO:0003677 "DNA binding" evidence=IEA;ISS
GO:0005634 "nucleus" evidence=ISM
GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS;IDA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA;TAS
GO:0009651 "response to salt stress" evidence=IEP;RCA
GO:0009723 "response to ethylene stimulus" evidence=IEP;RCA
GO:0009733 "response to auxin stimulus" evidence=IEP;RCA
GO:0009737 "response to abscisic acid stimulus" evidence=IEP;RCA
GO:0009739 "response to gibberellin stimulus" evidence=IEP;RCA
GO:0009751 "response to salicylic acid stimulus" evidence=IEP;RCA
GO:0009753 "response to jasmonic acid stimulus" evidence=IEP;RCA
GO:0046686 "response to cadmium ion" evidence=IEP
GO:0048574 "long-day photoperiodism, flowering" evidence=IGI;RCA
GO:0042752 "regulation of circadian rhythm" evidence=RCA;IMP
GO:0043433 "negative regulation of sequence-specific DNA binding transcription factor activity" evidence=IMP
GO:0044212 "transcription regulatory region DNA binding" evidence=IDA
GO:0007623 "circadian rhythm" evidence=IGI;RCA
GO:0009409 "response to cold" evidence=IGI
GO:0042754 "negative regulation of circadian rhythm" evidence=IMP
GO:0009639 "response to red or far red light" evidence=RCA
TAIR|locus:2044345 CCA1 "circadian clock associated 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
TAIR|locus:2014114 EPR1 "EARLY-PHYTOCHROME-RESPONSIVE1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:504955668 AT3G10113 [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:2149589 AT5G52660 [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:2025411 ASG4 "ALTERED SEED GERMINATION 4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2124928 AT4G01280 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
estExt_Genewise1_v1.C_LG_XIV1950
hypothetical protein (750 aa)
(Populus trichocarpa)
Predicted Functional Partners:
PtpRR9
pseudo response regulator (541 aa)
    • • 0.787
gw1.XII.1231.1
annotation not avaliable (545 aa)
    • • 0.711
estExt_fgenesh4_pg.C_LG_V1131
hypothetical protein (1171 aa)
    • • 0.711
estExt_fgenesh4_pm.C_LG_VI0700
hypothetical protein (664 aa)
      • 0.702
estExt_fgenesh4_pg.C_LG_X0958
hypothetical protein (587 aa)
      • 0.702
PtpRR3
response regulator (687 aa)
    • • 0.518
estExt_fgenesh4_pg.C_LG_III0902
hypothetical protein (662 aa)
      • 0.510
estExt_fgenesh4_pg.C_1680018
hypothetical protein (922 aa)
      • 0.510

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 ?
Query659
TIGR0155757 TIGR01557, myb_SHAQKYF, myb-like DNA-binding domai 6e-13
pfam0024947 pfam00249, Myb_DNA-binding, Myb-like DNA-binding d 9e-10
smart0071749 smart00717, SANT, SANT SWI3, ADA2, N-CoR and TFIII 4e-09
cd0016745 cd00167, SANT, 'SWI3, ADA2, N-CoR and TFIIIB' DNA- 4e-08
>gnl|CDD|130620 TIGR01557, myb_SHAQKYF, myb-like DNA-binding domain, SHAQKYF class Back     alignment and domain information 
 Score = 63.6 bits (155), Expect = 6e-13
 Identities = 21/57 (36%), Positives = 30/57 (52%), Gaps = 6/57 (10%)

Query: 22 KQRERWTEEEHNRFLEALKLYGR-AW---QRIEEHIGTKK--AVQIRSHAQKFFSKL 72
          K R  WTE+ H+RFL+A++  G   W   +RI E +        Q+ SH QK+  K 
Sbjct: 1  KPRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLKQ 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
>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

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 659
TIGR0155757 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF c 99.57
PF0024948 Myb_DNA-binding: Myb-like DNA-binding domain; Inte 99.36
smart0071749 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-bindi 98.96
cd0016745 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding do 98.95
KOG0724335 consensus Zuotin and related molecular chaperones 98.92
PF1392160 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 98.74
PLN03212249 Transcription repressor MYB5; Provisional 98.26
PLN03212249 Transcription repressor MYB5; Provisional 98.23
COG5259531 RSC8 RSC chromatin remodeling complex subunit RSC8 98.22
PLN03091459 hypothetical protein; Provisional 98.15
KOG1279506 consensus Chromatin remodeling factor subunit and 98.06
KOG0457438 consensus Histone acetyltransferase complex SAGA/A 98.05
PLN03091459 hypothetical protein; Provisional 98.01
KOG0048238 consensus Transcription factor, Myb superfamily [T 97.45
COG5114432 Histone acetyltransferase complex SAGA/ADA, subuni 97.39
KOG0048238 consensus Transcription factor, Myb superfamily [T 97.18
PLN03162526 golden-2 like transcription factor; Provisional 97.17
KOG4329445 consensus DNA-binding protein [General function pr 97.0
KOG0049939 consensus Transcription factor, Myb superfamily [T 96.09
KOG4468782 consensus Polycomb-group transcriptional regulator 95.26
PF1383790 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; 94.21
KOG0049939 consensus Transcription factor, Myb superfamily [T 94.15
COG5118507 BDP1 Transcription initiation factor TFIIIB, Bdp1 94.03
PLN031421033 Probable chromatin-remodeling complex ATPase chain 93.8
KOG4167907 consensus Predicted DNA-binding protein, contains 92.96
KOG0051607 consensus RNA polymerase I termination factor, Myb 92.13
KOG0724335 consensus Zuotin and related molecular chaperones 91.95
KOG3841455 consensus TEF-1 and related transcription factor, 91.64
KOG0051607 consensus RNA polymerase I termination factor, Myb 91.55
PF1387378 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain 91.36
KOG0050617 consensus mRNA splicing protein CDC5 (Myb superfam 91.32
KOG3554693 consensus Histone deacetylase complex, MTA1 compon 90.54
smart0042668 TEA TEA domain. 89.59
KOG1194534 consensus Predicted DNA-binding protein, contains 85.9
PF01285431 TEA: TEA/ATTS domain family; InterPro: IPR000818 T 83.68
PF11035344 SnAPC_2_like: Small nuclear RNA activating complex 83.01
PF09111118 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain 81.65
COG5147512 REB1 Myb superfamily proteins, including transcrip 81.41
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class Back     alignment and domain information 
Probab=99.57  E-value=2.9e-15  Score=121.15  Aligned_cols=50  Identities=42%  Similarity=0.651  Sum_probs=46.2

Q ss_pred             cCCCCCCHHHHHHHHHHHHHhCh-hh---HHHHHHhC-CC-CHHHHHHHHHHHHHH
Q 006139           22 KQRERWTEEEHNRFLEALKLYGR-AW---QRIEEHIG-TK-KAVQIRSHAQKFFSK   71 (659)
Q Consensus        22 k~r~~WTeEEHelFLEgLe~YGr-dW---KkIAe~Vg-TR-T~~QVRSHAQKYF~K   71 (659)
                      +.+..||+|||++||+||+.||+ +|   ++|+++++ ++ |..||+||+||||+|
T Consensus         1 k~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k   56 (57)
T TIGR01557         1 KPRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLK   56 (57)
T ss_pred             CCCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHcc
Confidence            46789999999999999999999 99   99999765 78 999999999999986

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 Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
>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
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains 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
>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
>PLN03212 Transcription repressor MYB5; Provisional Back     alignment and domain information
>PLN03212 Transcription repressor MYB5; Provisional Back     alignment and domain information
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription] Back     alignment and domain information
>PLN03091 hypothetical protein; Provisional Back     alignment and domain information
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics] Back     alignment and domain information
>KOG0457 consensus 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
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription] Back     alignment and domain information
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics] Back     alignment and domain information
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription] Back     alignment and domain information
>PLN03162 golden-2 like transcription factor; Provisional Back     alignment and domain information
>KOG4329 consensus DNA-binding protein [General function prediction only] Back     alignment and domain information
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription] Back     alignment and domain information
>KOG4468 consensus Polycomb-group transcriptional regulator [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
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription] Back     alignment and domain information
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription] Back     alignment and domain information
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional Back     alignment and domain information
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription] Back     alignment and domain information
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [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
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription] Back     alignment and domain information
>KOG0051 consensus RNA polymerase I termination 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
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics] Back     alignment and domain information
>smart00426 TEA TEA domain Back     alignment and domain information
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription] Back     alignment and domain information
>PF01285 TEA: TEA/ATTS domain family; InterPro: IPR000818 Transcriptional enhancer activators are nuclear proteins that contain a TEA/ATTSdomain, a DNA-binding region of 66-68 amino acids Back     alignment and domain information
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like 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
>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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query659
2cu7_A72 Solution Structure Of The Sant Domain Of Human Kiaa 1e-05
>pdb|2CU7|A Chain A, Solution Structure Of The Sant Domain Of Human Kiaa1915 Protein Length = 72 Back     alignment and structure 
Iteration: 1

 Score = 48.5 bits (114), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 34/57 (59%)
Query: 26 RWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFFSKLEKEALSKGVP 82
          +WT EE   F + L  +GR W +I + IG++  +Q++S+A+++F    K  L K  P
Sbjct: 11 KWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVKCGLDKETP 67

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query659
2cu7_A72 KIAA1915 protein; nuclear protein, SANT domain, DN 9e-25
2ltp_A89 Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s 1e-17
2yum_A75 ZZZ3 protein, zinc finger ZZ-type-containing prote 2e-17
1x41_A60 Transcriptional adaptor 2-like, isoform B; transcr 2e-14
2iw5_B235 Protein corest, REST corepressor 1; oxidoreductase 4e-13
2yus_A79 SWI/SNF-related matrix-associated actin- dependent 9e-13
2elk_A58 SPCC24B10.08C protein; hypothetical protein, struc 6e-11
4a69_C94 Nuclear receptor corepressor 2; transcription, hyd 5e-10
1irz_A64 ARR10-B; helix-turn-helix, DNA binding protein; NM 1e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-07
2eqr_A61 N-COR1, N-COR, nuclear receptor corepressor 1; SAN 3e-06
2cqr_A73 RSGI RUH-043, DNAJ homolog subfamily C member 1; m 2e-04
2xag_B482 REST corepressor 1; amine oxidase, chromatin regul 6e-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 = 96.8 bits (241), Expect = 9e-25
 Identities = 20/62 (32%), Positives = 35/62 (56%)

Query: 21 TKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFFSKLEKEALSKG 80
          +    +WT EE   F + L  +GR W +I + IG++  +Q++S+A+++F    K  L K 
Sbjct: 6  SGYSVKWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVKCGLDKE 65

Query: 81 VP 82
           P
Sbjct: 66 TP 67
>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
>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 75 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
>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
>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} Length = 79 Back     alignment and structure
>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe} Length = 58 Back     alignment and structure
>4a69_C Nuclear receptor corepressor 2; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} PDB: 1xc5_A Length = 94 Back     alignment and structure
>1irz_A ARR10-B; helix-turn-helix, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.11 Length = 64 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
>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
>2eqr_A N-COR1, N-COR, nuclear receptor corepressor 1; SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 61 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 Length = 73 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* Length = 482 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query659
2yus_A79 SWI/SNF-related matrix-associated actin- dependent 99.54
2yum_A75 ZZZ3 protein, zinc finger ZZ-type-containing prote 99.49
2cu7_A72 KIAA1915 protein; nuclear protein, SANT domain, DN 99.44
2iw5_B235 Protein corest, REST corepressor 1; oxidoreductase 99.41
2elk_A58 SPCC24B10.08C protein; hypothetical protein, struc 99.31
2xag_B482 REST corepressor 1; amine oxidase, chromatin regul 99.31
1x41_A60 Transcriptional adaptor 2-like, isoform B; transcr 99.28
1guu_A52 C-MYB, MYB proto-oncogene protein; transcription, 99.16
2eqr_A61 N-COR1, N-COR, nuclear receptor corepressor 1; SAN 99.16
2cqr_A73 RSGI RUH-043, DNAJ homolog subfamily C member 1; m 99.12
2d9a_A60 B-MYB, MYB-related protein B; DNA binding, structu 99.1
1gvd_A52 MYB proto-oncogene protein; transcription, transcr 99.09
2ltp_A89 Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s 98.62
2din_A66 Cell division cycle 5-like protein; MYB_DNA-bindin 99.04
1irz_A64 ARR10-B; helix-turn-helix, DNA binding protein; NM 99.04
2dim_A70 Cell division cycle 5-like protein; MYB_DNA-bindin 98.99
1w0t_A53 Telomeric repeat binding factor 1; telomere, DNA-b 98.98
2cjj_A93 Radialis; plant development, DNA-binding protein, 98.98
1ity_A69 TRF1; helix-turn-helix, telomeres, DNA binding, MY 98.97
2yqk_A63 Arginine-glutamic acid dipeptide repeats protein; 98.93
3sjm_A64 Telomeric repeat-binding factor 2; human telomeric 98.89
2k9n_A107 MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind 98.84
2crg_A70 Metastasis associated protein MTA3; transcription 98.84
3osg_A126 MYB21; transcription-DNA complex, MYB2, R2R3 domai 98.79
3osg_A126 MYB21; transcription-DNA complex, MYB2, R2R3 domai 98.77
1gv2_A105 C-MYB, MYB proto-oncogene protein; transcription, 98.75
1wgx_A73 KIAA1903 protein; MYB DNA-binding domain, human cD 98.74
2cqq_A72 RSGI RUH-037, DNAJ homolog subfamily C member 1; m 98.72
1gv2_A105 C-MYB, MYB proto-oncogene protein; transcription, 98.71
2k9n_A107 MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind 98.7
2llk_A73 Cyclin-D-binding MYB-like transcription factor 1; 98.7
4a69_C94 Nuclear receptor corepressor 2; transcription, hyd 98.63
3zqc_A131 MYB3; transcription-DNA complex, DNA-binding prote 98.62
3zqc_A131 MYB3; transcription-DNA complex, DNA-binding prote 98.61
1h8a_C128 AMV V-MYB, MYB transforming protein; transcription 98.6
1h8a_C128 AMV V-MYB, MYB transforming protein; transcription 98.59
2ckx_A83 NGTRF1, telomere binding protein TBP1; nuclear pro 98.47
4eef_G74 F-HB80.4, designed hemagglutinin binding protein; 98.43
2juh_A121 Telomere binding protein TBP1; helix, nucleus, nuc 98.43
1h89_C159 C-MYB, MYB proto-oncogene protein; transcription/D 98.4
2aje_A105 Telomere repeat-binding protein; DNA-binding, Trp, 98.4
2roh_A122 RTBP1, telomere binding protein-1; plant, nucleus, 98.39
1h89_C159 C-MYB, MYB proto-oncogene protein; transcription/D 98.37
1x58_A62 Hypothetical protein 4930532D21RIK; MUS musculus a 98.33
1ign_A246 Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, 97.86
1ofc_X304 ISWI protein; nuclear protein, chromatin remodelin 97.07
2xag_B482 REST corepressor 1; amine oxidase, chromatin regul 96.94
3hm5_A93 DNA methyltransferase 1-associated protein 1; DNA 96.43
1fex_A59 TRF2-interacting telomeric RAP1 protein; helix tur 96.32
4b4c_A211 Chromodomain-helicase-DNA-binding protein 1; chrom 95.37
2y9y_A374 Imitation switch protein 1 (DEL_ATPase); transcrip 95.18
1ug2_A95 2610100B20RIK gene product; hypothetical protein, 95.14
1ofc_X304 ISWI protein; nuclear protein, chromatin remodelin 94.44
2ebi_A86 DNA binding protein GT-1; DNA-binding domain, phos 93.99
4iej_A93 DNA methyltransferase 1-associated protein 1; DNA 92.35
2lr8_A70 CAsp8-associated protein 2; structural genomics, n 89.15
4b4c_A211 Chromodomain-helicase-DNA-binding protein 1; chrom 89.36
1ig6_A107 MRF-2, modulator recognition factor 2; DNA binding 86.4
2hzd_A82 Transcriptional enhancer factor TEF-1; DNA-binding 86.02
>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
Probab=99.54  E-value=3.6e-15  Score=125.48  Aligned_cols=59  Identities=25%  Similarity=0.429  Sum_probs=55.2

Q ss_pred             ccccCCCcccccCCCCCCHHHHHHHHHHHHHhChhhHHHHHHhCCCCHHHHHHHHHHHH
Q 006139           11 VLKTRKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFF   69 (659)
Q Consensus        11 ~~K~RKPytitk~r~~WTeEEHelFLEgLe~YGrdWKkIAe~VgTRT~~QVRSHAQKYF   69 (659)
                      .+|.+|++.....+..||+||+++||+||++||.+|.+||++||+||..|||.|+++|+
T Consensus         5 ~~~~~~~~~~~~~~~~WT~eEd~~Ll~~v~~~G~~W~~IA~~v~~RT~~qcr~r~~~~~   63 (79)
T 2yus_A            5 SSGTLAKSKGASAGREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLP   63 (79)
T ss_dssp             SSCCCCCCCSSCCSCCCCHHHHHHHHHHHHHSSSCHHHHHHHHSSCCHHHHHHHHTTSC
T ss_pred             ccCccCCccccccCCCcCHHHHHHHHHHHHHhCCCHHHHHHHcCCCCHHHHHHHHHHhc
Confidence            46888898988999999999999999999999999999999999999999999988763
>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens} 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
>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
>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe} 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
>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
>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
>2eqr_A N-COR1, N-COR, nuclear receptor corepressor 1; SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens} 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
>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
>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural genomics consortium, NESG, north structural genomics consortium; NMR {Homo sapiens} 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
>1irz_A ARR10-B; helix-turn-helix, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.11 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
>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
>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
>2yqk_A Arginine-glutamic acid dipeptide repeats protein; structure genomics, SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens} 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
>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_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
>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
>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
>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
>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
>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
>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
>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A 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
>4a69_C Nuclear receptor corepressor 2; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} PDB: 1xc5_A Back     alignment and structure
>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis} 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
>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
>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
>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
>2juh_A Telomere binding protein TBP1; helix, nucleus, nuclear protein; NMR {Nicotiana glutinosa} 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
>2roh_A RTBP1, telomere binding protein-1; plant, nucleus, DNA binding protein; NMR {Oryza sativa} 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
>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
>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
>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
>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
>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
>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
>4b4c_A Chromodomain-helicase-DNA-binding protein 1; chromatin-remodeling, histone acetylation COMP chromatin regulation, transcription; 1.62A {Homo sapiens} 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
>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
>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
>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
>2lr8_A CAsp8-associated protein 2; structural genomics, northeast structural genomics consortiu PSI-biology, apoptosis; NMR {Homo sapiens} 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
>1ig6_A MRF-2, modulator recognition factor 2; DNA binding protein, DNA-binding motif, protein-DNA interaction; NMR {Homo sapiens} SCOP: a.4.3.1 PDB: 2oeh_A 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 659
d1irza_64 a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis th 8e-15
d2iw5b165 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Hu 5e-13
d2cu7a165 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sap 3e-12
d1xc5a168 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 1e-11
d2crga157 a.4.1.3 (A:8-64) Metastasis associated protein MTA 4e-10
d1x41a147 a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, T 1e-08
d2cjja163 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Anti 6e-06
d2cqra160 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 8e-06
d1guua_50 a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus 5e-04
d1gv2a247 a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mou 0.001
d1w0ua_55 a.4.1.4 (A:) Telomeric repeat binding factor 2, TR 0.004
>d1irza_ a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 64 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]

 Score = 67.3 bits (164), Expect = 8e-15
 Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 5/60 (8%)

Query: 22 KQRERWTEEEHNRFLEALKLYGRAW---QRIEEHIGTK--KAVQIRSHAQKFFSKLEKEA 76
          K R  WT E HN+FL A+   G      ++I + +         + SH QKF   L+K +
Sbjct: 5  KPRVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKFRVALKKVS 64
>d2iw5b1 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Human (Homo sapiens) [TaxId: 9606]} Length = 65 Back     information, alignment and structure
>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]} Length = 65 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
>d2crga1 a.4.1.3 (A:8-64) Metastasis associated protein MTA3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 57 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
>d2cjja1 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Antirrhinum majus) [TaxId: 4151]} Length = 63 Back     information, alignment and structure
>d2cqra1 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 60 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
>d1gv2a2 a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 47 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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query659
d1irza_64 Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId 99.49
d2cu7a165 MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 960 99.44
d1x41a147 Transcriptional adaptor 2-like, TADA2L, isoform b 99.39
d2iw5b165 REST corepressor 1, CoREST {Human (Homo sapiens) [ 99.25
d1xc5a168 Nuclear receptor corepressor 2 {Human (Homo sapien 99.22
d1guua_50 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 99.11
d2cjja163 Radialis {Garden snapdragon (Antirrhinum majus) [T 99.11
d1gvda_52 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 99.07
d2cqra160 DnaJ homolog subfamily C member 1 {Human (Homo sap 98.97
d1gv2a247 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 98.97
d2crga157 Metastasis associated protein MTA3 {Mouse (Mus mus 98.95
d1w0ua_55 Telomeric repeat binding factor 2, TRF2 {Human (Ho 98.74
d1w0ta_52 DNA-binding domain of human telomeric protein, hTR 98.71
d1igna186 DNA-binding domain of rap1 {Baker's yeast (Sacchar 98.59
d2cqqa159 DnaJ homolog subfamily C member 1 {Human (Homo sap 98.27
d2ckxa183 Telomere binding protein TBP1 {Tobacco (Nicotiana 98.17
d1ug2a_95 2610100b20rik gene product {Mouse (Mus musculus) [ 97.97
d1ofcx152 SANT domain of the nucleosome remodeling ATPase IS 97.67
d1wgxa_73 Hypothetical protein C14orf106 (KIAA1903) {Human ( 94.94
d1x58a149 Hypothetical protein 4930532d21rik {Mouse (Mus mus 89.92
>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=99.49  E-value=1.4e-14  Score=116.98  Aligned_cols=54  Identities=35%  Similarity=0.500  Sum_probs=48.4

Q ss_pred             cCCCCCCHHHHHHHHHHHHHhChhh---HHHHHH--hCCCCHHHHHHHHHHHHHHHHHH
Q 006139           22 KQRERWTEEEHNRFLEALKLYGRAW---QRIEEH--IGTKKAVQIRSHAQKFFSKLEKE   75 (659)
Q Consensus        22 k~r~~WTeEEHelFLEgLe~YGrdW---KkIAe~--VgTRT~~QVRSHAQKYF~KL~k~   75 (659)
                      +.+.+||+|||++|++||+.||.+|   ++|.++  |+++|..||+||+||||.++.+.
T Consensus         5 k~R~~WT~elH~~Fv~Av~~lG~~~atpk~I~~~m~v~~lT~~qV~SHlQKYrl~l~k~   63 (64)
T d1irza_           5 KPRVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKFRVALKKV   63 (64)
T ss_dssp             CSSCSSCHHHHHHHHHHHHHHCTTTCCHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCHHHHHHHHHHHHHhCccccchHHHHHHcCCCCCCHHHHHHHHHHHHHHHHhc
Confidence            4577899999999999999999987   789886  67889999999999999999764
>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
>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {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
>d2cqra1 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]} 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
>d2crga1 a.4.1.3 (A:8-64) Metastasis associated protein MTA3 {Mouse (Mus musculus) [TaxId: 10090]} 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
>d2cqqa1 a.4.1.3 (A:8-66) DnaJ homolog subfamily C member 1 {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
>d1ug2a_ a.4.1.3 (A:) 2610100b20rik gene product {Mouse (Mus musculus) [TaxId: 10090]} 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
>d1wgxa_ a.4.1.3 (A:) Hypothetical protein C14orf106 (KIAA1903) {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