Citrus Sinensis ID: 046293

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-----

MNAQNAAGQSNYEDSLYVPEVALNRKPHKGKKFDTLDDAYEFYKKYAKEGGFSIQINSSKICKESNDIIRKEYVCFKEGQARQSKVVNRKRRRGIIRGGCSANLVVVKYEFGKYMVRIFVEEHNHTLSSPRMVHLLRSHRSMSAVQKSLSQQLAAVNIPTYILYEHFQSEKEKNSSFFYNIKAGCDDRITHCFWADAICRRAYKFYGDVIVFDTTYNTNRYNMIFAPFVGVNNHGQTIIFGCGFLSDETTESFLWLFEQFKEAMPGDDPKMIITDQDPAMILHLAYWHILNKFLERLSKTVHTENYRHFQKCIWESNTIEKFDALWKDVIDKAKLIENEWLQGVYEIRSKWVHAYVNHVFSAGMSSSNRAESNHAIFRRALSQQRHEELIADNKDLNERPMLRLPLQIEKKMSEIYTCEIFYIFQDELWNSLLHAIELVKENEDCLVYNVVNQEDGVSKVFEVLYDKKLDFVSCICKKFKSEGIPCTHMLALFKKLQISFMPNIYILKRWTKAAKLERVMDRDGVEINDCSNKSILLRRTKLFQFTSNVIDKVVLSEVASEIVIENLEDALEKVKLVMESCRSEGVLEKNSGMQQPHFNEPLQIRAKGCGKRLKGGKEKAKEKAKGKDKGRRCNGCGLVGQSHDKRNCPLLIKRCHYNSTGALTKATKLRTNSNPNCVLISITSLKDVELWKHLL

cccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHccccEEEEccEEEEcccccEEEEEEEEcccccccccccccccccccccccccccEEEEEEEEccEEEEEEEEccccccccccccEEEcccccccHHHHHHHHHHHHHccccccccHHHHHHHHcccccEEEEEEEccccccEEEEEccHHHHHHHHHccccccccccccccccccccEEEEEEccccccEEEEEEccccccHHHHHHHHHHHHHHcccccccEEEcccccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHccEEEEEEccccEEEEEEEEcccccEEEEEEEEEccccEEEEEccccccccccHHHHHHHHHHHHcccccccHHHHcccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcc

ccccHcccccccccccccccccccccccccEEEccHHHHHHHHHHHHHHcccEEEEEEcEEEccccEEEEEEEEEccccccccccccccccccccccccccEEEEEEEccccEEEEEEEEcccccccccHHHHHHccccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHccccEEEEEEEcccccEEEEEEEcccHHHHHHHcccEEEEEcEEccccccccEEEEEEEcccccEEEEEHHHHccccHHHHHHHHHHHHHHHcccccEEEEEcccccccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHccHHHHHHHHHHHHHHHHccEEEEcccccEEEEEEEEEcccccEEEEEEEcccccEEEEEEHHEEccccHHHHHHHHHHHcccccccHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccEccccccccEEEEEHHHHHHHHHHHHHc

mnaqnaagqsnyedslyvpevalnrkphkgkkfdtLDDAYEFYKKYAkeggfsiqinSSKICKESNDIIRKEYVCFKEGQARQSKVVNRkrrrgiirggcSANLVVVKYEFGKYMVRIFVEEhnhtlsspRMVHLLRSHRSMSAVQKSLSQQLAAVNIPTYILYEHFqsekeknssFFYNIkagcddrithcfWADAICRRAYKFYGDVIVFDttyntnrynmifapfvgvnnhgqtiifgcgflsdetTESFLWLFEQFkeampgddpkmiitdqdpAMILHLAYWHILNKFLERLSKTVHTENYRHFQKCIWESNTIEKFDALWKDVIDKAKLIENEWLQGVYEIRSKWVHAYVNHVFSagmsssnraesNHAIFRRALSQQRHEELIAdnkdlnerpmlrlpLQIEKKMSEIYTCEIFYIFQDELWNSLLHAIELVKENEDCLVYNVVNQEDGVSKVFEVLYDKKLDFVSCICKkfksegipctHMLALFKKLQISFMPNIYILKRWTKAAKLERvmdrdgveindcsnkSILLRRTKLFQFTSNVIDKVVLSEVASEIVIENLEDALEKVKLVMESCRSegvleknsgmqqphfneplqiRAKGCGKRLKGGKEKAKekakgkdkgrrcngcglvgqshdkrncpllikrchynstgaltkatklrtnsnpncvLISITSLKDVELWKHLL

mnaqnaagqsnyedslyVPEVAlnrkphkgkkfdTLDDAYEFYKKYAKeggfsiqinsskICKESNDIIRKEyvcfkegqarqskvvnrkrrrgiirggcsanlvVVKYEFGKYMVRIFVEEHNHTLSSPRMVHLLRSHRSMSAVQKSLSQQLAAVNIPTYILYEHFQSEKEKNSSFFYNIKAGCDDRITHCFWADAICRRAYKFYGDVIVFDTTYNTNRYNMIFAPFVGVNNHGQTIIFGCGFLSDETTESFLWLFEQFKEAMPGDDPKMIITDQDPAMILHLAYWHILNKFLERLSKTVHTENYRHFQKCIWESNTIEKFDALWKDVIDKAKLIENEWLQGVYEIRSKWVHAYVNHVFSAGMSSSNRAESNHAIFRRALSQQRHEELiadnkdlnerpmLRLPLQIEKKMSEIYTCEIFYIFQDELWNSLLHAIELVKENEDCLVYNVVNQEDGVSKVFEVLYDKKLDFVSCICKKFKSEGIPCTHMLALFKKLQISFMPNIYILKRWTKAAKLervmdrdgveindcsnksillrrtklfqftsnvidkvVLSEVASEIVIENLEDALEKVKLVMESCRSEGvleknsgmqqphfneplqirakgcgkrlkggkekakekakgkdkgrrcngcglvgqshdkrncPLLIKRCHYNSTGAltkatklrtnsnpncvlisitslkdvelWKHLL

MNAQNAAGQSNYEDSLYVPEVALNRKPHKGKKFDTLDDAYEFYKKYAKEGGFSIQINSSKICKESNDIIRKEYVCFKEGQARQSKVVNrkrrrgiirggCSANLVVVKYEFGKYMVRIFVEEHNHTLSSPRMVHLLRSHRSMSAVQKSLSQQLAAVNIPTYILYEHFQSEKEKNSSFFYNIKAGCDDRITHCFWADAICRRAYKFYGDVIVFDTTYNTNRYNMIFAPFVGVNNHGQTIIFGCGFLSDETTESFLWLFEQFKEAMPGDDPKMIITDQDPAMILHLAYWHILNKFLERLSKTVHTENYRHFQKCIWESNTIEKFDALWKDVIDKAKLIENEWLQGVYEIRSKWVHAYVNHVFSAGMSSSNRAESNHAIFRRALSQQRHEELIADNKDLNERPMLRLPLQIEKKMSEIYTCEIFYIFQDELWNSLLHAIELVKENEDCLVYNVVNQEDGVSKVFEVLYDKKLDFVSCICKKFKSEGIPCTHMLALFKKLQISFMPNIYILKRWTKAAKLERVMDRDGVEINDCSNKSILLRRTKLFQFTSNVIDKVVLSEVASEIVIENLEDALEKVKLVMESCRSEGVLEKNSGMQQPHFNEPLQIRAKGCgkrlkggkekakekakgkdkgrRCNGCGLVGQSHDKRNCPLLIKRCHYNSTGALTKATKLRTNSNPNCVLISITSLKDVELWKHLL

****************YV**V*********KKFDTLDDAYEFYKKYAKEGGFSIQINSSKICKESNDIIRKEYVCFKEGQARQSKVVNRKRRRGIIRGGCSANLVVVKYEFGKYMVRIFVEEHNHTLS***MVHLL**************QQLAAVNIPTYILYEHFQSEKEKNSSFFYNIKAGCDDRITHCFWADAICRRAYKFYGDVIVFDTTYNTNRYNMIFAPFVGVNNHGQTIIFGCGFLSDETTESFLWLFEQFKEAMPGDDPKMIITDQDPAMILHLAYWHILNKFLERLSKTVHTENYRHFQKCIWESNTIEKFDALWKDVIDKAKLIENEWLQGVYEIRSKWVHAYVNHVFSA***************************************LRLPLQIEKKMSEIYTCEIFYIFQDELWNSLLHAIELVKENEDCLVYNVVNQEDGVSKVFEVLYDKKLDFVSCICKKFKSEGIPCTHMLALFKKLQISFMPNIYILKRWTKAAKLERVMDRDGVEINDCSNKSILLRRTKLFQFTSNVIDKVVLSEVASEIVIENLEDALEKVKLVMESC***************************************************CNGCGLVGQSHDKRNCPLLIKRCHYNSTGALTKATKLRTNSNPNCVLISITSLKDVELWK***

***********************NRKPHKGKKFDTLDDAYEFYKKYAKEGGFSIQINSSKICKESNDIIRKEYVCFKEGQA****************GGCSANLVVVKYEFGKYMVRIFVEEHNHTLSSPRMVHLLRSHRSMSAVQKSLSQQLAAVNIPTYILYEHFQSEKEKNSSFFYNIKAGCDDRITHCFWADAICRRAYKFYGDVIVFDTTYNTNRYNMIFAPFVGVNNHGQTIIFGCGFLSDETTESFLWLFEQFKEAMPGDDPKMIITDQDPAMILHLAYWHILNKFLERLSKTVHTENYRHFQKCIWESNTIEKFDALWKDVIDKAKLIENEWLQGVYEIRSKWVHAYVNHVFSAGMSSSNRAESNHAIFRRALSQQRHEELIADNKDLNERPMLRLPLQIEKKMSEIYTCEIFYIFQDELWNSLLHAIELVKENEDCLVYNVVNQEDGVSKVFEVLYDKKLDFVSCICKKFKSEGIPCTHMLALFKKLQISFMPNIYILKRWTKAAKLERVMD***********KSILLRRTKLFQFTSNVIDKVVLSEVASEIVIENLEDA*******************************************************************LVGQSHDKRNC****************************CVLISITSLKDVELWKHLL

***********YEDSLYVPEVALNRKPHKGKKFDTLDDAYEFYKKYAKEGGFSIQINSSKICKESNDIIRKEYVCFKEG***********RRRGIIRGGCSANLVVVKYEFGKYMVRIFVEEHNHTLSSPRMVHLLRSHR**********QQLAAVNIPTYILYEHFQSEKEKNSSFFYNIKAGCDDRITHCFWADAICRRAYKFYGDVIVFDTTYNTNRYNMIFAPFVGVNNHGQTIIFGCGFLSDETTESFLWLFEQFKEAMPGDDPKMIITDQDPAMILHLAYWHILNKFLERLSKTVHTENYRHFQKCIWESNTIEKFDALWKDVIDKAKLIENEWLQGVYEIRSKWVHAYVNHVFSAGMSSSNRAESNHAIFRRALSQQRHEELIADNKDLNERPMLRLPLQIEKKMSEIYTCEIFYIFQDELWNSLLHAIELVKENEDCLVYNVVNQEDGVSKVFEVLYDKKLDFVSCICKKFKSEGIPCTHMLALFKKLQISFMPNIYILKRWTKAAKLERVMDRDGVEINDCSNKSILLRRTKLFQFTSNVIDKVVLSEVASEIVIENLEDALEKVKLVMESCRSEGVLEKNSGMQQPHFNEPLQIRAKGC**********************RCNGCGLVGQSHDKRNCPLLIKRCHYNSTGALTKATKLRTNSNPNCVLISITSLKDVELWKHLL

**********************LNRKPHKGKKFDTLDDAYEFYKKYAKEGGFSIQINSSKICKESNDIIRKEYVCFKE*******************GGCSANLVVVKYEFGKYMVRIFVEEHNHTLSSPRMVHLLRSHRSMSAVQKSLSQQLAAVNIPTYILYEHFQSEKEKNSSFFYNIKAGCDDRITHCFWADAICRRAYKFYGDVIVFDTTYNTNRYNMIFAPFVGVNNHGQTIIFGCGFLSDETTESFLWLFEQFKEAMPGDDPKMIITDQDPAMILHLAYWHILNKFLERLSKTVHTENYRHFQKCIWESNTIEKFDALWKDVIDKAKLIENEWLQGVYEIRSKWVHAYVNHVFSAGMSSSNRAESNHAIFRRALSQQRHEELIADNKDLNERPMLRLPLQIEKKMSEIYTCEIFYIFQDELWNSLLHAIELVKENEDCLVYNVVNQEDGVSKVFEVLYDKKLDFVSCICKKFKSEGIPCTHMLALFKKLQISFMPNIYILKRWTKAAKL**********I***SNKSILLRRTKLFQFTSNVIDKVVLSEVASEIVIENLEDALEKVKLVMES*******************************************************C*****SHDKRNCPLLIKRCHYNSTGALTKATKLRTNSNPNCVLISITSLKDVELWKHLL

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx

MNAQNAAGQSNYEDSLYVPEVALNRKPHKGKKFDTLDDAYEFYKKYAKEGGFSIQINSSKICKESNDIIRKEYVCFKEGQARQSKVVNRKRRRGIIRGGCSANLVVVKYEFGKYMVRIFVEEHNHTLSSPRMVHLLRSHRSMSAVQKSLSQQLAAVNIPTYILYEHFQSEKEKNSSFFYNIKAGCDDRITHCFWADAICRRAYKFYGDVIVFDTTYNTNRYNMIFAPFVGVNNHGQTIIFGCGFLSDETTESFLWLFEQFKEAMPGDDPKMIITDQDPAMILHLAYWHILNKFLERLSKTVHTENYRHFQKCIWESNTIEKFDALWKDVIDKAKLIENEWLQGVYEIRSKWVHAYVNHVFSAGMSSSNRAESNHAIFRxxxxxxxxxxxxxxxxxxxxxPMLRLPLQIEKKMSEIYTCEIFYIFQDELWNSLLHAIELVKENEDCLVYNVVNQEDGVSKVFEVLYDKKLDFVSCICKKFKSEGIPCTHMLALFKKLQISFMPNIYILKRWTKAAKLERVMDRDGVEINDCSNKSILLRRTKLFQFTSNVIDKVVLSEVASEIVxxxxxxxxxxxxxxxxxxxxxGVLEKNSGMQQPHFNEPLQIRAKGCGKRLKGGKEKAKEKAKGKDKGRRCNGCGLVGQSHDKRNCPLLIKRCHYNSTGALTKATKLRTNSNPNCVLISITSLKDVELWKHLL

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
Query		695	2.2.26 [Sep-21-2011]
Q9SZL8		788	Protein FAR1-RELATED SEQU	yes	no	0.798	0.704	0.317	6e-85
Q9LIE5		839	Protein FAR-RED ELONGATED	no	no	0.792	0.656	0.298	2e-71
Q9ZVC9		851	Protein FAR1-RELATED SEQU	no	no	0.792	0.647	0.280	1e-68
Q9SWG3		827	Protein FAR-RED IMPAIRED	no	no	0.851	0.715	0.293	2e-68
Q6NQJ7		732	Protein FAR1-RELATED SEQU	no	no	0.716	0.680	0.291	6e-62
Q9M8J3		764	Protein FAR1-RELATED SEQU	no	no	0.751	0.683	0.275	2e-60
Q3E7I5		788	Protein FAR1-RELATED SEQU	no	no	0.752	0.663	0.279	4e-59
Q3EBQ3		807	Protein FAR1-RELATED SEQU	no	no	0.702	0.604	0.294	2e-58
Q9SSQ4		703	Protein FAR1-RELATED SEQU	no	no	0.815	0.806	0.256	4e-51
Q9SZL7		545	Protein FAR1-RELATED SEQU	no	no	0.579	0.739	0.272	2e-50

>sp\|Q9SZL8\|FRS5_ARATH Protein FAR1-RELATED SEQUENCE 5 OS=Arabidopsis thaliana GN=FRS5 PE=2 SV=1	Back alignment and function desciption

 Score =  315 bits (808), Expect = 6e-85,   Method: Compositional matrix adjust.
 Identities = 200/630 (31%), Positives = 312/630 (49%), Gaps = 75/630 (11%)

Query: 23  LNRKPHKGKKFDTLDDAYEFYKKYAKEGGFSIQINSSKICKESNDIIRKEYVCFKEG--- 79
           L+ +P+ G +F++ + A  FY  YA+  GFS +++SS+  +    II++++VC KEG   
Sbjct: 69  LDLEPYDGLEFESEEAAKAFYNSYARRIGFSTRVSSSRRSRRDGAIIQRQFVCAKEGFRN 128

Query: 80  -QARQSKVVNRKRRRGIIRGGCSANLVVVKYEFGKYMVRIFVEEHNHTLSSPRMVHLLRS 138
              +++K    KR R I R GC A+L V   + GK++V  FV++HNH L  P  VH LRS
Sbjct: 129 MNEKRTKDREIKRPRTITRVGCKASLSVKMQDSGKWLVSGFVKDHNHELVPPDQVHCLRS 188

Query: 139 HRSMSAVQKSLSQQLAAVNI-PTYI----------------------------------- 162
           HR +S   K+L   L A  + P  I                                   
Sbjct: 189 HRQISGPAKTLIDTLQAAGMGPRRIMSALIKEYGGISKVGFTEVDCRNYMRNNRQKSIEG 248

Query: 163 ----LYEHFQSEKEKNSSFFYNIKAGCDDRITHCFWADAICRRAYKFYGDVIVFDTTYNT 218
               L ++ +     N +FFY+++   D  + + FWAD      +  +GD + FDTTY +
Sbjct: 249 EIQLLLDYLRQMNADNPNFFYSVQGSEDQSVGNVFWADPKAIMDFTHFGDTVTFDTTYRS 308

Query: 219 NRYNMIFAPFVGVNNHGQTIIFGCGFLSDETTESFLWLFEQFKEAMPGDDPKMIITDQDP 278
           NRY + FAPF GVN+HGQ I+FGC F+ +ET  SF+WLF  +  AM    P  I TD D 
Sbjct: 309 NRYRLPFAPFTGVNHHGQPILFGCAFIINETEASFVWLFNTWLAAMSAHPPVSITTDHDA 368

Query: 279 ---AMILHL--------AYWHILNKFLERLSKTV--HTENYRHFQKCIWESNTIEKFDAL 325
              A I+H+          WHIL K  E+LS     H      F KC+  + ++E F+  
Sbjct: 369 VIRAAIMHVFPGARHRFCKWHILKKCQEKLSHVFLKHPSFESDFHKCVNLTESVEDFERC 428

Query: 326 WKDVIDKAKLIENEWLQGVYEIRSKWVHAYVNHVFSAGMSSSNRAESNHAIF-------- 377
           W  ++DK +L ++EWLQ +Y  R +WV  Y+   F A MS ++R++S ++ F        
Sbjct: 429 WFSLLDKYELRDHEWLQAIYSDRRQWVPVYLRDTFFADMSLTHRSDSINSYFDGYINAST 488

Query: 378 ---------RRALSQQRHEELIADNKDLNERPMLRLPLQIEKKMSEIYTCEIFYIFQDEL 428
                     +AL  +  +E+ AD   +N  P+L+ P  +EK+ SE+YT ++F  FQ+EL
Sbjct: 489 NLSQFFKLYEKALESRLEKEVKADYDTMNSPPVLKTPSPMEKQASELYTRKLFMRFQEEL 548

Query: 429 WNSLLHAIELVKENEDCLVYNVVNQEDGVSKVFEVLYDKKLDFVSCICKKFKSEGIPCTH 488
             +L        ++ D + Y V    +     F V ++      +C C+ F+  GI C H
Sbjct: 549 VGTLTFMASKADDDGDLVTYQVAKYGEAHKAHF-VKFNVLEMRANCSCQMFEFSGIICRH 607

Query: 489 MLALFKKLQISFMPNIYILKRWTKAAKLERVMDRDGVEINDCSNKSILLRRTKLFQFTSN 548
           +LA+F+   +  +P  YILKRWT+ AK   + D   +       +S  +R   L    SN
Sbjct: 608 ILAVFRVTNLLTLPPYYILKRWTRNAKSSVIFDDYNLHAYANYLESHTVRYNTLRHKASN 667

Query: 549 VIDKVVLSEVASEIVIENLEDALEKVKLVM 578
            + +   S    ++ +  L++A + V L M
Sbjct: 668 FVQEAGKSLYTCDVAVVALQEAAKTVSLAM 697

Putative transcription activator involved in regulating light control of development.
Arabidopsis thaliana (taxid: 3702)

>sp\|Q9LIE5\|FHY3_ARATH Protein FAR-RED ELONGATED HYPOCOTYL 3 OS=Arabidopsis thaliana GN=FHY3 PE=1 SV=1	Back alignment and function description

>sp\|Q9ZVC9\|FRS3_ARATH Protein FAR1-RELATED SEQUENCE 3 OS=Arabidopsis thaliana GN=FRS3 PE=2 SV=2	Back alignment and function description

>sp\|Q9SWG3\|FAR1_ARATH Protein FAR-RED IMPAIRED RESPONSE 1 OS=Arabidopsis thaliana GN=FAR1 PE=1 SV=1	Back alignment and function description

>sp\|Q6NQJ7\|FRS4_ARATH Protein FAR1-RELATED SEQUENCE 4 OS=Arabidopsis thaliana GN=FRS4 PE=2 SV=2	Back alignment and function description

>sp\|Q9M8J3\|FRS7_ARATH Protein FAR1-RELATED SEQUENCE 7 OS=Arabidopsis thaliana GN=FRS7 PE=2 SV=1	Back alignment and function description

>sp\|Q3E7I5\|FRS12_ARATH Protein FAR1-RELATED SEQUENCE 12 OS=Arabidopsis thaliana GN=FRS12 PE=2 SV=1	Back alignment and function description

>sp\|Q3EBQ3\|FRS2_ARATH Protein FAR1-RELATED SEQUENCE 2 OS=Arabidopsis thaliana GN=FRS2 PE=2 SV=1	Back alignment and function description

>sp\|Q9SSQ4\|FRS6_ARATH Protein FAR1-RELATED SEQUENCE 6 OS=Arabidopsis thaliana GN=FRS6 PE=2 SV=1	Back alignment and function description

>sp\|Q9SZL7\|FRS9_ARATH Protein FAR1-RELATED SEQUENCE 9 OS=Arabidopsis thaliana GN=FRS9 PE=2 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
Query		695
124359207		800	FAR1; Zinc finger, SWIM-type [Medicago t	0.897	0.78	0.349	1e-106
296082988		855	unnamed protein product [Vitis vinifera]	0.782	0.636	0.333	9e-87
357443771		1950	Cysteine-rich receptor-like protein kina	0.766	0.273	0.335	1e-86
356553419		777	PREDICTED: protein FAR1-RELATED SEQUENCE	0.827	0.740	0.319	1e-86
359489017		827	PREDICTED: protein FAR1-RELATED SEQUENCE	0.782	0.657	0.333	1e-86
7673677		709	transposase [Zea mays]	0.870	0.853	0.315	2e-86
147819294		808	hypothetical protein VITISV_019276 [Viti	0.782	0.673	0.333	2e-86
46063440		1510	putative Mutator-like transposase [Oryza	0.896	0.412	0.305	2e-84
356498174		776	PREDICTED: protein FAR1-RELATED SEQUENCE	0.827	0.740	0.319	2e-84
54287612		896	hypothetical protein [Oryza sativa Japon	0.889	0.689	0.306	4e-84

>gi\|124359207\|gb\|ABN05718.1\| FAR1; Zinc finger, SWIM-type [Medicago truncatula]	Back alignment and taxonomy information

 Score =  392 bits (1006), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 253/724 (34%), Positives = 371/724 (51%), Gaps = 100/724 (13%)

Query: 17  YVPEVALNRKPHKGKKFDTLDDAYEFYKKYAKEGGFSIQINSSKICKESNDIIRKEYVCF 76
           ++P      KP  GK FDTL +  +FYK YA   GFS++ NS K  K+ + +  K ++C 
Sbjct: 82  WIPACEDELKPVIGKVFDTLVEGGDFYKAYAYVAGFSVR-NSIKT-KDKDGVKWKYFLCS 139

Query: 77  KEGQARQSKV-----------VNRKRRRGIIRGGCSANLVVVKYEFGKYMVRIFVEEHNH 125
           KEG   + KV           +++ R+R + R GC A LV+ +   GKY V  F E H+H
Sbjct: 140 KEGFKEEKKVDKPQLLIAENSLSKSRKRKLTREGCKARLVLKRTIDGKYEVSNFYEGHSH 199

Query: 126 TLSSPRMVHLLRSHRSMSAVQKSL-------------SQQLAAVNIPTY----------- 161
            L SP     LRS R++++V K++             S Q+    + +Y           
Sbjct: 200 GLVSPSKRQFLRSARNVTSVHKNILFSCNRANVGTSKSYQIMKEQVGSYENIGCTQRDLQ 259

Query: 162 ----------------ILYEHFQSEKEKNSSFFYNIKAGCDDRITHCFWADAICRRAYKF 205
                           +  ++F+ ++E N SFFY+ +A  + ++ H FWAD ICR+ Y  
Sbjct: 260 NYSRNLKELIKDSDADMFIDNFRRKREINPSFFYDYEADNEGKLKHVFWADGICRKNYSL 319

Query: 206 YGDVIVFDTTYNTNRYNMIFAPFVGVNNHGQTIIFGCGFLSDETTESFLWLFEQFKEAMP 265
           +GDV+ FDTTY TN+Y MIFAPF G+N+H Q+I FG   L +E  ESF+WLFE F +AM 
Sbjct: 320 FGDVVSFDTTYRTNKYFMIFAPFTGINHHRQSITFGAALLKNEKEESFVWLFETFLKAMG 379

Query: 266 GDDPKMIITDQDPAM------IL-----HLAYWHILNKFLERLSKTVHTEN--YRHFQKC 312
           G  P MIITDQD  M      +L         WHIL K  E++  ++   +     F+ C
Sbjct: 380 GHKPVMIITDQDGGMKNAIGAVLKGSSHRFCMWHILKKLSEKVGSSMDENSGFNDRFKSC 439

Query: 313 IWESNTIEKFDALWKDVIDKAKLIENEWLQGVYEIRSKWVHAYVNHVFSAG-MSSSNRAE 371
           +W S + E+FD  W ++I    L  N WL  +Y++RS W+ AY    F AG + +++R+E
Sbjct: 440 VWNSESSEEFDLEWNNIISDYSLEGNGWLSTMYDLRSMWIPAYFKDTFMAGILRTTSRSE 499

Query: 372 S---------NHAI--------FRRALSQQRHEELIADNKDLNERPMLRLPLQIEKKMSE 414
           S         NH +        F  AL+ QRH+EL ADN  L+  P L + + +EK   E
Sbjct: 500 SENSFFGNYLNHNLTLVEFWVRFDSALAAQRHKELFADNNTLHSNPELNMHMNLEKHARE 559

Query: 415 IYTCEIFYIFQDELWNSLLH-AIELVKENEDCLVYNVVNQEDGVSKVFEVLYDKKLDFVS 473
           +YT E FYIFQ ELW++ +   IE  KE  + L ++++  ++ V K  EV+Y    +   
Sbjct: 560 VYTHENFYIFQKELWSACVDCGIEGTKEEGENLSFSIL--DNAVRKHREVVYCLSNNIAH 617

Query: 474 CICKKFKSEGIPCTHMLALFKKLQISFMPNIYILKRWTKAAKLERVMDRDGVEINDCS-- 531
           C CK F+SEGIPC H+L + K    S +P+ YI+ RWTK A  + + D DG  +  CS  
Sbjct: 618 CSCKMFESEGIPCRHILFILKGKGFSEIPSHYIVNRWTKLATSKPIFDCDGNVLEACSKF 677

Query: 532 -NKSILLRRT-----KLFQFTSNVIDKVVLSEVASEIVIENLEDALEKVKLVMESCRSEG 585
            ++S L+ +T     K         +K++L  +  E     L+ +  K  +V        
Sbjct: 678 ESESTLVSKTWSQLLKCMHMAGTNKEKLLL--IYDEGCSIELKMSKMKTDVVSRPLDELE 735

Query: 586 VLEKNSGMQQPHFNEPLQIRAKGCGKRLKGGKEKAKEKAKGKDKGRRCNGCGLVGQSHDK 645
               ++  +      P     KGCGKR+KGGKEKA E+   + + R C  C     SHD 
Sbjct: 736 AFIGSNVAKTIEVLPPEPSNTKGCGKRIKGGKEKAMEQQ--QKRTRLCKACKQYA-SHDS 792

Query: 646 RNCP 649
           RNCP
Sbjct: 793 RNCP 796

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|296082988\|emb\|CBI22289.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|357443771\|ref\|XP_003592163.1\| Cysteine-rich receptor-like protein kinase [Medicago truncatula] gi\|355481211\|gb\|AES62414.1\| Cysteine-rich receptor-like protein kinase [Medicago truncatula]	Back alignment and taxonomy information

>gi\|356553419\|ref\|XP_003545054.1\| PREDICTED: protein FAR1-RELATED SEQUENCE 5-like [Glycine max]	Back alignment and taxonomy information

>gi\|359489017\|ref\|XP_002279046.2\| PREDICTED: protein FAR1-RELATED SEQUENCE 5-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|7673677\|gb\|AAF66982.1\| transposase [Zea mays]	Back alignment and taxonomy information

>gi\|147819294\|emb\|CAN68961.1\| hypothetical protein VITISV_019276 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|46063440\|gb\|AAS79743.1\| putative Mutator-like transposase [Oryza sativa Japonica Group]	Back alignment and taxonomy information

>gi\|356498174\|ref\|XP_003517928.1\| PREDICTED: protein FAR1-RELATED SEQUENCE 5-like [Glycine max]	Back alignment and taxonomy information

>gi\|54287612\|gb\|AAV31356.1\| hypothetical protein [Oryza sativa Japonica Group]	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
Query		695
TAIR\|locus:2121060		788	FRS5 "FAR1-related sequence 5"	0.310	0.274	0.375	1.1e-56
TAIR\|locus:2062606		807	FRS2 "FAR1-related sequence 2"	0.522	0.449	0.302	1.7e-46
TAIR\|locus:2035144		703	FRS6 "FAR1-related sequence 6"	0.335	0.331	0.304	5.1e-46
TAIR\|locus:2090394		839	FHY3 "far-red elongated hypoco	0.351	0.290	0.346	1.6e-44
TAIR\|locus:2016259		725	FRS8 "FAR1-related sequence 8"	0.289	0.277	0.291	1.5e-43
TAIR\|locus:2014639		732	FRS4 "FAR1-related sequence 4"	0.313	0.297	0.324	1.3e-42
TAIR\|locus:2082420		764	FRS7 "FAR1-related sequence 7"	0.469	0.426	0.293	1.4e-38
TAIR\|locus:2129665		827	FAR1 "FAR-RED IMPAIRED RESPONS	0.381	0.320	0.352	2.1e-36
TAIR\|locus:2059304		851	FRS3 "FAR1-related sequence 3"	0.519	0.424	0.287	1.9e-35
TAIR\|locus:2144930		788	FRS12 "FAR1-related sequence 1	0.477	0.421	0.279	4.1e-35

TAIR\|locus:2121060 FRS5 "FAR1-related sequence 5" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 434 (157.8 bits), Expect = 1.1e-56, Sum P(2) = 1.1e-56
 Identities = 86/229 (37%), Positives = 129/229 (56%)

Query:   162 ILYEHFQSEKEKNSSFFYNIKAGCDDRITHCFWADAICRRAYKFYGDVIVFDTTYNTNRY 221
             +L ++ +     N +FFY+++   D  + + FWAD      +  +GD + FDTTY +NRY
Sbjct:   252 LLLDYLRQMNADNPNFFYSVQGSEDQSVGNVFWADPKAIMDFTHFGDTVTFDTTYRSNRY 311

Query:   222 NMIFAPFVGVNNHGQTIIFGCGFLSDETTESFLWLFEQFKEAMPGDDPKMIITDQDP--- 278
              + FAPF GVN+HGQ I+FGC F+ +ET  SF+WLF  +  AM    P  I TD D    
Sbjct:   312 RLPFAPFTGVNHHGQPILFGCAFIINETEASFVWLFNTWLAAMSAHPPVSITTDHDAVIR 371

Query:   279 AMILHL--------AYWHILNKFLERLSKTV--HTENYRHFQKCIWESNTIEKFDALWKD 328
             A I+H+          WHIL K  E+LS     H      F KC+  + ++E F+  W  
Sbjct:   372 AAIMHVFPGARHRFCKWHILKKCQEKLSHVFLKHPSFESDFHKCVNLTESVEDFERCWFS 431

Query:   329 VIDKAKLIENEWLQGVYEIRSKWVHAYVNHVFSAGMSSSNRAESNHAIF 377
             ++DK +L ++EWLQ +Y  R +WV  Y+   F A MS ++R++S ++ F
Sbjct:   432 LLDKYELRDHEWLQAIYSDRRQWVPVYLRDTFFADMSLTHRSDSINSYF 480

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009639 "response to red or far red light" evidence=ISS

TAIR\|locus:2062606 FRS2 "FAR1-related sequence 2" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2035144 FRS6 "FAR1-related sequence 6" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2090394 FHY3 "far-red elongated hypocotyls 3" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2016259 FRS8 "FAR1-related sequence 8" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2014639 FRS4 "FAR1-related sequence 4" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2082420 FRS7 "FAR1-related sequence 7" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2129665 FAR1 "FAR-RED IMPAIRED RESPONSE 1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2059304 FRS3 "FAR1-related sequence 3" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2144930 FRS12 "FAR1-related sequence 12" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		695
PLN03097		846	PLN03097, FHY3, Protein FAR-RED ELONGATED HYPOCOTY	3e-94
pfam03101		90	pfam03101, FAR1, FAR1 DNA-binding domain	4e-19
pfam10551		88	pfam10551, MULE, MULE transposase domain	6e-19
smart00575		28	smart00575, ZnF_PMZ, plant mutator transposase zin	7e-04
pfam04434		38	pfam04434, SWIM, SWIM zinc finger	0.003

>gnl\|CDD\|178645 PLN03097, FHY3, Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional	Back alignment and domain information

 Score =  310 bits (795), Expect = 3e-94
 Identities = 194/612 (31%), Positives = 313/612 (51%), Gaps = 71/612 (11%)

Query: 23  LNRKPHKGKKFDTLDDAYEFYKKYAKEGGFSIQINSSKICKESNDIIRKEYVCFKEGQAR 82
            N +P  G +F++  +AY FY++YA+  GF+  I +S+  K S + I  ++ C + G  R
Sbjct: 70  TNLEPLSGMEFESHGEAYSFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKR 129

Query: 83  Q-SKVVNRKR-------------RRGIIRGGCSANLVVVKYEFGKYMVRIFVEEHNHTLS 128
           +  K  NR R             RR   +  C A++ V +   GK+++  FV+EHNH L 
Sbjct: 130 EYDKSFNRPRARQTKQDPENGTGRRSCAKTDCKASMHVKRRPDGKWVIHSFVKEHNHELL 189

Query: 129 SPRMVHLLRSHRSMSAVQKSLSQQLAAVNIP-------------------TYILYEHFQS 169
             + V   ++ +  +A+ +  ++    V +                    T IL + F  
Sbjct: 190 PAQAVSE-QTRKMYAAMARQFAEYKNVVGLKNDSKSSFDKGRNLGLEAGDTKILLDFFTQ 248

Query: 170 EKEKNSSFFYNIKAGCDDRITHCFWADAICRRAYKFYGDVIVFDTTYNTNRYNMIFAPFV 229
            +  NS+FFY +  G D R+ + FW DA  R  Y  + DV+ FDTTY  N+Y M  A FV
Sbjct: 249 MQNMNSNFFYAVDLGEDQRLKNLFWVDAKSRHDYGNFSDVVSFDTTYVRNKYKMPLALFV 308

Query: 230 GVNNHGQTIIFGCGFLSDETTESFLWLFEQFKEAMPGDDPKMIITDQDPAMILHLA---- 285
           GVN H Q ++ GC  +SDE+  ++ WL + +  AM G  PK+IITDQD AM   ++    
Sbjct: 309 GVNQHYQFMLLGCALISDESAATYSWLMQTWLRAMGGQAPKVIITDQDKAMKSVISEVFP 368

Query: 286 -------YWHILNKFLERLSKTV-HTENYR-HFQKCIWESNTIEKFDALWKDVIDKAKLI 336
                   WHIL K  E L + +   EN+   F+KCI+ S T E+F   W  ++D+ +L 
Sbjct: 369 NAHHCFFLWHILGKVSENLGQVIKQHENFMAKFEKCIYRSWTEEEFGKRWWKILDRFELK 428

Query: 337 ENEWLQGVYEIRSKWVHAYVNHVFSAGMSSSNRAESNHAIFRR----------------A 380
           E+EW+Q +YE R +WV  Y+   F AGMS+  R+ES +A F +                 
Sbjct: 429 EDEWMQSLYEDRKQWVPTYMRDAFLAGMSTVQRSESINAFFDKYVHKKTTVQEFVKQYET 488

Query: 381 LSQQRHE-ELIADNKDLNERPMLRLPLQIEKKMSEIYTCEIFYIFQDELWNSLLHAIELV 439
           + Q R+E E  AD+   N++P L+ P  +EK +S +YT  +F  FQ E+  ++    ++ 
Sbjct: 489 ILQDRYEEEAKADSDTWNKQPALKSPSPLEKSVSGVYTHAVFKKFQVEVLGAVACHPKME 548

Query: 440 KENEDCLVYNVVNQEDGVSKVFEVLYDKKLDFVSCICKKFKSEGIPCTHMLALFKKLQIS 499
            ++E  + + V + E   ++ F V +++    VSCIC+ F+ +G  C H L + +  Q+S
Sbjct: 549 SQDETSITFRVQDFEK--NQDFTVTWNQTKLEVSCICRLFEYKGYLCRHALVVLQMCQLS 606

Query: 500 FMPNIYILKRWTKAAKLERVMDRDGVEINDCSNKSILLRRTKLFQFTSNVIDKVVLSEVA 559
            +P+ YILKRWTK AK   ++  +  ++     +S + R   L Q    + ++  LS+ +
Sbjct: 607 AIPSQYILKRWTKDAKSRHLLGEESEQV-----QSRVQRYNDLCQRALKLSEEASLSQES 661

Query: 560 SEIVIENLEDAL 571
             I    LE+A 
Sbjct: 662 YNIAFRALEEAF 673

Length = 846

>gnl\|CDD\|217369 pfam03101, FAR1, FAR1 DNA-binding domain	Back alignment and domain information

>gnl\|CDD\|220806 pfam10551, MULE, MULE transposase domain	Back alignment and domain information

>gnl\|CDD\|128845 smart00575, ZnF_PMZ, plant mutator transposase zinc finger	Back alignment and domain information

>gnl\|CDD\|218087 pfam04434, SWIM, SWIM zinc finger	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		695
PLN03097		846	FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provis	100.0
PF03101		91	FAR1: FAR1 DNA-binding domain; InterPro: IPR004330	99.79
PF10551		93	MULE: MULE transposase domain; InterPro: IPR018289	99.7
PF08731		111	AFT: Transcription factor AFT; InterPro: IPR014842	99.25
smart00575		28	ZnF_PMZ plant mutator transposase zinc finger.	98.93
PF00872		381	Transposase_mut: Transposase, Mutator family; Inte	98.87
PF03108		67	DBD_Tnp_Mut: MuDR family transposase; InterPro: IP	98.73
PF04434		40	SWIM: SWIM zinc finger; InterPro: IPR007527 Zinc f	98.26
COG3328		379	Transposase and inactivated derivatives [DNA repli	97.59
PF03106		60	WRKY: WRKY DNA -binding domain; InterPro: IPR00365	93.36
PF15288		40	zf-CCHC_6: Zinc knuckle	93.32
PF00098		18	zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi	93.28
PF00665		120	rve: Integrase core domain; InterPro: IPR001584 In	89.58
PF04684		496	BAF1_ABF1: BAF1 / ABF1 chromatin reorganising fact	86.43
COG5179		968	TAF1 Transcription initiation factor TFIID, subuni	85.03
smart00774		59	WRKY DNA binding domain. The WRKY domain is a DNA	84.15
PF13696		32	zf-CCHC_2: Zinc knuckle	83.36

>PLN03097 FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional	Back alignment and domain information

Probab=100.00  E-value=6.6e-121  Score=1039.40  Aligned_cols=617  Identities=30%  Similarity=0.517  Sum_probs=525.1

Q ss_pred             cccCCCCCCCCCccCCHHHHHHHHHHHhhhcCcEEEEecccccccCCceeEEEEEEccCCccccccc-cc----------
Q 046293           20 EVALNRKPHKGKKFDTLDDAYEFYKKYAKEGGFSIQINSSKICKESNDIIRKEYVCFKEGQARQSKV-VN----------   88 (695)
Q Consensus        20 ~~~~~~~p~~g~~F~S~eea~~~y~~yA~~~GF~i~~~~s~~~k~~g~~~~~~~~C~r~G~~~~~~~-~~----------   88 (695)
                      +.+...+|.+||+|+|+|||++||+.||+..||+||+.++++++.+|.++.++|+|+|+|+++.+.. .+          
T Consensus        67 ~~~~~~~P~vGMeF~S~eeA~~FYn~YA~~~GFsVRi~~srrsk~~~~ii~r~fvCsreG~~~~~~~~~~~~~~~~~k~~  146 (846)
T PLN03097         67 KEDTNLEPLSGMEFESHGEAYSFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSFNRPRARQTKQD  146 (846)
T ss_pred             cCCCCccCcCCCeECCHHHHHHHHHHHHhhcCceEEeeceeccCCCCcEEEEEEEEcCCCCCcccccccccccccccccC
Confidence            4466789999999999999999999999999999999999988888999999999999998764321 00          


Q ss_pred             --cccccc-ccccCceeEEEEEEeeCceEEEEEEeecccCCCCCccccccccccCCCcHHHh-----------------h
Q 046293           89 --RKRRRG-IIRGGCSANLVVVKYEFGKYMVRIFVEEHNHTLSSPRMVHLLRSHRSMSAVQK-----------------S  148 (695)
Q Consensus        89 --~~r~~~-~~r~gC~a~i~~~~~~~~~w~v~~~~~~HNH~l~~~~~~~~l~s~r~~~~~~~-----------------~  148 (695)
                        ..+++| .+|+||||+|++++.++|+|+|+.|+.+|||+|.++..+.. +..+.+....+                 .
T Consensus       147 ~~~~~~rR~~tRtGC~A~m~Vk~~~~gkW~V~~fv~eHNH~L~p~~~~~~-~~r~~~~~~~~~~~~~~~v~~~~~d~~~~  225 (846)
T PLN03097        147 PENGTGRRSCAKTDCKASMHVKRRPDGKWVIHSFVKEHNHELLPAQAVSE-QTRKMYAAMARQFAEYKNVVGLKNDSKSS  225 (846)
T ss_pred             cccccccccccCCCCceEEEEEEcCCCeEEEEEEecCCCCCCCCccccch-hhhhhHHHHHhhhhccccccccchhhcch
Confidence              011234 68999999999999779999999999999999987653221 11111111100                 1


Q ss_pred             HH--HHhhccCCCHHHHHHHHHHhhhcCCCcEEEEEeccCCceeEEEEccccchHHHhhCCcEEEEecccccCCCCCcee
Q 046293          149 LS--QQLAAVNIPTYILYEHFQSEKEKNSSFFYNIKAGCDDRITHCFWADAICRRAYKFYGDVIVFDTTYNTNRYNMIFA  226 (695)
Q Consensus       149 L~--rr~~~~~~d~~~l~~~l~~~~~~np~f~~~~~~d~~~~l~~ifw~~~~~~~~~~~f~dVl~iD~Ty~tn~y~~pL~  226 (695)
                      +.  |++.+..+|+++|++||++++.+||+|||++++|++|+|++|||+|+.|+.+|.+|||||+||+||+||+|+|||+
T Consensus       226 ~~~~r~~~~~~gD~~~ll~yf~~~q~~nP~Ffy~~qlDe~~~l~niFWaD~~sr~~Y~~FGDvV~fDTTY~tN~y~~Pfa  305 (846)
T PLN03097        226 FDKGRNLGLEAGDTKILLDFFTQMQNMNSNFFYAVDLGEDQRLKNLFWVDAKSRHDYGNFSDVVSFDTTYVRNKYKMPLA  305 (846)
T ss_pred             hhHHHhhhcccchHHHHHHHHHHHHhhCCCceEEEEEccCCCeeeEEeccHHHHHHHHhcCCEEEEeceeeccccCcEEE
Confidence            11  3356788999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eEeEEecCCceEEEEEEeccCCChhhHHHHHHHHHHHCCCCCCceeecCChHHHHh-----------hhhHHHHHHHHHH
Q 046293          227 PFVGVNNHGQTIIFGCGFLSDETTESFLWLFEQFKEAMPGDDPKMIITDQDPAMIL-----------HLAYWHILNKFLE  295 (695)
Q Consensus       227 ~~~g~d~~~~~~~~~~al~~~E~~es~~W~l~~f~~~~~~~~p~~iitD~~~al~~-----------~lC~~Hi~~n~~~  295 (695)
                      +|+|+|||+|+++|||||+.+|+.|+|.|||++|+++|+|+.|.+||||+|.+|.+           |+|.|||++|+.+
T Consensus       306 ~FvGvNhH~qtvlfGcaLl~dEt~eSf~WLf~tfl~aM~gk~P~tIiTDqd~am~~AI~~VfP~t~Hr~C~wHI~~~~~e  385 (846)
T PLN03097        306 LFVGVNQHYQFMLLGCALISDESAATYSWLMQTWLRAMGGQAPKVIITDQDKAMKSVISEVFPNAHHCFFLWHILGKVSE  385 (846)
T ss_pred             EEEEecCCCCeEEEEEEEcccCchhhHHHHHHHHHHHhCCCCCceEEecCCHHHHHHHHHHCCCceehhhHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999987           9999999999999


Q ss_pred             hhhhhccccc--HHHHHHHHhhcCChHHHHHHHHHHHHHhccchhHHHHHHHHhhccchhhhhccccccCccccCcccch
Q 046293          296 RLSKTVHTEN--YRHFQKCIWESNTIEKFDALWKDVIDKAKLIENEWLQGVYEIRSKWVHAYVNHVFSAGMSSSNRAESN  373 (695)
Q Consensus       296 ~~~~~~~~~~--~~~~~~~v~~~~t~~eFe~~w~~l~~~~~~~~~~~l~~l~~~re~Wa~ay~~~~~~~g~~tt~r~Es~  373 (695)
                      +++..+...+  ..+|.+||+.+++++|||..|..|+++|++++|+||+.||+.|++||+||+++.|++||.||+|+||+
T Consensus       386 ~L~~~~~~~~~f~~~f~~cv~~s~t~eEFE~~W~~mi~ky~L~~n~WL~~LY~~RekWapaY~k~~F~agm~sTqRSES~  465 (846)
T PLN03097        386 NLGQVIKQHENFMAKFEKCIYRSWTEEEFGKRWWKILDRFELKEDEWMQSLYEDRKQWVPTYMRDAFLAGMSTVQRSESI  465 (846)
T ss_pred             HhhHHhhhhhHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhcccccHHHHHHHHhHhhhhHHHhcccccCCcccccccccH
Confidence            9999876554  88999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHH-----------------HHHHHHHHHHHHHHhhhhhhcCCcccccchHHHHHHHhhcChHHHHHHHHHHHHhhcccE
Q 046293          374 HAI-----------------FRRALSQQRHEELIADNKDLNERPMLRLPLQIEKKMSEIYTCEIFYIFQDELWNSLLHAI  436 (695)
Q Consensus       374 n~~-----------------~~~~l~~~~~~e~~~d~~~~~~~~~~~~~~~~e~q~~~~yT~~vf~~~q~el~~s~~~~v  436 (695)
                      |++                 |+++++.++++|+++|+.+.++.|.+++++|||+||+++|||+||++||+|+..+..|.+
T Consensus       466 Ns~fk~yv~~~tsL~~Fv~qye~~l~~~~ekE~~aD~~s~~~~P~l~t~~piEkQAs~iYT~~iF~kFQ~El~~~~~~~~  545 (846)
T PLN03097        466 NAFFDKYVHKKTTVQEFVKQYETILQDRYEEEAKADSDTWNKQPALKSPSPLEKSVSGVYTHAVFKKFQVEVLGAVACHP  545 (846)
T ss_pred             HHHHHHHhCcCCCHHHHHHHHHHHHHHHHHHHHHhhhhcccCCcccccccHHHHHHHHHhHHHHHHHHHHHHHHhhheEE
Confidence            998                 678889999999999999999999999999999999999999999999999999999988


Q ss_pred             EEEeecCceeEEEEEeecCCccceEEEEEecCcceEEeeecccccCCCchhhHHHHHHHcCcccCCccchhhhhhhcccc
Q 046293          437 ELVKENEDCLVYNVVNQEDGVSKVFEVLYDKKLDFVSCICKKFKSEGIPCTHMLALFKKLQISFMPNIYILKRWTKAAKL  516 (695)
Q Consensus       437 ~~~~~~~~~~~y~V~~~~~~~~k~~~V~~d~~~~~~tCsC~~~q~~GiPC~H~l~vl~~~~~~~iP~~yI~~RWtk~ak~  516 (695)
                      ....++|...+|.|...+..++  |+|.+|.....++|+|++|++.||||+|||+||.++++.+||++||++||||+|+.
T Consensus       546 ~~~~~dg~~~~y~V~~~~~~~~--~~V~~d~~~~~v~CsC~kFE~~GILCrHaLkVL~~~~v~~IP~~YILkRWTKdAK~  623 (846)
T PLN03097        546 KMESQDETSITFRVQDFEKNQD--FTVTWNQTKLEVSCICRLFEYKGYLCRHALVVLQMCQLSAIPSQYILKRWTKDAKS  623 (846)
T ss_pred             eeeccCCceEEEEEEEecCCCc--EEEEEecCCCeEEeeccCeecCccchhhHHHHHhhcCcccCchhhhhhhchhhhhh
Confidence            8887888889999987655455  99999999999999999999999999999999999999999999999999999998


Q ss_pred             ccccCCCCcccCCCCCchHHHHHHHHHc---------ccCHHHHHHHHHHHHHHH-HHhhhhhHHHHh-hhhhhcccccC
Q 046293          517 ERVMDRDGVEINDCSNKSILLRRTKLFQ---------FTSNVIDKVVLSEVASEI-VIENLEDALEKV-KLVMESCRSEG  585 (695)
Q Consensus       517 ~~~~d~~~~~~~~~~~~~~~~r~~~L~~---------~~s~e~y~~a~~~l~~~~-~~~~~~~~~~~~-~~~~~~~~~e~  585 (695)
                      ..+.+..     .....+.++||+.|++         +.|+|.|+.|+++|++++ ....+++....+ ..+      .-
T Consensus       624 ~~~~~~~-----~~~~~~~~~Ryn~L~r~a~kla~~as~S~E~y~~a~~~L~e~~~~~~~~~n~~~~~~~~~------~~  692 (846)
T PLN03097        624 RHLLGEE-----SEQVQSRVQRYNDLCQRALKLSEEASLSQESYNIAFRALEEAFGNCISMNNSNKSLVEAG------TS  692 (846)
T ss_pred             cccCccc-----cccccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhccCCCccccc------cc
Confidence            6665542     1224567899999998         689999999999999997 333333322111 010      00


Q ss_pred             ccccccCCCCC---ccCCCccc-ccCCCCCCCCCChhh-hhHhhcCCCCcccCCCCCCCCCCCCCCCCcchhh
Q 046293          586 VLEKNSGMQQP---HFNEPLQI-RAKGCGKRLKGGKEK-AKEKAKGKDKGRRCNGCGLVGQSHDKRNCPLLIK  653 (695)
Q Consensus       586 ~~~~~~~~~~~---~v~~P~~~-r~kGRpkr~k~~~e~-~~~~~~~~kr~~~C~~C~~~~~GHn~~tCp~~~~  653 (695)
                      ...-.++.+..   ...+|..+ ++++++++..+..|. +.+.+  ..+++-|..|++ ..+|+...||..+-
T Consensus       693 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~-~~~~d~~y~~q~~~  762 (846)
T PLN03097        693 PTHGLLCIEDDNQSRSMTKTNKKKNPTKKRKVNSEQEVTTVAAQ--DSLQQMDKLSSR-AVALESYYGTQQSV  762 (846)
T ss_pred             cccCCccccccccccccCcCCccccccccccccCchhhhhhhhh--hhhhhHHhhhcc-cCCcccccccHHhh
Confidence            00001222221   34445444 788888887777777 33444  468899999998 58999999886544

>PF03101 FAR1: FAR1 DNA-binding domain; InterPro: IPR004330 Phytochrome A is the primary photoreceptor for mediating various far-red light-induced responses in higher plants	Back alignment and domain information

>PF10551 MULE: MULE transposase domain; InterPro: IPR018289 This entry represents a domain found in Mutator-like elements (MULE)-encoded tranposases, some of which also contain a zinc-finger motif [, ]	Back alignment and domain information

>PF08731 AFT: Transcription factor AFT; InterPro: IPR014842 AFT (activator of iron transcription) is an iron regulated transcriptional activator that regulates the expression of genes involved in iron homeostasis	Back alignment and domain information

>smart00575 ZnF_PMZ plant mutator transposase zinc finger	Back alignment and domain information

>PF00872 Transposase_mut: Transposase, Mutator family; InterPro: IPR001207 Autonomous mobile genetic elements such as transposon or insertion sequences (IS) encode an enzyme, transposase, that is required for excising and inserting the mobile element	Back alignment and domain information

>PF03108 DBD_Tnp_Mut: MuDR family transposase; InterPro: IPR004332 The plant MuDR transposase domain is present in plant proteins that are presumed to be the transposases for Mutator transposable elements [, ]	Back alignment and domain information

>PF04434 SWIM: SWIM zinc finger; InterPro: IPR007527 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

>COG3328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]	Back alignment and domain information

>PF03106 WRKY: WRKY DNA -binding domain; InterPro: IPR003657 The WRKY domain is a 60 amino acid region that is defined by the conserved amino acid sequence WRKYGQK at its N-terminal end, together with a novel zinc-finger- like motif	Back alignment and domain information

>PF15288 zf-CCHC_6: Zinc knuckle	Back alignment and domain information

>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 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

>PF00665 rve: Integrase core domain; InterPro: IPR001584 Integrase comprises three domains capable of folding independently and whose three-dimensional structures are known	Back alignment and domain information

>PF04684 BAF1_ABF1: BAF1 / ABF1 chromatin reorganising factor; InterPro: IPR006774 ABF1 is a sequence-specific DNA binding protein involved in transcription activation, gene silencing and initiation of DNA replication	Back alignment and domain information

>COG5179 TAF1 Transcription initiation factor TFIID, subunit TAF1 [Transcription]	Back alignment and domain information

>smart00774 WRKY DNA binding domain	Back alignment and domain information

>PF13696 zf-CCHC_2: Zinc knuckle	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		695
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-14
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-09

>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

 Score = 76.0 bits (186), Expect = 3e-14
 Identities = 85/607 (14%), Positives = 174/607 (28%), Gaps = 186/607 (30%)

Query: 121 EEHNHTLSSP-------RMVHLLRSHRSMSAVQKSLSQQLAAVNIPTY-ILYEHFQSEKE 172
           EE +H + S        R+   L S +    VQK + + L       Y  L    ++E +
Sbjct: 49  EEIDHIIMSKDAVSGTLRLFWTLLSKQE-EMVQKFVEEVLR----INYKFLMSPIKTE-Q 102

Query: 173 KNSSFFYNIKAGCDDRITHCFWADAICRRAYKFYGDVIVFDTTYNTNR-----------Y 221
           +  S    +     DR+                Y D  VF   YN +R            
Sbjct: 103 RQPSMMTRMYIEQRDRL----------------YNDNQVF-AKYNVSRLQPYLKLRQALL 145

Query: 222 NMIFAPFVGVNNHGQTIIFGCG-------FLSDETTESFL-----WL-FEQFKEAMPGDD 268
            +  A  V +   G     G G              +  +     WL  +      P   
Sbjct: 146 ELRPAKNVLI--DGV---LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNS--PETV 198

Query: 269 PKMIIT-------------DQDPAMILHLAYWHILNKFLERLSKTVHTENYRHFQKC--- 312
            +M+               D    + L +   H +   L RL K+      + ++ C   
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRI---HSIQAELRRLLKS------KPYENCLLV 249

Query: 313 ---IWESNTIEKFD----AL----WKDVID------KAKLIENEWLQGVYE-----IRSK 350
              +  +     F+     L    +K V D         +  +     +       +  K
Sbjct: 250 LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK 309

Query: 351 WVHAYVNHVFSAGMSSSNRAESNHAIFRRALS----QQRHEELIADN-KDLNERPMLRLP 405
           ++               +          R LS      R      DN K +N   +  + 
Sbjct: 310 YL----------DCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTI- 358

Query: 406 LQIEKKMSEIYTCEI------FYIFQDE----------LWNSL-----------LHAIEL 438
             IE  ++ +   E         +F             +W  +           LH   L
Sbjct: 359 --IESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416

Query: 439 VKENEDCLVYNVVN-QEDGVSKVFE--VLYDKKLDFVSCICKKFKSEGIPCT-------- 487
           V++       ++ +   +   K+     L+   +D  + I K F S+ +           
Sbjct: 417 VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYN-IPKTFDSDDLIPPYLDQYFYS 475

Query: 488 ----HMLALFKKLQISFMPNIYILKRWTKAAKLERVMDRDGVEINDCSNKSILLRRTKLF 543
               H+  +    +++    +++  R+ +  K+      D    N   +    L++ K +
Sbjct: 476 HIGHHLKNIEHPERMTLFRMVFLDFRFLE-QKIR----HDSTAWNASGSILNTLQQLKFY 530

Query: 544 QFTSNVIDKVVLSEVASEIVIENLEDALEKVKLVMESCRSEGVLEKNSGMQQPH---FNE 600
           +        +  ++   E ++  + D L K++  +   +   +L     +       F E
Sbjct: 531 K------PYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLR--IALMAEDEAIFEE 582

Query: 601 PLQIRAK 607
             +   +
Sbjct: 583 AHKQVQR 589

PyMOL of 1vt4

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		695
2ayd_A		76	WRKY transcription factor 1; beta strands, zinc fi	93.45
1wj2_A		78	Probable WRKY transcription factor 4; DNA-binding	92.78
1a6b_B		40	Momulv, zinc finger protein NCP10; nucleocapsid pr	89.27
1nc8_A		29	Nucleocapsid protein; HIV-2, RNA recognition, zinc	87.55
1dsq_A		26	Nucleic acid binding protein P14; CCHC type zinc f	83.99

>2ayd_A WRKY transcription factor 1; beta strands, zinc finger; 1.60A {Arabidopsis thaliana}	Back alignment and structure

Probab=93.45  E-value=0.21  Score=39.52  Aligned_cols=57  Identities=23%  Similarity=0.397  Sum_probs=40.2

Q ss_pred             cCcEEEEecccccccCCceeEEEEEEccCCcccccccccccccccccccCceeEEEEEEee-CceEEEEEEeecccCCC
Q 046293           50 GGFSIQINSSKICKESNDIIRKEYVCFKEGQARQSKVVNRKRRRGIIRGGCSANLVVVKYE-FGKYMVRIFVEEHNHTL  127 (695)
Q Consensus        50 ~GF~i~~~~s~~~k~~g~~~~~~~~C~r~G~~~~~~~~~~~r~~~~~r~gC~a~i~~~~~~-~~~w~v~~~~~~HNH~l  127 (695)
                      -||..|+---+..+.+ .--+.+|.|+..                    ||||+=.+.+.. +....++.+..+|||++
T Consensus        16 DGy~WRKYGQK~ikgs-~~PRsYYrCt~~--------------------gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~   73 (76)
T 2ayd_A           16 DGYRWRKYGQKSVKGS-PYPRSYYRCSSP--------------------GCPVKKHVERSSHDTKLLITTYEGKHDHDM   73 (76)
T ss_dssp             CSSCEEEEEEECCTTC-SSCEEEEEECST--------------------TCCCEEEEEECSSSTTEEEEEEESCCSSCC
T ss_pred             CCchhhhCcccccCCC-CCceeEeEcCCC--------------------CCCceeeEEEECCCCCEEEEEEccCcCCCC
Confidence            4777776444333322 223567888742                    799999998865 77888999999999976

PyMOL of 2ayd

>1wj2_A Probable WRKY transcription factor 4; DNA-binding domain, zinc-binding, structural genomics; NMR {Arabidopsis thaliana} SCOP: g.79.1.1 PDB: 2lex_A*	Back alignment and structure

>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1	Back alignment and structure

>1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		695
d1wj2a_		71	WRKY DNA-binding protein 4 {Thale cress (Arabidops	93.84
d1nc8a_		29	HIV nucleocapsid {Human immunodeficiency virus typ	90.89
d2exfa1		42	HIV nucleocapsid {Human immunodeficiency virus typ	81.18

>d1wj2a_ g.79.1.1 (A:) WRKY DNA-binding protein 4 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

class: Small proteins
fold: WRKY DNA-binding domain
superfamily: WRKY DNA-binding domain
family: WRKY DNA-binding domain
domain: WRKY DNA-binding protein 4
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=93.84  E-value=0.046  Score=40.64  Aligned_cols=57  Identities=28%  Similarity=0.430  Sum_probs=39.7

Q ss_pred             cCcEEEEecccccccCCceeEEEEEEccCCcccccccccccccccccccCceeEEEEEEee-CceEEEEEEeecccCCC
Q 046293           50 GGFSIQINSSKICKESNDIIRKEYVCFKEGQARQSKVVNRKRRRGIIRGGCSANLVVVKYE-FGKYMVRIFVEEHNHTL  127 (695)
Q Consensus        50 ~GF~i~~~~s~~~k~~g~~~~~~~~C~r~G~~~~~~~~~~~r~~~~~r~gC~a~i~~~~~~-~~~w~v~~~~~~HNH~l  127 (695)
                      =||..|+---+..++ ...-+.+|.|+..                    ||+|+=.+.+.. ++.-.++.+..+|||++
T Consensus        12 DGy~WRKYGQK~ikg-s~~pRsYYrCt~~--------------------~C~a~K~Vqr~~~d~~~~~vtY~G~H~h~~   69 (71)
T d1wj2a_          12 DGYRWRKYGQKVVKG-NPYPRSYYKCTTP--------------------GCGVRKHVERAATDPKAVVTTYEGKHNHDL   69 (71)
T ss_dssp             SSSCBCCCEEECCTT-CSSCEEEEEEECS--------------------SCEEEEEEEEETTTTSEEEEEEESCCSSCC
T ss_pred             CCcEecccCceeccC-CCCceEEEEcccc--------------------CCCCcceEEEEcCCCCEEEEEEeeEeCCCC
Confidence            366666443322222 2234677899853                    799999998876 77888889999999975

PyMOL of d1wj2a_

>d1nc8a_ g.40.1.1 (A:) HIV nucleocapsid {Human immunodeficiency virus type 2 [TaxId: 11709]}	Back information, alignment and structure

>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]}	Back information, alignment and structure