Citrus Sinensis ID: 004116

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-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770---
MPASPSFHSDTRKWKRRKREPRKQLNKLDEDDVVEDEDEEQDNNETDNHNNNSNADHRDNGDDFQHATAPDPASNETEVLIDGGTRICEFPTAVQRVVNRPHVSVMDIVAIEAAYLAGDASGRSSAVALENISFGQLQALSVVPADSAALDPERSDTSCVITPPQIMEGKGVVKRFGSRVHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQSPEPWNRGSYLREDSNGEVSVPSDALKSIDSLIKFDKPKCSLKVADVYSSSCGGADFFDLDNTIRERLSENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENVEVPNTSRTSNSSSRDDRGGLHSTVNGDLPGAGLQEADMENRLPFSNSGNPVMALVAFLASAVGPRVAAACAHASLAALSKQMEGAGHGNRMNSENVHNREEENSGVHGPWGQNGAEAALLSAEKVKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRIVSTRLGPGGVPSQMNLPVVAPSMVNNNIGNNRPQVMSASSSQPSIPGYSANQPVHPHMQFRPQQMFPLGQRMPLTSLQASSSAPSNVMFNARGGPQPTLNHPMIRSASGTSSGLG
cccccccccccHHHHHHcccccccccccccccccccccHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHccccEEEHHHHHHccccccHHHHHHHHHHHHHccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccEEEccccccccccHHHHHcccccccccccccEEccccccccccccccccHHHHHHHHHHHHHccccHHHHHHHHccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
cccccccccccccHHHcccccccccccccccccHHcccHHccccccccccccccccccccccHHccccccccccccEEEEcccccEccccccHEEEEcccccccHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccEEccccEEEEcccHcHcccccHHHHHHHHcHHHHccccccccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHcccEEEEEcccccccccccccccccccccEEEEEccccccccccccccccccccccccccHHHHHcccccHHHcccccccccccccccccccEEEEcccccccccccHHHHHcccccccccccHcEEccccccccccccccccHHHHHHHHHHHHHHcccHHHHHHHHccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHcccHHHcccccccHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
mpaspsfhsdtrkwkrrkreprkqlnkldeddvvededeeqdnnetdnhnnnsnadhrdngddfqhatapdpasnetevlidggtricefptavqrvvnrphvsvMDIVAIEAAYLagdasgrsSAVALENisfgqlqalsvvpadsaaldpersdtscvitppqimegkgvvkrfgsrvhvlpmhsdwfspdtvhrlerqvvphffsgkspdhtpekYMECRNHIVAKymdnpekrlivsdcqglvdgvspeDLTRIFRFLNHWGIINYCaavqspepwnrgsylredsngevsvpsdaLKSIDSlikfdkpkcslkvadvyssscggadffdldNTIRERLSenhcnycsqpipavyyqsqkevdvllcpecfhegrfvtghssldyirvdpareygdidgetwsDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVrlpmedgilenvevpntsrtsnsssrddrgglhstvngdlpgaglqeadmenrlpfsnsgnPVMALVAFLASAVGPRVAAACAHASLAALSKQmegaghgnrmnsenvhnreeensgvhgpwgqngAEAALLSAEKVKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRIvstrlgpggvpsqmnlpvvapsmvnnnignnrpqvmsasssqpsipgysanqpvhphmqfrpqqmfplgqrmpltslqasssapsnvmfnarggpqptlnhpmirsasgtssglg
mpaspsfhsdtrkwkrrkreprkqlnkldeddvvededeeqdnnetdnhnnnsnADHRDNGDDFQHATAPDPASNETEVLIDGGTRICEFPtavqrvvnrphVSVMDIVAIEAAYLAGDASGRSSAVALENISFGQLQALSVVPADSAaldpersdtscvitppqimegkgvVKRFGSRVHVLPMHSDWFSPDTVHRLERQVVPHffsgkspdhtpeKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQSPEPWNRGSYLREDSNGEVSVPSDALKSIDSLIKFDKPKCSLKVADVYSSSCGGADFFDLDNTIRERLSENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGrfvtghssldyiRVDPAREYGDIDGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENvevpntsrtsnsssrddrgglhSTVNGDLPGAGLQEADMENRLPFSNSGNPVMALVAFLASAVGPRVAAACAHASLAALSKQMEGAGHGNRMNSENVHNREEENSGVHGPWGQNGAEAALLSAEKVKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKArqrfatertrivstrlgpggvpsqMNLPVVAPSMVNNNIGNNRPQVMSASSSQPSIPGYSANQPVHPHMQFRPQQMFPLGQRMPLTSLQASSSAPSNVMFNARGgpqptlnhpmirsasgtssglg
MPASPSFHSDTrkwkrrkreprkQLnkldeddvvededeeqdnnetdnhnnnsnadhrdnGDDFQHATAPDPASNETEVLIDGGTRICEFPTAVQRVVNRPHVSVMDIVAIEAAYLAGDASGRSSAVALENISFGQLQALSVVPADSAALDPERSDTSCVITPPQIMEGKGVVKRFGSRVHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQSPEPWNRGSYLREDSNGEVSVPSDALKSIDSLIKFDKPKCSLKVADVYSSSCGGADFFDLDNTIRERLSENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENVEVPntsrtsnsssrddrGGLHSTVNGDLPGAGLQEADMENRLPFSNSGNPVMALVAFLASAVGPRVaaacahaslaalsKQMEGAGHGNRMNSENVHNREEENSGVHGPWGQNGaeaallsaekvkaaakaglaaaatkaklfaDHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRIVSTRLGPGGVPSQMNLPVVAPSMVNNNIGNNRPQVMSASSSQPSIPGYSANQPVHPHMQFRPQQMFPLGQRMPLTSLQASSSAPSNVMFNARGGPQPTLNHPMIRSASGTSSGLG
******************************************************************************VLIDGGTRICEFPTAVQRVVNRPHVSVMDIVAIEAAYLAGDASGRSSAVALENISFGQLQALSVVP*************SCVITPPQIMEGKGVVKRFGSRVHVLPMHSDWFSPDTVHRLERQVVPHFFS*********KYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQSPEPW**********************SIDSLIKFDKPKCSLKVADVYSSSCGGADFFDLDNTIRERLSENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILEN**************************************************PVMALVAFLASAVGPRVAAACAHASLA*****************************************************KAGLAAAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKA**RFA*****I*******************************************************************************************************************
***********************************************************************************************************************************************************************************VHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQSPE************************************************************IRERLSENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGR************VDP***********WSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENV******************************************************V*************************************************************************************************RLSANIINHQLKRLELKLKQFAEVETLLMRE******ARQRFATERTR********************************************************************************************************************
**********************KQLNKLDE****************DNHNNNSNADHRDNGDDFQHATAPDPASNETEVLIDGGTRICEFPTAVQRVVNRPHVSVMDIVAIEAAYLAGDASGRSSAVALENISFGQLQALSVVPAD**********TSCVITPPQIMEGKGVVKRFGSRVHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQSPEPWNRGSYLREDSNGEVSVPSDALKSIDSLIKFDKPKCSLKVADVYSSSCGGADFFDLDNTIRERLSENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENVEVP***************GLHSTVNGDLPGAGLQEADMENRLPFSNSGNPVMALVAFLASAVGPRVAAACAHASLAALSKQMEGAGHGNRMNSENV**********HGPWGQNGAEAALLSAEK*************TKAKLFADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRIVSTRLGPGGVPSQMNLPVVAPSMVNNNIGNNRP************PGYSANQPVHPHMQFRPQQMFPLGQRMPLTSLQASSSAPSNVMFNARGGPQPTLNHPMIRS*********
************************************************************************ASNETEVLIDGGTRICEFPTAVQRVVNRPHVSVMDIVAIEAAYLA****************************************************KGVVKRFGSRVHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQSPEPWNRGSYLREDSNGEVSVPSDALKSIDSLIKF***************************TIRERLSENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDP********GETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILE******************************************RLPF*NSGNPVMALVAFLASAVGPRVAAACAHASLAALSKQME***************************************EKVK*AAKAGLAAA***AKLFADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRIVSTRLG************************************************HPHMQFRPQQMFPLGQRMPL*****************************************
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MPASPSFHSDTRKWKRRKREPRKQLNKLDEDDVVEDEDEEQDNNETDNHNNNSNADHRDNGDDFQHATAPDPASNETEVLIDGGTRICEFPTAVQRVVNRPHVSVMDIVAIEAAYLAGDASGRSSAVALENISFGQLQALSVVPADSAALDPERSDTSCVITPPQIMEGKGVVKRFGSRVHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQSPEPWNRGSYLREDSNGEVSVPSDALKSIDSLIKFDKPKCSLKVADVYSSSCGGADFFDLDNTIRERLSENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENVEVPNTSRTSNSSSRDDRGGLHSTVNGDLPGAGLQEADMENRLPFSNSGNPVMALVAFLASAVGPRVAAACAHASLAALSKQMEGAGHGNRMNSENVHNREEENSGVHGPWGQNGAEAALLSAEKVKAAAKAGLAAAATKAKLFxxxxxxxxxxxxxxxxxxxxxRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRIVSTRLGPGGVPSQMNLPVVAPSMVNNNIGNNRPQVMSASSSQPSIPGYSANQPVHPHMQFRPQQMFPLGQRMPLTSLQASSSAPSNVMFNARGGPQPTLNHPMIRSASGTSSGLG
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 ?
Query773 2.2.26 [Sep-21-2011]
Q9XI07807 SWI/SNF complex subunit S yes no 0.896 0.858 0.580 0.0
O14470503 SWI/SNF and RSC complexes yes no 0.491 0.755 0.264 3e-37
Q8VY05 985 SWI/SNF complex subunit S no no 0.380 0.298 0.358 2e-36
Q8W475512 SWI/SNF complex subunit S no no 0.582 0.878 0.258 2e-31
O13788527 SWI/SNF and RSC complexes no no 0.526 0.772 0.247 2e-30
Q84JG2469 SWI/SNF complex subunit S no no 0.516 0.850 0.238 8e-29
P43609557 Chromatin structure-remod yes no 0.363 0.504 0.286 8e-28
Q54J55 1620 Myb-like protein X OS=Dic no no 0.234 0.111 0.288 4e-18
P32591825 SWI/SNF complex subunit S no no 0.261 0.244 0.25 4e-17
Q6PDG5 1213 SWI/SNF complex subunit S yes no 0.117 0.075 0.404 5e-17
>sp|Q9XI07|SWI3C_ARATH SWI/SNF complex subunit SWI3C OS=Arabidopsis thaliana GN=SWI3C PE=1 SV=1 Back     alignment and function desciption
 Score =  802 bits (2072), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 438/755 (58%), Positives = 527/755 (69%), Gaps = 62/755 (8%)

Query: 59  DNGDDFQH--ATAPDPASNETEVLIDGGTRICEFPTAVQRVVNRPHVSVMDIVAIEAAYL 116
           +N D+ Q      PDP     EV+ D G+RI +FP  V+RVV RPH SVM +VA E A L
Sbjct: 51  ENADELQQNGGATPDPGLGIGEVVEDSGSRISDFPAVVKRVVIRPHASVMAVVAAERAGL 110

Query: 117 AGDASGRSSAVALENISFGQLQALSVVPADSAALDPERSDTSC---VITPPQIMEGKGVV 173
            G+  G+ S  ALENISFGQLQALS VPADS  LD ERSD S    VI+PP IM+G+GVV
Sbjct: 111 IGETRGQGSLPALENISFGQLQALSTVPADS--LDLERSDGSSSAYVISPPPIMDGEGVV 168

Query: 174 KRFGSRVHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDN 233
           KRFG  VHVLPMHSDWF+P+TV RLERQVVP FFSGKSP+HTPE YME RN IV+KY++N
Sbjct: 169 KRFGDLVHVLPMHSDWFAPNTVDRLERQVVPQFFSGKSPNHTPESYMEFRNAIVSKYVEN 228

Query: 234 PEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQS-PEPWNRGSYLREDSNG 292
           PEK L +SDCQGLVDGV  ED  R+FRFL+HWGIINYCA  QS P P    S +RED+NG
Sbjct: 229 PEKTLTISDCQGLVDGVDIEDFARVFRFLDHWGIINYCATAQSHPGPLRDVSDVREDTNG 288

Query: 293 EVSVPSDALKSIDSLIKFDKPKCSLKVADVYSS--SCGGADFFDLDNTIRERLSENHCNY 350
           EV+VPS AL SIDSLIKFDKP C  K  +VYSS  S  G D  DLD  IRE L ++HCN+
Sbjct: 289 EVNVPSAALTSIDSLIKFDKPNCRHKGGEVYSSLPSLDG-DSPDLDIRIREHLCDSHCNH 347

Query: 351 CSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQE 410
           CS+P+P VY+QSQK+ D+LLC +CFH GRFV GHS LD++RVDP + YGD DG+ W+DQE
Sbjct: 348 CSRPLPTVYFQSQKKGDILLCCDCFHHGRFVVGHSCLDFVRVDPMKFYGDQDGDNWTDQE 407

Query: 411 TFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENVEVPNTSRTSNSSS 470
           T LLLE +E+YN+NW +IA+HV +KSKAQCILHF+RLP+EDG+L+NVEV   + T N ++
Sbjct: 408 TLLLLEAVELYNENWVQIADHVGSKSKAQCILHFLRLPVEDGLLDNVEVSGVTNTENPTN 467

Query: 471 RDDRGGLHSTVNGDLPGAGLQEADMENRLPFSNSGNPVMALVAFLASAVGPRVAAACAHA 530
             D  G  S  NGDLPG   Q +D E +LPF  S NPVMALVAFLASAVGPRVAA+CAH 
Sbjct: 468 GYDHKGTDS--NGDLPGYSEQGSDTEIKLPFVKSPNPVMALVAFLASAVGPRVAASCAHE 525

Query: 531 SLAALSKQMEGAGHGNRMNSENVHNRE--------EENSGVHGPWGQNGAEAAL-LSAEK 581
           SL+ LS+        +RM SE +  +E        ++  G H    QNGAEA   L  +K
Sbjct: 526 SLSVLSED-------DRMKSEGMQGKEASLLDGENQQQDGAHKTSSQNGAEAQTPLPQDK 578

Query: 582 VKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMREC 641
           V AA +AGL+AAATKAKLFADHEEREIQRLSANI+NHQLKR+ELKLKQFAE+ETLLM+EC
Sbjct: 579 VMAAFRAGLSAAATKAKLFADHEEREIQRLSANIVNHQLKRMELKLKQFAEIETLLMKEC 638

Query: 642 EQVEKARQRFATERTRIVSTRLG-PGGV-PSQMNLPVVAPSMVNNNIGN----NRPQVMS 695
           EQVEK RQRF+ ER R++S R G PGG+ P   NL  ++ S   NNI +       Q  +
Sbjct: 639 EQVEKTRQRFSAERARMLSARFGSPGGISPQTNNLQGMSLSTGGNNINSLMHQQHQQQQA 698

Query: 696 ASSSQPS-IPGYSANQPVHPHMQFRPQQM-------------FPLGQRMPLTSLQ--ASS 739
           +++SQPS IPG+S N  V   M F  +Q              F  G R+PL ++Q  A S
Sbjct: 699 SATSQPSIIPGFSNNPQVQAQMHFMARQQQQQQQQQQQQQQAFSFGPRLPLNAIQTNAGS 758

Query: 740 SAPSNVMF--NARGGP---------QPTLNHPMIR 763
           +A  NVMF  N    P         QP+ +HPM+R
Sbjct: 759 TASPNVMFGNNQLNNPAAAGAASINQPSFSHPMVR 793
Component of a multiprotein complex equivalent of the SWI/SNF complex, an ATP-dependent chromatin-remodeling complex, which is required for the positive and negative regulation of gene expression of a large number of genes. It changes chromatin structure by altering DNA-histone contacts within a nucleosome, leading eventually to a change in nucleosome position, thus facilitating or repressing binding of gene-specific transcription factors.
Arabidopsis thaliana (taxid: 3702)
>sp|O14470|SSR2_SCHPO SWI/SNF and RSC complexes subunit ssr2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ssr2 PE=1 SV=3 Back     alignment and function description
>sp|Q8VY05|SWI3D_ARATH SWI/SNF complex subunit SWI3D OS=Arabidopsis thaliana GN=SWI3D PE=1 SV=3 Back     alignment and function description
>sp|Q8W475|SWI3A_ARATH SWI/SNF complex subunit SWI3A OS=Arabidopsis thaliana GN=SWI3A PE=1 SV=1 Back     alignment and function description
>sp|O13788|SSR1_SCHPO SWI/SNF and RSC complexes subunit ssr1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ssr1 PE=1 SV=1 Back     alignment and function description
>sp|Q84JG2|SWI3B_ARATH SWI/SNF complex subunit SWI3B OS=Arabidopsis thaliana GN=SWI3B PE=1 SV=1 Back     alignment and function description
>sp|P43609|RSC8_YEAST Chromatin structure-remodeling complex protein RSC8 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RSC8 PE=1 SV=1 Back     alignment and function description
>sp|Q54J55|MYBX_DICDI Myb-like protein X OS=Dictyostelium discoideum GN=mybX PE=3 SV=1 Back     alignment and function description
>sp|P32591|SWI3_YEAST SWI/SNF complex subunit SWI3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SWI3 PE=1 SV=1 Back     alignment and function description
>sp|Q6PDG5|SMRC2_MOUSE SWI/SNF complex subunit SMARCC2 OS=Mus musculus GN=Smarcc2 PE=1 SV=2 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 ?
Query773
224082324796 chromatin remodeling complex subunit [Po 0.975 0.947 0.660 0.0
359492375771 PREDICTED: SWI/SNF complex subunit SWI3C 0.954 0.957 0.639 0.0
302141785675 unnamed protein product [Vitis vinifera] 0.834 0.955 0.693 0.0
356507640785 PREDICTED: SWI/SNF complex subunit SWI3C 0.968 0.954 0.603 0.0
449449761815 PREDICTED: SWI/SNF complex subunit SWI3C 0.972 0.922 0.586 0.0
356518555785 PREDICTED: SWI/SNF complex subunit SWI3C 0.983 0.968 0.600 0.0
449500660779 PREDICTED: LOW QUALITY PROTEIN: SWI/SNF 0.917 0.910 0.614 0.0
255558620771 DNA binding protein, putative [Ricinus c 0.948 0.950 0.604 0.0
15219067807 SWI/SNF complex subunit SWI3C [Arabidops 0.896 0.858 0.580 0.0
356547495761 PREDICTED: SWI/SNF complex subunit SWI3C 0.877 0.890 0.612 0.0
>gi|224082324|ref|XP_002306648.1| chromatin remodeling complex subunit [Populus trichocarpa] gi|222856097|gb|EEE93644.1| chromatin remodeling complex subunit [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  950 bits (2455), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 538/815 (66%), Positives = 615/815 (75%), Gaps = 61/815 (7%)

Query: 1   MPASPSF-HSDTR-KWKRRKR-------EPRKQLNKLDEDDVVEDEDEEQDNNETDNHNN 51
           MPASPSF  SD R KWKRRKR       +P K  ++ + ++  E++D        D   N
Sbjct: 1   MPASPSFPSSDGRGKWKRRKRGDSQITRKPPKHHHQEETEEPEEEDDA------VDADEN 54

Query: 52  NSNADHRDNGDD---FQHATAPDPASNETEVLIDGGTRICEFPTAVQRVVNRPHVSVMDI 108
           N+N   R++ DD    Q  + PDP   ETEVLIDGG R+C+FP   +  VNRPH SVM I
Sbjct: 55  NNNVIDREDSDDPNPNQQPSGPDPNPQETEVLIDGGVRLCDFPPVTRLAVNRPHASVMAI 114

Query: 109 VAIEAAYLAGDASGRSS-AVALENISFGQLQALSVVPADSAALDPERSD---TSCVITPP 164
           VA E A LAG++S R    V+LEN+S+GQLQA+S V AD    D ERSD   T  V+TPP
Sbjct: 115 VAAERACLAGESSNRGQLVVSLENVSYGQLQAVSAVIADCDGSDLERSDGGNTGYVVTPP 174

Query: 165 QIMEGKGVVKRFGSRVHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRN 224
           QIM+GKGVVKRF SRVH++PMHSDWFSP  V+RLERQVVPHFFSGKSPDHTPEKY ECRN
Sbjct: 175 QIMDGKGVVKRFWSRVHLVPMHSDWFSPALVNRLERQVVPHFFSGKSPDHTPEKYRECRN 234

Query: 225 HIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQSPEPWNRGS 284
            IVAKYM+NPEKRL V DCQGLV G+  ED TRIFRFL+HWGIINYCAA  S E WN GS
Sbjct: 235 RIVAKYMENPEKRLTVPDCQGLVVGIDNEDFTRIFRFLDHWGIINYCAAPPSCEYWNGGS 294

Query: 285 YLREDSNGEVSVPSDALKSIDSLIKFDKPKCSLKVADVYSS-SCGGADFFDLDNTIRERL 343
           YLRED NGEV VPS ALKS DSLI+FDKPKC LK ADVYSS SC   D  DLDN IRE L
Sbjct: 295 YLREDPNGEVHVPSAALKSFDSLIQFDKPKCRLKAADVYSSLSCHDDDLSDLDNRIRECL 354

Query: 344 SENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDG 403
           SEN CN+CSQ +P+V YQSQKEVD+LLCP+CFHEGRFVTGHSSLD+I+VD  ++YGDIDG
Sbjct: 355 SENRCNHCSQLLPSVCYQSQKEVDILLCPDCFHEGRFVTGHSSLDFIKVDSTKDYGDIDG 414

Query: 404 ETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENVEVPNTS 463
           E+WSDQET LLLE +E+YN+NWNEIAEHV +KSKAQCILHF+RLP+EDG+LEN+EVP+  
Sbjct: 415 ESWSDQETLLLLEAMEIYNENWNEIAEHVGSKSKAQCILHFLRLPVEDGLLENIEVPSMP 474

Query: 464 RTSNSSSRDDRGGLHSTVNGDLPGAGLQEADMENRLPFSNSGNPVMALVAFLASAVGPRV 523
           ++ + S+R+D    HS+ N    G+ LQ AD ENRLPF+NSGNPVMALVAFLASAVGPRV
Sbjct: 475 KSISPSNREDNRRPHSSSN----GSCLQGADAENRLPFANSGNPVMALVAFLASAVGPRV 530

Query: 524 AAACAHASLAALSKQMEGAGHGNRMNSENVHNRE-------------EENSGVHGPWGQN 570
           AAACAHASL ALS         NR+ SE +H RE             EE+S  HG  GQN
Sbjct: 531 AAACAHASLEALSAD-------NRLGSERLHGREGGFHGEVANSIQLEEDSQ-HGSRGQN 582

Query: 571 GAEAALLSAEKVKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQF 630
           GAE A  SAEKVKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQF
Sbjct: 583 GAEVAPPSAEKVKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQF 642

Query: 631 AEVETLLMRECEQVEKARQRFATERTRIVSTRLGPGGVPSQMNLPVVAPSMVNNNIGNNR 690
           AEVET LMRECEQVEK RQRFA ER R++STR+ P GV SQMN   VAPSMVNNN+GN+R
Sbjct: 643 AEVETFLMRECEQVEKTRQRFAAERIRMLSTRITPAGVASQMNQAGVAPSMVNNNVGNSR 702

Query: 691 PQVMSASSSQPSIPGYSANQPVHP--------HMQF----RPQQMFPLGQRMPLTSLQAS 738
            QVM +SSSQPSI GY ++ P HP        HM +    +PQ MFPLG R+P+ ++Q S
Sbjct: 703 QQVMPSSSSQPSISGYGSSNPAHPHNNQQVHSHMSYMQRGQPQPMFPLGPRLPVAAIQPS 762

Query: 739 SSAPSNVMFNARGGPQPTLNHPMIRSASGTSSGLG 773
           S APS+VM+NA G  QP LN  M+RS SG SSGLG
Sbjct: 763 SPAPSSVMYNASGNSQPNLNQ-MLRSVSGPSSGLG 796

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359492375|ref|XP_002284548.2| PREDICTED: SWI/SNF complex subunit SWI3C-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|302141785|emb|CBI18988.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|356507640|ref|XP_003522572.1| PREDICTED: SWI/SNF complex subunit SWI3C-like [Glycine max] Back     alignment and taxonomy information
>gi|449449761|ref|XP_004142633.1| PREDICTED: SWI/SNF complex subunit SWI3C-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356518555|ref|XP_003527944.1| PREDICTED: SWI/SNF complex subunit SWI3C-like [Glycine max] Back     alignment and taxonomy information
>gi|449500660|ref|XP_004161161.1| PREDICTED: LOW QUALITY PROTEIN: SWI/SNF complex subunit SWI3C-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|255558620|ref|XP_002520335.1| DNA binding protein, putative [Ricinus communis] gi|223540554|gb|EEF42121.1| DNA binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|15219067|ref|NP_173589.1| SWI/SNF complex subunit SWI3C [Arabidopsis thaliana] gi|75315301|sp|Q9XI07.1|SWI3C_ARATH RecName: Full=SWI/SNF complex subunit SWI3C; Short=AtSWI3C; AltName: Full=Transcription regulatory protein SWI3C gi|5263321|gb|AAD41423.1|AC007727_12 Contains similarity to gb|AF033823 moira protein from Drosophila melanogaster and contains a PF|00249 Myb-like DNA-binding domain. EST gb|Z25609 comes from this gene [Arabidopsis thaliana] gi|20259454|gb|AAM13847.1| putative transcriptional regulatory protein [Arabidopsis thaliana] gi|21436147|gb|AAM51320.1| putative transcriptional regulatory protein [Arabidopsis thaliana] gi|332192023|gb|AEE30144.1| SWI/SNF complex subunit SWI3C [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|356547495|ref|XP_003542147.1| PREDICTED: SWI/SNF complex subunit SWI3C [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 ?
Query773
TAIR|locus:2036942807 SWI3C "SWITCH/sucrose nonferme 0.891 0.853 0.543 1.2e-197
ZFIN|ZDB-GENE-080514-3 1089 smarcc1a "SWI/SNF related, mat 0.075 0.053 0.534 4.1e-40
UNIPROTKB|E2REF0 1107 SMARCC1 "Uncharacterized prote 0.087 0.061 0.5 6.1e-40
UNIPROTKB|F1P1A8 1035 F1P1A8 "Uncharacterized protei 0.087 0.065 0.5 8.8e-40
UNIPROTKB|F1MYU1952 SMARCC1 "Uncharacterized prote 0.087 0.071 0.5 3e-39
UNIPROTKB|Q92922 1105 SMARCC1 "SWI/SNF complex subun 0.087 0.061 0.5 6.5e-39
UNIPROTKB|G3N0H4925 SMARCC1 "Uncharacterized prote 0.087 0.073 0.5 6.5e-39
MGI|MGI:1203524 1104 Smarcc1 "SWI/SNF related, matr 0.087 0.061 0.5 1e-38
UNIPROTKB|I3LRY4 1212 I3LRY4 "Uncharacterized protei 0.068 0.043 0.566 2.6e-38
MGI|MGI:1915344 1213 Smarcc2 "SWI/SNF related, matr 0.068 0.043 0.566 2.6e-38
TAIR|locus:2036942 SWI3C "SWITCH/sucrose nonfermenting 3C" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1821 (646.1 bits), Expect = 1.2e-197, Sum P(2) = 1.2e-197
 Identities = 390/718 (54%), Positives = 469/718 (65%)

Query:    62 DDFQH--ATAPDPASNETEVLIDGGTRICEFPTAVQRVVNRPHVSVMDIVAIEAAYLAGD 119
             D+ Q      PDP     EV+ D G+RI +FP  V+RVV RPH SVM +VA E A L G+
Sbjct:    54 DELQQNGGATPDPGLGIGEVVEDSGSRISDFPAVVKRVVIRPHASVMAVVAAERAGLIGE 113

Query:   120 ASGRSSAVALENISFGQLQALSVVPADSAALDPERSDTSC---VITPPQIMEGKGVVKRF 176
               G+ S  ALENISFGQLQALS VPADS  LD ERSD S    VI+PP IM+G+GVVKRF
Sbjct:   114 TRGQGSLPALENISFGQLQALSTVPADS--LDLERSDGSSSAYVISPPPIMDGEGVVKRF 171

Query:   177 GSRVHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEK 236
             G  VHVLPMHSDWF+P+TV RLERQVVP FFSGKSP+HTPE YME RN IV+KY++NPEK
Sbjct:   172 GDLVHVLPMHSDWFAPNTVDRLERQVVPQFFSGKSPNHTPESYMEFRNAIVSKYVENPEK 231

Query:   237 RLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQS-PEPWNRGSYLREDSNGEVS 295
              L +SDCQGLVDGV  ED  R+FRFL+HWGIINYCA  QS P P    S +RED+NGEV+
Sbjct:   232 TLTISDCQGLVDGVDIEDFARVFRFLDHWGIINYCATAQSHPGPLRDVSDVREDTNGEVN 291

Query:   296 VPSDALKSIDSLIKFDKPKCSLKVADVYSS--SCGGADFFDLDNTIRERLSENHCNYCSQ 353
             VPS AL SIDSLIKFDKP C  K  +VYSS  S  G D  DLD  IRE L ++HCN+CS+
Sbjct:   292 VPSAALTSIDSLIKFDKPNCRHKGGEVYSSLPSLDG-DSPDLDIRIREHLCDSHCNHCSR 350

Query:   354 PIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFL 413
             P+P VY+QSQK+ D+LLC +CFH GRFV GHS LD++RVDP + YGD DG+ W+DQET L
Sbjct:   351 PLPTVYFQSQKKGDILLCCDCFHHGRFVVGHSCLDFVRVDPMKFYGDQDGDNWTDQETLL 410

Query:   414 LLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENVEVPXXXXXXXXXXXXX 473
             LLE +E+YN+NW +IA+HV +KSKAQCILHF+RLP+EDG+L+NVEV              
Sbjct:   411 LLEAVELYNENWVQIADHVGSKSKAQCILHFLRLPVEDGLLDNVEVSGVTNTENPTNGYD 470

Query:   474 XGGLHSTVNGDLPGAGLQEADMENRLPFSNSGNPVMALVAFLASAVGPRVXXXXXXXXXX 533
               G  S  NGDLPG   Q +D E +LPF  S NPVMALVAFLASAVGPRV          
Sbjct:   471 HKGTDS--NGDLPGYSEQGSDTEIKLPFVKSPNPVMALVAFLASAVGPRVAASCAHESLS 528

Query:   534 XXXK--QMEGAG-HGNRMNSENVHNREEENSGVHGPWGQNGXXXXXXX-XXXXXXXXXXX 589
                +  +M+  G  G   +  +  N++++  G H    QNG                   
Sbjct:   529 VLSEDDRMKSEGMQGKEASLLDGENQQQD--GAHKTSSQNGAEAQTPLPQDKVMAAFRAG 586

Query:   590 XXXXXXXXXXXXDHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQ 649
                         DHEEREIQRLSANI+NHQLKR+ELKLKQFAE+ETLLM+ECEQVEK RQ
Sbjct:   587 LSAAATKAKLFADHEEREIQRLSANIVNHQLKRMELKLKQFAEIETLLMKECEQVEKTRQ 646

Query:   650 RFATERTRIVSTRLG-PGGV-PSQMNLPVVAPSMVNNNIGN----NRPQVMSASSSQPSI 703
             RF+ ER R++S R G PGG+ P   NL  ++ S   NNI +       Q  ++++SQPSI
Sbjct:   647 RFSAERARMLSARFGSPGGISPQTNNLQGMSLSTGGNNINSLMHQQHQQQQASATSQPSI 706

Query:   704 -PGYSANQPVHPHMQF--RPQQMFPLGQRMPLTSLQASSSAPSN-VMFNARGGPQPTL 757
              PG+S N  V   M F  R QQ     Q+    +       P N +  NA     P +
Sbjct:   707 IPGFSNNPQVQAQMHFMARQQQQQQQQQQQQQQAFSFGPRLPLNAIQTNAGSTASPNV 764
GO:0003677 "DNA binding" evidence=IEA;ISS
GO:0005634 "nucleus" evidence=ISM
GO:0005515 "protein binding" evidence=IPI
GO:0006338 "chromatin remodeling" evidence=ISS
GO:0016514 "SWI/SNF complex" evidence=ISS
GO:0007062 "sister chromatid cohesion" evidence=RCA
GO:0031048 "chromatin silencing by small RNA" evidence=RCA
GO:0040029 "regulation of gene expression, epigenetic" evidence=RCA
GO:0045132 "meiotic chromosome segregation" evidence=RCA
GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA
ZFIN|ZDB-GENE-080514-3 smarcc1a "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1a" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|E2REF0 SMARCC1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1P1A8 F1P1A8 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|F1MYU1 SMARCC1 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q92922 SMARCC1 "SWI/SNF complex subunit SMARCC1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|G3N0H4 SMARCC1 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
MGI|MGI:1203524 Smarcc1 "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|I3LRY4 I3LRY4 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
MGI|MGI:1915344 Smarcc2 "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2" [Mus musculus (taxid:10090)] 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) ?
Q9XI07SWI3C_ARATHNo assigned EC number0.58010.89650.8587yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query773
COG5259531 COG5259, RSC8, RSC chromatin remodeling complex su 3e-57
pfam0443380 pfam04433, SWIRM, SWIRM domain 2e-20
cd0233645 cd02336, ZZ_RSC8, Zinc finger, ZZ type 1e-08
smart0071749 smart00717, SANT, SANT SWI3, ADA2, N-CoR and TFIII 2e-08
cd0016745 cd00167, SANT, 'SWI3, ADA2, N-CoR and TFIIIB' DNA- 3e-08
pfam0024947 pfam00249, Myb_DNA-binding, Myb-like DNA-binding d 3e-08
COG5114432 COG5114, COG5114, Histone acetyltransferase comple 1e-06
pfam1392159 pfam13921, Myb_DNA-bind_6, Myb-like DNA-binding do 1e-05
smart0029144 smart00291, ZnF_ZZ, Zinc-binding domain, present i 5e-05
>gnl|CDD|227584 COG5259, RSC8, RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription] Back     alignment and domain information 
 Score =  203 bits (519), Expect = 3e-57
 Identities = 132/475 (27%), Positives = 202/475 (42%), Gaps = 92/475 (19%)

Query: 182 VLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVS 241
           ++P +++WF    +H +E++  P FF+G+SP  TPE Y + RN ++  Y  NP + L V+
Sbjct: 53  IIPSYAEWFDGSKIHEIEKRSNPEFFNGRSPSKTPEVYKDYRNFMINSYRLNPNEYLTVT 112

Query: 242 DCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQSPEPWNRGSYLREDSNGEVSVPSDAL 301
            C+  V G     + R+ RFL  WG+INY       +P  R S +            D  
Sbjct: 113 ACRRNVAGDVAA-IVRVHRFLEKWGLINY-----QVDPGTRPSTIGPPLTSHFQDLHDTP 166

Query: 302 ---------KSIDSLI-KFDKPKCSLKVADVYSSS------CGGADFFDLDNTIRERLSE 345
                      I+  +    + +      + YS S             +L +        
Sbjct: 167 RGLSPFLPWGPINQRVLGAKEIEYETHKEENYSPSLKSPKKESQGKVDELKDHS--EKHP 224

Query: 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGET 405
           + C+ C        Y + +      C EC+ +GRF +  +S D+  V        I  + 
Sbjct: 225 SSCSCCGNKSFNTRYHNLRAEKYNSCSECYDQGRFPSEFTSSDFKPVT---ISLLIRDKN 281

Query: 406 WSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENVEVPNTSRT 465
           WS QE  LLLEGIEMY D+W+++A HV TK+K QCILHF++LP+ED              
Sbjct: 282 WSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQLPIED-------------- 327

Query: 466 SNSSSRDDRGGLHSTVNGDLPGAGLQEADMENRLPFSNSGNPVMALVAFLASAVGPRVAA 525
            N  S+ D  G +S                  RLPF  S NPV++ ++FLA  V PRV +
Sbjct: 328 -NYLSKGDGKGDNSKG----------------RLPFDGSENPVLSTISFLAGIVNPRVQS 370

Query: 526 ACAHASLAALSKQMEGAGHGNRMNSENVHNREEENSGVHGPWGQNGAEAALLSAEKVKAA 585
               A +    K  +           +  NRE +                          
Sbjct: 371 EKQRAII----KSGK----------ISHINRESQEHIEEV-------------------- 396

Query: 586 AKAGLAAAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRE 640
            +  L +   KAKL A +EER+++RL   +I  QL++L++KL    E+E     E
Sbjct: 397 IEYALDSGKEKAKLQATNEERKMERLRNVLIQAQLEKLKMKLGHLKELEKSTSLE 451

Length = 531
>gnl|CDD|203011 pfam04433, SWIRM, SWIRM domain Back     alignment and domain information
>gnl|CDD|239076 cd02336, ZZ_RSC8, Zinc finger, ZZ type 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|215818 pfam00249, Myb_DNA-binding, Myb-like DNA-binding domain Back     alignment and domain information
>gnl|CDD|227445 COG5114, COG5114, Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics] Back     alignment and domain information
>gnl|CDD|206092 pfam13921, Myb_DNA-bind_6, Myb-like DNA-binding domain Back     alignment and domain information
>gnl|CDD|197633 smart00291, ZnF_ZZ, Zinc-binding domain, present in Dystrophin, CREB-binding protein Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 773
COG5259531 RSC8 RSC chromatin remodeling complex subunit RSC8 100.0
KOG1279506 consensus Chromatin remodeling factor subunit and 100.0
PF0443386 SWIRM: SWIRM domain; InterPro: IPR007526 The SWIRM 99.93
KOG0457438 consensus Histone acetyltransferase complex SAGA/A 99.9
COG5114432 Histone acetyltransferase complex SAGA/ADA, subuni 99.81
cd0233645 ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present 99.02
PF0024948 Myb_DNA-binding: Myb-like DNA-binding domain; Inte 98.97
PF1392160 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 98.69
smart0071749 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-bindi 98.67
cd0016745 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding do 98.59
cd0233549 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present 98.38
PLN03000 881 amine oxidase 98.31
PLN02328808 lysine-specific histone demethylase 1 homolog 98.15
cd0234549 ZZ_dah Zinc finger, ZZ type. Zinc finger present i 98.12
cd0233849 ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger pre 98.04
cd0234348 ZZ_EF Zinc finger, ZZ type. Zinc finger present in 98.04
cd0233449 ZZ_dystrophin Zinc finger, ZZ type. Zinc finger pr 98.02
cd0224946 ZZ Zinc finger, ZZ type. Zinc finger present in dy 97.96
cd0234043 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger pre 97.96
smart0029144 ZnF_ZZ Zinc-binding domain, present in Dystrophin, 97.96
TIGR0155757 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF c 97.95
PLN03212249 Transcription repressor MYB5; Provisional 97.83
cd0234148 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present 97.81
PF0056946 ZZ: Zinc finger, ZZ type; InterPro: IPR000433 Zinc 97.65
PLN03091459 hypothetical protein; Provisional 97.55
cd0234445 ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present 97.49
PLN02529738 lysine-specific histone demethylase 1 97.49
cd0233945 ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger pre 97.25
PLN03212249 Transcription repressor MYB5; Provisional 97.13
KOG0048238 consensus Transcription factor, Myb superfamily [T 97.09
PLN03091459 hypothetical protein; Provisional 96.64
cd0233741 ZZ_CBP Zinc finger, ZZ type. Zinc finger present i 96.45
cd0234243 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger pre 96.07
KOG0049 939 consensus Transcription factor, Myb superfamily [T 95.34
KOG4582278 consensus Uncharacterized conserved protein, conta 95.14
PF1383790 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; 94.92
KOG4286966 consensus Dystrophin-like protein [Cell motility; 94.68
KOG0049 939 consensus Transcription factor, Myb superfamily [T 94.67
PLN02976 1713 amine oxidase 94.63
KOG0048238 consensus Transcription factor, Myb superfamily [T 94.14
KOG1280381 consensus Uncharacterized conserved protein contai 93.23
KOG0051607 consensus RNA polymerase I termination factor, Myb 90.87
KOG4301434 consensus Beta-dystrobrevin [Cytoskeleton] 90.3
KOG0051607 consensus RNA polymerase I termination factor, Myb 90.26
KOG4167907 consensus Predicted DNA-binding protein, contains 88.46
COG5118507 BDP1 Transcription initiation factor TFIIIB, Bdp1 86.0
PF1387378 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain 85.71
KOG4282345 consensus Transcription factor GT-2 and related pr 84.62
KOG0050 617 consensus mRNA splicing protein CDC5 (Myb superfam 81.49
KOG0050 617 consensus mRNA splicing protein CDC5 (Myb superfam 80.73
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription] Back     alignment and domain information 
Probab=100.00  E-value=1.1e-96  Score=795.54  Aligned_cols=406  Identities=32%  Similarity=0.551  Sum_probs=333.0

Q ss_pred             CCceeeCCCCCCCCCCCCCCHHHHhhcCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHHhhccCCCChhHHH
Q 004116          177 GSRVHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLT  256 (773)
Q Consensus       177 ~~~~ivIPsyS~WFd~~~IH~IEKr~lPEFF~gk~~~ktPeiYk~yRNfMIntYR~NP~eYLTvTacRRnL~G~dv~sI~  256 (773)
                      |+|+||||+|+.|||+.+||+|||++.||||+|++++|||++||+|||||||+||+||++|||||+|||||+| |||+|+
T Consensus        48 Q~~piiiPs~a~WFd~SKiHeIE~~snPeFF~~rs~~KTP~vYk~YR~FminsyRL~p~eYLtvTa~RRNvag-DV~aiv  126 (531)
T COG5259          48 QTHPIIIPSYAEWFDGSKIHEIEKRSNPEFFNGRSPSKTPEVYKDYRNFMINSYRLNPNEYLTVTACRRNVAG-DVAAIV  126 (531)
T ss_pred             cCCceeccchhhhccccccccccccCCchhhcCCCCCCCHHHHHHHHhhccceeecCCcceEEeeeehhccch-hHHHHH
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999 599999


Q ss_pred             HHHHhhhhhcccccccCCCCCCCCCCCCccccCCCCccccCCcccccccccccccCCccCcccc-------------ccc
Q 004116          257 RIFRFLNHWGIINYCAAVQSPEPWNRGSYLREDSNGEVSVPSDALKSIDSLIKFDKPKCSLKVA-------------DVY  323 (773)
Q Consensus       257 RVH~FLE~WGLINYqvdp~~~P~~~~~~~i~~~~~G~~~~~s~~l~~~~~l~~fd~~k~~~~~~-------------~i~  323 (773)
                      |||+|||+||||||||||.++|     +.|+++.+||++..+++   +.|+.+|..+....+..             ..+
T Consensus       127 rvHrFLekWGLINYqvdp~trP-----s~IgPplt~h~q~l~dt---P~gl~p~l~~~~~~~~~~~a~~~e~~~~k~~~~  198 (531)
T COG5259         127 RVHRFLEKWGLINYQVDPGTRP-----STIGPPLTSHFQDLHDT---PRGLSPFLPWGPINQRVLGAKEIEYETHKEENY  198 (531)
T ss_pred             HHHHHHHHhcceeeccCCCCCc-----cccCCCcchhhHHHhhC---ccccccccCCCCccccccccchhhhhhhccCCC
Confidence            9999999999999999999998     45677889999887665   57888887665432211             222


Q ss_pred             CCCC------CCCCCcCchhHHHhhccCCCCCCCCCCCCcceeecccCcCcccChhhhccCCCCCCCCCCCceecCCCCC
Q 004116          324 SSSC------GGADFFDLDNTIRERLSENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPARE  397 (773)
Q Consensus       324 s~~~------~~~d~~~l~~~~~e~~~~~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~~~~~hss~dF~rvd~~~~  397 (773)
                      ++..      ..+++.++....  ......|..||+.+...+|+.++..++.+|..||..|+|+.+..+.||..++....
T Consensus       199 sps~~~~~k~s~~k~~el~~~~--~~~~~~C~~cG~~~~~t~y~nlra~~~n~C~~C~~qg~f~s~~~ssDf~~v~~~~~  276 (531)
T COG5259         199 SPSLKSPKKESQGKVDELKDHS--EKHPSSCSCCGNKSFNTRYHNLRAEKYNSCSECYDQGRFPSEFTSSDFKPVTISLL  276 (531)
T ss_pred             CchhhhhhhhcCCCcccccccc--ccCCceeeccCccccchhhhhhhhhhcccchHHHhcCcCCCccccccchhhhhhcc
Confidence            2211      011122211111  01236899999999999999998889999999999999999999999999987542


Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCHHHHHHHHHhCCCCCCCcccCCCCCCCCcCCCCCCCCCCCc
Q 004116          398 YGDIDGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENVEVPNTSRTSNSSSRDDRGGL  477 (773)
Q Consensus       398 ~~~~~~~~WT~qEellLLEaIe~yggNW~~IAehVGtKT~eECi~hFlqLPIED~fLe~~~~~~~s~~~~~~~~~d~~~~  477 (773)
                         ..+..||++|+++|||||++||++|++||.||||||+||||+|||+|||+|.||.+...                . 
T Consensus       277 ---~~dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~LPieD~~l~k~~~----------------~-  336 (531)
T COG5259         277 ---IRDKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQLPIEDNYLSKGDG----------------K-  336 (531)
T ss_pred             ---cccccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcCCcchhhhhcccC----------------c-
Confidence               25679999999999999999999999999999999999999999999999999976421                0 


Q ss_pred             ccCCCCCCCCCCcccccccCCcccCCCCCchHHHHHHHHhhcChHHHHHHHHHHHHHHHhhcccCCCCCCCCcccccccc
Q 004116          478 HSTVNGDLPGAGLQEADMENRLPFSNSGNPVMALVAFLASAVGPRVAAACAHASLAALSKQMEGAGHGNRMNSENVHNRE  557 (773)
Q Consensus       478 ~~dsng~~~G~~~~~~~~~~~~PFs~a~NPVMS~VAFLas~V~P~VAaAAA~AAl~~l~~~~~~~~~d~~~~sE~~~~~~  557 (773)
                               |..     ..+.+||+.++|||||+|+||+++|.|+|+...+.+.++. .+.    .              
T Consensus       337 ---------~~~-----~~G~~~f~~seNPVlstis~L~~iV~p~v~s~~q~~~~k~-g~~----~--------------  383 (531)
T COG5259         337 ---------GDN-----SKGRLPFDGSENPVLSTISFLAGIVNPRVQSEKQRAIIKS-GKI----S--------------  383 (531)
T ss_pred             ---------CCC-----CCCccccccCCCchhhHHHHHHHhcCHHHHHHHhhhhhhc-cce----e--------------
Confidence                     000     0135799999999999999999999999988777765211 000    0              


Q ss_pred             ccCCCCCCCCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004116          558 EENSGVHGPWGQNGAEAALLSAEKVKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLL  637 (773)
Q Consensus       558 ~~~d~~~~~~~~n~~~~~~~s~~~vk~Aa~~aLaaAA~KAk~LA~~EEREI~rLv~~IIe~QLKKLElKLk~feELE~~l  637 (773)
                                ..     ..-+.+.+...+..||.+++.|||++|+.|||+|++|+..+|+.||+||++||.+|++||+.+
T Consensus       384 ----------~~-----n~e~~~~~~~~~~~al~s~~eka~l~~~~Eerkm~rL~~~~iq~qleKlk~Kl~~~k~L~~~~  448 (531)
T COG5259         384 ----------HI-----NRESQEHIEEVIEYALDSGKEKAKLQATNEERKMERLRNVLIQAQLEKLKMKLGHLKELEKST  448 (531)
T ss_pred             ----------cC-----ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                      00     011234566777789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHH---HHHHHHHHHHHHHHH
Q 004116          638 MRECEQVEK---ARQRFATERTRIVST  661 (773)
Q Consensus       638 e~Ere~LE~---~Rq~L~~eR~~~~~~  661 (773)
                      .+||..|+.   .|+-.+.+-+-.+..
T Consensus       449 ~L~rqeLd~nlll~rl~~~e~l~~~~e  475 (531)
T COG5259         449 SLERQELDANLLLRRLNAEEKLFAIDE  475 (531)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            999999999   444444444433333

>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics] Back     alignment and domain information
>PF04433 SWIRM: SWIRM domain; InterPro: IPR007526 The SWIRM domain is a small alpha-helical domain of about 85 amino acid residues found in eukaryotic chromosomal proteins Back     alignment and domain information
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics] Back     alignment and domain information
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics] Back     alignment and domain information
>cd02336 ZZ_RSC8 Zinc finger, ZZ type 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
>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
>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
>cd02335 ZZ_ADA2 Zinc finger, ZZ type Back     alignment and domain information
>PLN03000 amine oxidase Back     alignment and domain information
>PLN02328 lysine-specific histone demethylase 1 homolog Back     alignment and domain information
>cd02345 ZZ_dah Zinc finger, ZZ type Back     alignment and domain information
>cd02338 ZZ_PCMF_like Zinc finger, ZZ type Back     alignment and domain information
>cd02343 ZZ_EF Zinc finger, ZZ type Back     alignment and domain information
>cd02334 ZZ_dystrophin Zinc finger, ZZ type Back     alignment and domain information
>cd02249 ZZ Zinc finger, ZZ type Back     alignment and domain information
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type Back     alignment and domain information
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein Back     alignment and domain information
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class Back     alignment and domain information
>PLN03212 Transcription repressor MYB5; Provisional Back     alignment and domain information
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type Back     alignment and domain information
>PF00569 ZZ: Zinc finger, ZZ type; InterPro: IPR000433 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule Back     alignment and domain information
>PLN03091 hypothetical protein; Provisional Back     alignment and domain information
>cd02344 ZZ_HERC2 Zinc finger, ZZ type Back     alignment and domain information
>PLN02529 lysine-specific histone demethylase 1 Back     alignment and domain information
>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type Back     alignment and domain information
>PLN03212 Transcription repressor MYB5; Provisional 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
>cd02337 ZZ_CBP Zinc finger, ZZ type Back     alignment and domain information
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type Back     alignment and domain information
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription] Back     alignment and domain information
>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only] 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
>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton] Back     alignment and domain information
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription] Back     alignment and domain information
>PLN02976 amine oxidase Back     alignment and domain information
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription] Back     alignment and domain information
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only] Back     alignment and domain information
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription] Back     alignment and domain information
>KOG4301 consensus Beta-dystrobrevin [Cytoskeleton] Back     alignment and domain information
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription] Back     alignment and domain information
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription] Back     alignment and domain information
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription] Back     alignment and domain information
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain 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
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning] 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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query773
2fq3_A104 Structure And Function Of The Swirm Domain, A Conse 5e-12
2yus_A79 Solution Structure Of The Sant Domain Of Human SwiS 3e-09
>pdb|2FQ3|A Chain A, Structure And Function Of The Swirm Domain, A Conserved Protein Module Found In Chromatin Regulatory Complexes Length = 104 Back     alignment and structure 
Iteration: 1

 Score = 70.1 bits (170), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 33/85 (38%), Positives = 48/85 (56%), Gaps = 1/85 (1%)
Query: 186 HSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQG 245
           +S WF+ + +H +E Q +P FF+ + P  TPE YM  RN +V  Y  NP +   V+  + 
Sbjct: 16  YSKWFNLEKIHSIEVQSLPEFFTNRIPSKTPEVYMRYRNFMVNSYRLNPNEYFSVTTARR 75
Query: 246 LVDGVSPEDLTRIFRFLNHWGIINY 270
            V G     L R+ +FL  WG+INY
Sbjct: 76  NVSG-DAAALFRLHKFLTKWGLINY 99
>pdb|2YUS|A Chain A, Solution Structure Of The Sant Domain Of Human SwiSNF- Related Matrix-Associated Actin-Dependent Regulator Of Chromatin Subfamily C Member 1 Length = 79 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 ?
Query773
2fq3_A104 Transcription regulatory protein SWI3; four-helix 9e-38
2dce_A111 KIAA1915 protein; swirm domain, structural genomic 1e-32
2yus_A79 SWI/SNF-related matrix-associated actin- dependent 2e-22
2elk_A58 SPCC24B10.08C protein; hypothetical protein, struc 2e-15
1x41_A60 Transcriptional adaptor 2-like, isoform B; transcr 2e-14
2ltp_A89 Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s 9e-11
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-10
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-06
2cu7_A72 KIAA1915 protein; nuclear protein, SANT domain, DN 7e-09
4a69_C94 Nuclear receptor corepressor 2; transcription, hyd 2e-08
2xag_A852 Lysine-specific histone demethylase 1; amine oxida 6e-08
2z3y_A662 Lysine-specific histone demethylase 1; chromatin, 7e-08
2eqr_A61 N-COR1, N-COR, nuclear receptor corepressor 1; SAN 3e-07
2cqr_A73 RSGI RUH-043, DNAJ homolog subfamily C member 1; m 1e-06
2yum_A75 ZZZ3 protein, zinc finger ZZ-type-containing prote 8e-06
2iw5_B235 Protein corest, REST corepressor 1; oxidoreductase 8e-06
2xag_B482 REST corepressor 1; amine oxidase, chromatin regul 2e-04
2e5r_A63 Dystrobrevin alpha; ZZ domain, structural genomics 6e-04
>2fq3_A Transcription regulatory protein SWI3; four-helix bundle; 1.40A {Saccharomyces cerevisiae} SCOP: a.4.1.18 Length = 104 Back     alignment and structure
 Score =  135 bits (341), Expect = 9e-38
 Identities = 33/94 (35%), Positives = 50/94 (53%), Gaps = 1/94 (1%)

Query: 182 VLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVS 241
           +   +S WF+ + +H +E Q +P FF+ + P  TPE YM  RN +V  Y  NP +   V+
Sbjct: 12  MASSYSKWFNLEKIHSIEVQSLPEFFTNRIPSKTPEVYMRYRNFMVNSYRLNPNEYFSVT 71

Query: 242 DCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQ 275
             +  V G     L R+ +FL  WG+INY    +
Sbjct: 72  TARRNVSG-DAAALFRLHKFLTKWGLINYQVDSK 104
>2dce_A KIAA1915 protein; swirm domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 111 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
>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
>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
>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
>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
>4a69_C Nuclear receptor corepressor 2; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} PDB: 1xc5_A Length = 94 Back     alignment and structure
>2xag_A Lysine-specific histone demethylase 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_A* 2xah_A* 2xaj_A* 2xaq_A* 2xas_A* 2com_A Length = 852 Back     alignment and structure
>2z3y_A Lysine-specific histone demethylase 1; chromatin, nucleosome, transcription, LSD1, alternative splicing, chromatin regulator, coiled coil; HET: F2N; 2.25A {Homo sapiens} SCOP: a.4.1.18 c.3.1.2 d.16.1.5 PDB: 2ejr_A* 2z5u_A* 3abt_A* 3abu_A* 2y48_A* 2v1d_A* 2h94_A* 2iw5_A* 2uxn_A* 2uxx_A* 2hko_A* 2dw4_A* 2x0l_A* 2l3d_A Length = 662 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
>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 75 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
>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
>2e5r_A Dystrobrevin alpha; ZZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 63 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query773
2fq3_A104 Transcription regulatory protein SWI3; four-helix 100.0
2dce_A111 KIAA1915 protein; swirm domain, structural genomic 100.0
2yus_A79 SWI/SNF-related matrix-associated actin- dependent 99.57
2elk_A58 SPCC24B10.08C protein; hypothetical protein, struc 99.29
1x41_A60 Transcriptional adaptor 2-like, isoform B; transcr 99.18
1wgx_A73 KIAA1903 protein; MYB DNA-binding domain, human cD 98.95
2cqr_A73 RSGI RUH-043, DNAJ homolog subfamily C member 1; m 98.94
2yum_A75 ZZZ3 protein, zinc finger ZZ-type-containing prote 98.85
1guu_A52 C-MYB, MYB proto-oncogene protein; transcription, 98.8
2d9a_A60 B-MYB, MYB-related protein B; DNA binding, structu 98.79
2cu7_A72 KIAA1915 protein; nuclear protein, SANT domain, DN 98.79
1gvd_A52 MYB proto-oncogene protein; transcription, transcr 98.77
1w0t_A53 Telomeric repeat binding factor 1; telomere, DNA-b 98.75
2dim_A70 Cell division cycle 5-like protein; MYB_DNA-bindin 98.73
3sjm_A64 Telomeric repeat-binding factor 2; human telomeric 98.6
1ity_A69 TRF1; helix-turn-helix, telomeres, DNA binding, MY 98.6
2eqr_A61 N-COR1, N-COR, nuclear receptor corepressor 1; SAN 98.6
2din_A66 Cell division cycle 5-like protein; MYB_DNA-bindin 98.59
2cjj_A93 Radialis; plant development, DNA-binding protein, 98.56
2ltp_A89 Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s 97.88
2iw5_B235 Protein corest, REST corepressor 1; oxidoreductase 98.46
2llk_A73 Cyclin-D-binding MYB-like transcription factor 1; 98.39
2k9n_A107 MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind 98.36
1gv2_A105 C-MYB, MYB proto-oncogene protein; transcription, 98.35
2k9n_A107 MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind 98.32
3osg_A126 MYB21; transcription-DNA complex, MYB2, R2R3 domai 98.31
2yqk_A63 Arginine-glutamic acid dipeptide repeats protein; 98.3
1gv2_A105 C-MYB, MYB proto-oncogene protein; transcription, 98.28
1h8a_C128 AMV V-MYB, MYB transforming protein; transcription 98.27
3osg_A126 MYB21; transcription-DNA complex, MYB2, R2R3 domai 98.26
2cqq_A72 RSGI RUH-037, DNAJ homolog subfamily C member 1; m 98.25
2xag_B482 REST corepressor 1; amine oxidase, chromatin regul 98.23
2ckx_A83 NGTRF1, telomere binding protein TBP1; nuclear pro 98.23
3zqc_A131 MYB3; transcription-DNA complex, DNA-binding prote 98.18
1h8a_C128 AMV V-MYB, MYB transforming protein; transcription 98.18
3zqc_A131 MYB3; transcription-DNA complex, DNA-binding prote 98.14
2crg_A70 Metastasis associated protein MTA3; transcription 98.06
2e5r_A63 Dystrobrevin alpha; ZZ domain, structural genomics 98.03
4eef_G74 F-HB80.4, designed hemagglutinin binding protein; 97.96
4gut_A776 Lysine-specific histone demethylase 1B; histone de 97.93
1h89_C159 C-MYB, MYB proto-oncogene protein; transcription/D 97.92
4a69_C94 Nuclear receptor corepressor 2; transcription, hyd 97.89
2roh_A122 RTBP1, telomere binding protein-1; plant, nucleus, 97.89
1h89_C159 C-MYB, MYB proto-oncogene protein; transcription/D 97.88
2z3y_A662 Lysine-specific histone demethylase 1; chromatin, 97.85
2aje_A105 Telomere repeat-binding protein; DNA-binding, Trp, 97.83
2dip_A98 Zinc finger SWIM domain-containing protein 2; ZZ d 97.77
2juh_A121 Telomere binding protein TBP1; helix, nucleus, nuc 97.75
2fc7_A82 ZZZ3 protein; structure genomics, ZZ domain, struc 97.69
1x58_A62 Hypothetical protein 4930532D21RIK; MUS musculus a 97.45
1tot_A52 CREB-binding protein; zinc binding, CBP, TAZ2, tra 96.95
1ign_A246 Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, 96.87
2xag_A852 Lysine-specific histone demethylase 1; amine oxida 96.62
2ebi_A86 DNA binding protein GT-1; DNA-binding domain, phos 95.97
3hm5_A93 DNA methyltransferase 1-associated protein 1; DNA 95.41
1ug2_A95 2610100B20RIK gene product; hypothetical protein, 94.79
1ofc_X304 ISWI protein; nuclear protein, chromatin remodelin 94.74
2xag_B482 REST corepressor 1; amine oxidase, chromatin regul 94.69
1fex_A59 TRF2-interacting telomeric RAP1 protein; helix tur 93.75
4iej_A93 DNA methyltransferase 1-associated protein 1; DNA 92.06
2lr8_A70 CAsp8-associated protein 2; structural genomics, n 90.15
2xb0_X270 Chromo domain-containing protein 1; hydrolase, DNA 89.97
4b4c_A211 Chromodomain-helicase-DNA-binding protein 1; chrom 88.58
4b4c_A211 Chromodomain-helicase-DNA-binding protein 1; chrom 87.3
2aqe_A90 Transcriptional adaptor 2, ADA2 alpha; helix-turn- 86.83
2cuj_A108 Transcriptional adaptor 2-like; transcriptional re 85.61
2elj_A88 Transcriptional adapter 2; YDR448W, structural gen 83.09
1irz_A64 ARR10-B; helix-turn-helix, DNA binding protein; NM 82.48
2y9y_A374 Imitation switch protein 1 (DEL_ATPase); transcrip 80.57
>2fq3_A Transcription regulatory protein SWI3; four-helix bundle; 1.40A {Saccharomyces cerevisiae} SCOP: a.4.1.18 Back     alignment and structure
Probab=100.00  E-value=3.5e-43  Score=319.65  Aligned_cols=96  Identities=34%  Similarity=0.685  Sum_probs=84.2

Q ss_pred             ceeeCCCCCCCCCCCCCCHHHHhhcCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHHhhccCCCChhHHHHH
Q 004116          179 RVHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRI  258 (773)
Q Consensus       179 ~~ivIPsyS~WFd~~~IH~IEKr~lPEFF~gk~~~ktPeiYk~yRNfMIntYR~NP~eYLTvTacRRnL~G~dv~sI~RV  258 (773)
                      |+=.-|+||.||+|++||+|||++|||||+|++++|||++|++||||||++||+||.+|||+|+||++|+| ||++|+||
T Consensus         9 ~~~~~p~~s~wF~~~~Ih~iEk~~lPEfF~g~~~~ktpe~Yl~iRN~iI~~yr~nP~~yLT~t~~r~~l~g-Dv~~i~RV   87 (104)
T 2fq3_A            9 HHGMASSYSKWFNLEKIHSIEVQSLPEFFTNRIPSKTPEVYMRYRNFMVNSYRLNPNEYFSVTTARRNVSG-DAAALFRL   87 (104)
T ss_dssp             --------CTTCCTTCCCHHHHHHCGGGCCSSCTTSCHHHHHHHHHHHHHHHHHCTTSCCCHHHHHHHSCS-CHHHHHHH
T ss_pred             cCCCCCCcccccCcccCCHHHHHHChHHhcCCCCCCCHHHHHHHHHHHHHHHHhCCceeeeHHHHHHHccc-cHHHHHHH
Confidence            34568999999999999999999999999999999999999999999999999999999999999999999 59999999


Q ss_pred             HHhhhhhcccccccCCC
Q 004116          259 FRFLNHWGIINYCAAVQ  275 (773)
Q Consensus       259 H~FLE~WGLINYqvdp~  275 (773)
                      |+|||+||||||||||+
T Consensus        88 h~FLe~wGLIN~~v~~~  104 (104)
T 2fq3_A           88 HKFLTKWGLINYQVDSK  104 (104)
T ss_dssp             HHHHHHTTSSSSCC---
T ss_pred             HHHHHHcCeeccCCCCC
Confidence            99999999999999984
>2dce_A KIAA1915 protein; swirm domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2yus_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; SWI/SNF complex 155 kDa subunit, BRG1-associated factor 155; NMR {Homo sapiens} Back     alignment and structure
>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe} 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
>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
>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
>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1guu_A C-MYB, MYB proto-oncogene protein; transcription, transcription regulation, DNA binding, ION bindi proto-oncogene, nuclear protein, activator; 1.6A {Mus musculus} SCOP: a.4.1.3 PDB: 1mbe_A 1mbf_A Back     alignment and structure
>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics, unknown function, NPPSFA; NMR {Mus musculus} 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
>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
>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
>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
>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
>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
>2eqr_A N-COR1, N-COR, nuclear receptor corepressor 1; SANT domain, structural genomics, NPPSFA; 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
>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
>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural genomics consortium, NESG, north structural genomics consortium; NMR {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
>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
>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_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
>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_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
>2yqk_A Arginine-glutamic acid dipeptide repeats protein; structure genomics, SANT domain, structural genomics, NPPSFA; 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
>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
>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
>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
>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
>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
>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
>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis} 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
>2e5r_A Dystrobrevin alpha; ZZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} 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
>4gut_A Lysine-specific histone demethylase 1B; histone demethylase; HET: FAD PGE; 2.00A {Homo sapiens} PDB: 4gur_A* 4gus_A* 4guu_A* 4fwe_A* 4fwf_A* 4fwj_A* 4gu1_A* Back     alignment and structure
>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C Back     alignment and structure
>4a69_C Nuclear receptor corepressor 2; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} PDB: 1xc5_A 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
>2z3y_A Lysine-specific histone demethylase 1; chromatin, nucleosome, transcription, LSD1, alternative splicing, chromatin regulator, coiled coil; HET: F2N; 2.25A {Homo sapiens} SCOP: a.4.1.18 c.3.1.2 d.16.1.5 PDB: 2ejr_A* 2z5u_A* 3abt_A* 3abu_A* 2y48_A* 2v1d_A* 2h94_A* 2iw5_A* 2uxn_A* 2uxx_A* 2hko_A* 2dw4_A* 2x0l_A* 2l3d_A 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
>2dip_A Zinc finger SWIM domain-containing protein 2; ZZ domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.44.1.6 Back     alignment and structure
>2juh_A Telomere binding protein TBP1; helix, nucleus, nuclear protein; NMR {Nicotiana glutinosa} Back     alignment and structure
>2fc7_A ZZZ3 protein; structure genomics, ZZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.6 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
>1tot_A CREB-binding protein; zinc binding, CBP, TAZ2, transferase; NMR {Mus musculus} SCOP: g.44.1.6 Back     alignment and structure
>1ign_A Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, DNA binding protein/DNA complex; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: a.4.1.6 a.4.1.6 PDB: 3ukg_A Back     alignment and structure
>2xag_A Lysine-specific histone demethylase 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_A* 2xah_A* 2xaj_A* 2xaq_A* 2xas_A* 2com_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
>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
>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
>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
>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
>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
>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
>4b4c_A Chromodomain-helicase-DNA-binding protein 1; chromatin-remodeling, histone acetylation COMP chromatin regulation, transcription; 1.62A {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
>2aqe_A Transcriptional adaptor 2, ADA2 alpha; helix-turn-helix; NMR {Mus musculus} SCOP: a.4.1.18 PDB: 2aqf_A Back     alignment and structure
>2cuj_A Transcriptional adaptor 2-like; transcriptional regulation, nuclear protein, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.18 Back     alignment and structure
>2elj_A Transcriptional adapter 2; YDR448W, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Saccharomyces cerevisiae} 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
>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

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 773
d2fq3a185 a.4.1.18 (A:311-395) Transcription regulatory prot 3e-31
d2dw4a1102 a.4.1.18 (A:172-273) Lysine-specific histone demet 6e-24
d1xc5a168 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 2e-09
d2iw5b165 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Hu 3e-08
d2crga157 a.4.1.3 (A:8-64) Metastasis associated protein MTA 2e-07
d2cqra160 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 3e-06
d2cu7a165 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sap 3e-06
d2cjja163 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Anti 7e-06
d1x41a147 a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, T 1e-04
d1gv2a247 a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mou 6e-04
d1guua_50 a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus 0.004
>d2fq3a1 a.4.1.18 (A:311-395) Transcription regulatory protein swi3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 85 Back     information, alignment and structure

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: SWIRM domain
domain: Transcription regulatory protein swi3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  114 bits (288), Expect = 3e-31
 Identities = 33/84 (39%), Positives = 47/84 (55%), Gaps = 1/84 (1%)

Query: 187 SDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGL 246
           S WF+ + +H +E Q +P FF+ + P  TPE YM  RN +V  Y  NP +   V+  +  
Sbjct: 1   SKWFNLEKIHSIEVQSLPEFFTNRIPSKTPEVYMRYRNFMVNSYRLNPNEYFSVTTARRN 60

Query: 247 VDGVSPEDLTRIFRFLNHWGIINY 270
           V G     L R+ +FL  WG+INY
Sbjct: 61  VSG-DAAALFRLHKFLTKWGLINY 83
>d2dw4a1 a.4.1.18 (A:172-273) Lysine-specific histone demethylase 1, LSD1 {Human (Homo sapiens) [TaxId: 9606]} Length = 102 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
>d2iw5b1 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Human (Homo sapiens) [TaxId: 9606]} Length = 65 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
>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
>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]} Length = 65 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
>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
>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
>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 50 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 ?
Query773
d2fq3a185 Transcription regulatory protein swi3 {Baker's yea 100.0
d2dw4a1102 Lysine-specific histone demethylase 1, LSD1 {Human 99.96
d1x41a147 Transcriptional adaptor 2-like, TADA2L, isoform b 99.38
d2cu7a165 MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 960 98.94
d2cjja163 Radialis {Garden snapdragon (Antirrhinum majus) [T 98.87
d1gvda_52 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 98.87
d1guua_50 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 98.86
d2iw5b165 REST corepressor 1, CoREST {Human (Homo sapiens) [ 98.86
d2cqra160 DnaJ homolog subfamily C member 1 {Human (Homo sap 98.86
d1xc5a168 Nuclear receptor corepressor 2 {Human (Homo sapien 98.68
d1gv2a247 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 98.68
d1w0ua_55 Telomeric repeat binding factor 2, TRF2 {Human (Ho 98.56
d1w0ta_52 DNA-binding domain of human telomeric protein, hTR 98.53
d2crga157 Metastasis associated protein MTA3 {Mouse (Mus mus 98.48
d2ckxa183 Telomere binding protein TBP1 {Tobacco (Nicotiana 98.18
d1igna186 DNA-binding domain of rap1 {Baker's yeast (Sacchar 97.94
d2cqqa159 DnaJ homolog subfamily C member 1 {Human (Homo sap 97.94
d1ug2a_95 2610100b20rik gene product {Mouse (Mus musculus) [ 97.75
d1wgxa_73 Hypothetical protein C14orf106 (KIAA1903) {Human ( 97.64
d2fc7a169 Zinc finger ZZ-type-containing protein 3, ZZZ3 {Hu 97.48
d2dipa185 Zinc finger ZZ-type-containing protein 2 {Human (H 96.81
d1tota152 CREB-binding protein, CBP {Mouse (Mus musculus) [T 96.7
d1ofcx152 SANT domain of the nucleosome remodeling ATPase IS 95.9
d1irza_64 Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId 95.8
d1x58a149 Hypothetical protein 4930532d21rik {Mouse (Mus mus 93.19
d2cuja1101 Transcriptional adaptor 2-like, TADA2L {Mouse (Mus 90.15
>d2fq3a1 a.4.1.18 (A:311-395) Transcription regulatory protein swi3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: SWIRM domain
domain: Transcription regulatory protein swi3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.3e-36  Score=264.62  Aligned_cols=85  Identities=39%  Similarity=0.794  Sum_probs=83.2

Q ss_pred             CCCCCCCCCCHHHHhhcCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHHhhccCCCChhHHHHHHHhhhhhc
Q 004116          187 SDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWG  266 (773)
Q Consensus       187 S~WFd~~~IH~IEKr~lPEFF~gk~~~ktPeiYk~yRNfMIntYR~NP~eYLTvTacRRnL~G~dv~sI~RVH~FLE~WG  266 (773)
                      |+||+|++||+|||++|||||+|++.+|||++|+.|||+||++||+||.+|||+|+||+++.| |++++.|||+||++||
T Consensus         1 s~WF~~~~i~~iE~~~lPeff~~~~~~kt~~~Yl~iRN~Il~~w~~np~~~Lt~~~~~~~~~~-d~~~~~ri~~FL~~~G   79 (85)
T d2fq3a1           1 SKWFNLEKIHSIEVQSLPEFFTNRIPSKTPEVYMRYRNFMVNSYRLNPNEYFSVTTARRNVSG-DAAALFRLHKFLTKWG   79 (85)
T ss_dssp             CTTCCTTCCCHHHHHHCGGGCCSSCTTSCHHHHHHHHHHHHHHHHHCTTSCCCHHHHHHHSCS-CHHHHHHHHHHHHHTT
T ss_pred             CCCCCCCcCCHHHHHHCHHHhcCCCCCCCHHHHHHHHHHHHHHHHhCCCeeeeHHHHHhhccC-CHHHHHHHHHHHHHcC
Confidence            689999999999999999999999999999999999999999999999999999999999998 5999999999999999


Q ss_pred             cccccc
Q 004116          267 IINYCA  272 (773)
Q Consensus       267 LINYqv  272 (773)
                      ||||||
T Consensus        80 ~INf~v   85 (85)
T d2fq3a1          80 LINYQV   85 (85)
T ss_dssp             SSSSCC
T ss_pred             ccCccC
Confidence            999997
>d2dw4a1 a.4.1.18 (A:172-273) Lysine-specific histone demethylase 1, LSD1 {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
>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
>d1gvda_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2iw5b1 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {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
>d1xc5a1 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 {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
>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
>d2crga1 a.4.1.3 (A:8-64) Metastasis associated protein MTA3 {Mouse (Mus musculus) [TaxId: 10090]} 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
>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
>d1ug2a_ a.4.1.3 (A:) 2610100b20rik gene product {Mouse (Mus musculus) [TaxId: 10090]} 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
>d2fc7a1 g.44.1.6 (A:8-76) Zinc finger ZZ-type-containing protein 3, ZZZ3 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2dipa1 g.44.1.6 (A:8-92) Zinc finger ZZ-type-containing protein 2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1tota1 g.44.1.6 (A:1-52) CREB-binding protein, CBP {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
>d1irza_ a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} 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
>d2cuja1 a.4.1.18 (A:8-108) Transcriptional adaptor 2-like, TADA2L {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure