Citrus Sinensis ID: 004429

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----

MSEGNSMASENGTDLSQDDTGTIEENPEETILSQQTSVNLVPFIGQRFVSQDAAYEFYCSFAKQCGFSIRRHRTRGKDGVGRGVTRRDFTCHRGGFPQMKPSDDGKMQRNRKSSRCGCQAYMRIVKRVDFDVPEWHVTGFSNVHNHELLKLNEVRLLPAYCSITPDDKTRICMFAKAGMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNVNRDYDAIDLIAMCKKMKDKNPNFQYDFKMDGHNRLEHIAWSYASSVQLYEAFGDALVFDTTHRLDSYDMLFGIWVGLDNHGMACFFGCVLLRDENMQSFSWSLKTLLGFMNGKAPQTLLTDQNIWLKEAVAVEMPETKHAVYIWHILAKLSDSLPTFLGSSYDDWKAEFYRLYNLELEEDFEEEWSKMVNKYGLREYKHITSLYALRTFWALPFLRHYFFAGLLSPCQSEAINAFIQRILSAQSQLDRFVERVAEIVEFNDRAATKQKMQRKLQKICLKTGSPIESHAATVLTPYAFGKLQEELLMAPQYASLLVDEGCFQVKHHTETDGGCKVIWIPCQEHISCSCHQFEFSGILCRHVLRVLSTDNCFQIPDQYLPIRWRNVTSASTNPLRTTTRDRSEKIQLLESMASALVSESLETEERLDVACEQVAMVLNHVKDLPRPIHGMDDIAYACPSHSLILPEVEDTDGIVQSITVGNSHESFTLGKLKERRPRDGVDVSRKRRHCSEPCCRHFGHDASSCPIMGSDTLNAELLGYL

ccccccccccccccccccccccccccccccccccccccccccccccEEccHHHHHHHHHHHHHccccEEEEEEEEccccccccEEEEEEEEcccccccccccccccccccccccccccEEEEEEEEEEEccccEEEEEEEEcccccccccccccccccccccccccHHHHHHHHHHccccHHHHHHHHHHHcccccccccccHHHHcHHHHHHccccccccHHHHHHHHHHHcccccccEEEEEEccccccEEEEEccccHHHHHHHcccEEEEEEEEccccccccEEEEEEcccccccEEEEEEEccccccccHHHHHHHHHHHHcccccEEEcccccHHHHHHHHHccccccccccHHHHHHcccccccccccccccHHHHHHHHHHccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHcccHHHHcccccccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHccHHHHHHHHHHHHHccccEEEEEccccEEEEEEccccccEEEEEcccccEEEEEEccccccccccHHHHHHHHcccccccccccHHHHHcccccccccccccccccHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc

cccccccccccccccccccccccccccccccccccccccccccccEEEccHHHHHHHHHHHHHHcccEEEEEEEEcEcccccEEEEEEEEEccccccccccccccccccccccccccccEEEEEEEEccccccEEEEEEEEcccccccccHHHHccccccccccHHHHHHHHHHHHccccHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccEEEEEEEcccccEEEEEEEcccHHHHHHHcccEEEEEccEEcccccccEEEEEEEcccccEEEEEHHHHccccHHHHHHHHHHHHHHHcccccEEEEEccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHccHHHHHHHHHHHHHHHHHHHEHcccccEEEEEEEEcccEEEEEEcccccEEEEEcHHEEccccHHHHHHHHHHHccccccccHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccHcHcccccccccccccccccccccccccccccccHcccc

msegnsmasengtdlsqddtgtieenpeetilsqqtsvnlvpfigqrfvsqDAAYEFYCSFAKQCgfsirrhrtrgkdgvgrgvtrrdftchrggfpqmkpsddgkmqrnrkssrcgcQAYMRIVKrvdfdvpewhvtgfsnvhnhellklnevrllpaycsitpddkTRICMFAKAGMSVRQMLRLMELEkgvklgclpfteIDVRNLLQSFRNVNRDYDAIDLIAMCKKmkdknpnfqydfkmdghnRLEHIAWSYASSVQLYEAFGDALVfdtthrldsydMLFGIWVgldnhgmacFFGCVLLRDENMQSFSWSLKTLLGfmngkapqtlltdqNIWLKEAVAVEMPETKHAVYIWHILAKlsdslptflgssyddWKAEFYRLYNLELEEDFEEEWSKMVNKYGLREYKHITSLYALRTFWALPFLRhyffagllspcQSEAINAFIQRILSAQSQLDRFVERVAEIVEFNDRAATKQKMQRKLQKIClktgspieshaatvltpyafGKLQEELLMAPQYASllvdegcfqvkhhtetdggckviwipcqehiscschqfefsgiLCRHVLrvlstdncfqipdqylpirwrnvtsastnplrtttrDRSEKIQLLESMASALVSESLETEERLDVACEQVAMVLNHvkdlprpihgmddiayacpshslilpevedtdgivqsitvgnshesftlgklkerrprdgvdvsrkrrhcsepccrhfghdasscpimgsdtLNAELLGYL

msegnsmasengtdlsqddTGTIEENPEETILSQQTSVNLVPFIGQRFVSQDAAYEFYCSFAKqcgfsirrhrtrgkdgvgrgvtrrdftchrggfpqmkpsddgkmqrnrKSSRCGCQAYMRIVKRVDFDVPEWHVTGFSNVHNHELLKLNEVRLLPAYCSITPDDKTRICMFAKAGMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNVNRDYDAIDLIAMCKKMKDKNPNFQYDFKMDGHNRLEHIAWSYASSVQLYEAFGDALVFDTTHRLDSYDMLFGIWVGLDNHGMACFFGCVLLRDENMQSFSWSLKTLLGFMNGKAPQTLLTDQNIWLKEAVAVEMPETKHAVYIWHILAKLSDSLPTFLGSSYDDWKAEFYRLYNLELEEDFEEEWSKMVNKYGLREYKHITSLYALRTFWALPFLRHYFFAGLLSPCQSEAINAFIQRILSAQSQLDRFVERVAEIVEfndraatkqkmQRKLQKICLKtgspieshaATVLTPYAFGKLQEELLMAPQYASLLVDEGCFQVKHHTETDGGCKVIWIPCQEHISCSCHQFEFSGILCRHVLRVLSTDNCFQIPDqylpirwrnvtsastnplrtttrdrseKIQLLESMASALVSESLETEERLDVACEQVAMVLNHVKDLPRPIHGMDDIAYACPSHSLILPEVEDTDGIVQSItvgnshesftlgklkerrprdgvdvsrkrrhcsepccrhfghdasscpimgSDTLNAELLGYL

MSEGNSMASENGTDLSQDDTGTIEENPEETILSQQTSVNLVPFIGQRFVSQDAAYEFYCSFAKQCGFSIRRHRTRGKDGVGRGVTRRDFTCHRGGFPQMKPSDDGKMQRNRKSSRCGCQAYMRIVKRVDFDVPEWHVTGFSNVHNHELLKLNEVRLLPAYCSITPDDKTRICMFAKAGMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNVNRDYDAIDLIAMCKKMKDKNPNFQYDFKMDGHNRLEHIAWSYASSVQLYEAFGDALVFDTTHRLDSYDMLFGIWVGLDNHGMACFFGCVLLRDENMQSFSWSLKTLLGFMNGKAPQTLLTDQNIWLKEAVAVEMPETKHAVYIWHILAKLSDSLPTFLGSSYDDWKAEFYRLYNleleedfeeeWSKMVNKYGLREYKHITSLYALRTFWALPFLRHYFFAGLLSPCQSEAINAFIQRILSAQSQLDRFVERVAEIVEFNDRAATKQKMQRKLQKICLKTGSPIESHAATVLTPYAFGKLQEELLMAPQYASLLVDEGCFQVKHHTETDGGCKVIWIPCQEHISCSCHQFEFSGILCRHVLRVLSTDNCFQIPDQYLPIRWRNVTSASTNPLRTTTRDRSEKIQLLESMASALVSESLETEERLDVACEQVAMVLNHVKDLPRPIHGMDDIAYACPSHSLILPEVEDTDGIVQSITVGNSHESFTLGKLKERRPRDGVDVSRKRRHCSEPCCRHFGHDASSCPIMGSDTLNAELLGYL

***********************************TSVNLVPFIGQRFVSQDAAYEFYCSFAKQCGFSIRRHRTRGKDGVGRGVTRRDFTCH***********************CGCQAYMRIVKRVDFDVPEWHVTGFSNVHNHELLKLNEVRLLPAYCSITPDDKTRICMFAKAGMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNVNRDYDAIDLIAMCKKMKDKNPNFQYDFKMDGHNRLEHIAWSYASSVQLYEAFGDALVFDTTHRLDSYDMLFGIWVGLDNHGMACFFGCVLLRDENMQSFSWSLKTLLGFMNGKAPQTLLTDQNIWLKEAVAVEMPETKHAVYIWHILAKLSDSLPTFLGSSYDDWKAEFYRLYNLELEEDFEEEWSKMVNKYGLREYKHITSLYALRTFWALPFLRHYFFAGLLSPCQSEAINAFIQRILSAQSQLDRFVERVAEIVEFNDRAATK**MQRKLQKICLKTGSPIESHAATVLTPYAFGKLQEELLMAPQYASLLVDEGCFQVKHHTETDGGCKVIWIPCQEHISCSCHQFEFSGILCRHVLRVLSTDNCFQIPDQYLPIRWRNVT*************************************RLDVACEQVAMVLNHVKDLPRPIHGMDDIAYACPSHSLILPEVEDTDGIVQSITVGN******************************PCCRHFGHDA**CPI**************

**************************************NLVPFIGQRFVSQDAAYEFYCSFAKQCGFSIRRHRTRGKDGVGRGVTRRDFTCHRGGFPQMK***********KSSRCGCQAYMRIVKRVDFDVPEWHVTGFSNVHNHELLKLNEVRLLPAYCSITPDDKTRICMFAKAGMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNVNRDYDAIDLIAMCKKMKDKNPNFQYDFKMDGHNRLEHIAWSYASSVQLYEAFGDALVFDTTHRLDSYDMLFGIWVGLDNHGMACFFGCVLLRDENMQSFSWSLKTLLGFMNGKAPQTLLTDQNIWLKEAVAVEMPETKHAVYIWHILAKLSDSLPTFLGSSYDDWKAEFYRLYNLELEEDFEEEWSKMVNKYGLREYKHITSLYALRTFWALPFLRHYFFAGLLSPCQSEAINAFIQRILSAQSQLDRFVERVAEIVEFNDRAATKQKMQRKLQKICLKTGSPIESHAATVLTPYAFGKLQEELLMAPQYASLLVDEGCFQVKHHTETDGGCKVIWIPCQEHISCSCHQFEFSGILCRHVLRVLSTDNCFQIPDQYLPIRWRNVT****************KIQLLESMASALVSESLETEERLDVACEQVAMVLNH*************************************************************************CCRHFGHDASSCPIMGS*TLN*ELLGYL

**********************IEENPEETILSQQTSVNLVPFIGQRFVSQDAAYEFYCSFAKQCGFSIRRHRTRGKDGVGRGVTRRDFTCHRGGFPQMK***************CGCQAYMRIVKRVDFDVPEWHVTGFSNVHNHELLKLNEVRLLPAYCSITPDDKTRICMFAKAGMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNVNRDYDAIDLIAMCKKMKDKNPNFQYDFKMDGHNRLEHIAWSYASSVQLYEAFGDALVFDTTHRLDSYDMLFGIWVGLDNHGMACFFGCVLLRDENMQSFSWSLKTLLGFMNGKAPQTLLTDQNIWLKEAVAVEMPETKHAVYIWHILAKLSDSLPTFLGSSYDDWKAEFYRLYNLELEEDFEEEWSKMVNKYGLREYKHITSLYALRTFWALPFLRHYFFAGLLSPCQSEAINAFIQRILSAQSQLDRFVERVAEIVEFNDRA**********QKICLKTGSPIESHAATVLTPYAFGKLQEELLMAPQYASLLVDEGCFQVKHHTETDGGCKVIWIPCQEHISCSCHQFEFSGILCRHVLRVLSTDNCFQIPDQYLPIRWRNVTSASTNPLRTTTRDRSEKIQLLESMASALVSESLETEERLDVACEQVAMVLNHVKDLPRPIHGMDDIAYACPSHSLILPEVEDTDGIVQSITVGNSHESFTLGKLK****************CSEPCCRHFGHDASSCPIMGSDTLNAELLGYL

*************************************VNLVPFIGQRFVSQDAAYEFYCSFAKQCGFSIRRHRTRGKDGVGRGVTRRDFTCHRGG*******************RCGCQAYMRIVKRVDFDVPEWHVTGFSNVHNHELLKLNEVRLLPAYCSITPDDKTRICMFAKAGMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNVNRDYDAIDLIAMCKKMKDKNPNFQYDFKMDGHNRLEHIAWSYASSVQLYEAFGDALVFDTTHRLDSYDMLFGIWVGLDNHGMACFFGCVLLRDENMQSFSWSLKTLLGFMNGKAPQTLLTDQNIWLKEAVAVEMPETKHAVYIWHILAKLSDSLPTFLGSSYDDWKAEFYRLYNLELEEDFEEEWSKMVNKYGLREYKHITSLYALRTFWALPFLRHYFFAGLLSPCQSEAINAFIQRILSAQSQLDRFVERVAEIVEFNDRAATKQKMQRKLQKICLKTGSPIESHAATVLTPYAFGKLQEELLMAPQYASLLVDEGCFQVKHHTETDGGCKVIWIPCQEHISCSCHQFEFSGILCRHVLRVLSTDNCFQIPDQYLPIRWRNVTSAST*P***TTRDRSEKIQLLESMASALVSESLETEERLDVACEQVAMVLNHVKDLPR***************************************************************************ASSCPIMG***LNAE*LGYL

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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		754	2.2.26 [Sep-21-2011]
Q9SY66		680	Protein FAR1-RELATED SEQU	yes	no	0.866	0.960	0.570	0.0
Q9LKR4		685	Putative protein FAR1-REL	no	no	0.831	0.915	0.388	1e-137
Q9SZL8		788	Protein FAR1-RELATED SEQU	no	no	0.741	0.709	0.307	2e-73
Q9LIE5		839	Protein FAR-RED ELONGATED	no	no	0.738	0.663	0.258	5e-59
Q9SWG3		827	Protein FAR-RED IMPAIRED	no	no	0.824	0.752	0.264	4e-57
Q6NQJ7		732	Protein FAR1-RELATED SEQU	no	no	0.785	0.808	0.275	7e-56
Q9ZVC9		851	Protein FAR1-RELATED SEQU	no	no	0.742	0.658	0.274	1e-54
Q9M8J3		764	Protein FAR1-RELATED SEQU	no	no	0.667	0.658	0.273	1e-49
Q3E7I5		788	Protein FAR1-RELATED SEQU	no	no	0.669	0.640	0.264	2e-46
Q3EBQ3		807	Protein FAR1-RELATED SEQU	no	no	0.657	0.614	0.244	7e-44

>sp\|Q9SY66\|FRS11_ARATH Protein FAR1-RELATED SEQUENCE 11 OS=Arabidopsis thaliana GN=FRS11 PE=2 SV=1	Back alignment and function desciption

 Score =  811 bits (2096), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 373/654 (57%), Positives = 501/654 (76%), Gaps = 1/654 (0%)

Query: 15  LSQDDTGTIEENPEETILSQQTSVNLVPFIGQRFVSQDAAYEFYCSFAKQCGFSIRRHRT 74
           LS DD  + EE+P++  LS +   N +P++GQ F++ D AYEFY +FAK+CGFSIRRHRT
Sbjct: 21  LSLDDASSTEESPDDNNLSLEAVHNAIPYLGQIFLTHDTAYEFYSTFAKRCGFSIRRHRT 80

Query: 75  RGKDGVGRGVTRRDFTCHRGGFPQMKPSDDGKMQRNRKSSRCGCQAYMRIVKRVDFDVPE 134
            GKDGVG+G+TRR F CHR G   +K   +GK QRNR+SSRCGCQAY+RI K  +    E
Sbjct: 81  EGKDGVGKGLTRRYFVCHRAGNTPIKTLSEGKPQRNRRSSRCGCQAYLRISKLTELGSTE 140

Query: 135 WHVTGFSNVHNHELLKLNEVRLLPAYCSITPDDKTRICMFAKAGMSVRQMLRLMELEKGV 194
           W VTGF+N HNHELL+ N+VR LPAY SI+  DK+RI MF+K G+SV+QM+RL+ELEK V
Sbjct: 141 WRVTGFANHHNHELLEPNQVRFLPAYRSISDADKSRILMFSKTGISVQQMMRLLELEKCV 200

Query: 195 KLGCLPFTEIDVRNLLQSFRNVNRDYDAIDLIAMCKKMKDKNPNFQYDFKMDGHNRLEHI 254
           + G LPFTE DVRNLLQSF+ ++ + + ID + MC+ +K+K+PNF+++F +D +++LE+I
Sbjct: 201 EPGFLPFTEKDVRNLLQSFKKLDPEDENIDFLRMCQSIKEKDPNFKFEFTLDANDKLENI 260

Query: 255 AWSYASSVQLYEAFGDALVFDTTHRLDSYDMLFGIWVGLDNHGMACFFGCVLLRDENMQS 314
           AWSYASS+Q YE FGDA+VFDTTHRL + +M  GIWVG++N+G+ CFFGCVLLRDEN++S
Sbjct: 261 AWSYASSIQSYELFGDAVVFDTTHRLSAVEMPLGIWVGVNNYGVPCFFGCVLLRDENLRS 320

Query: 315 FSWSLKTLLGFMNGKAPQTLLTDQNIWLKEAVAVEMPETKHAVYIWHILAKLSDSLPTFL 374
           +SW+L+   GFMNGKAPQT+LTD N+ LKEA+A EMP TKHA+ IW ++ K        L
Sbjct: 321 WSWALQAFTGFMNGKAPQTILTDHNMCLKEAIAGEMPATKHALCIWMVVGKFPSWFNAGL 380

Query: 375 GSSYDDWKAEFYRLYNLELEEDFEEEWSKMVNKYGLREYKHITSLYALRTFWALPFLRHY 434
           G  Y+DWKAEFYRLY+LE  E+FE  W  MVN +GL   +HI +LYA R+ W+LP+LR +
Sbjct: 381 GERYNDWKAEFYRLYHLESVEEFELGWRDMVNSFGLHTNRHINNLYASRSLWSLPYLRSH 440

Query: 435 FFAGLLSPCQSEAINAFIQRILSAQSQLDRFVERVAEIVEFNDRAATKQKMQRKLQKICL 494
           F AG+    +S+AINAFIQR LSAQ++L  FVE+VA +V+F D+A  +Q MQ+ LQ I L
Sbjct: 441 FLAGMTLTGRSKAINAFIQRFLSAQTRLAHFVEQVAVVVDFKDQATEQQTMQQNLQNISL 500

Query: 495 KTGSPIESHAATVLTPYAFGKLQEELLMAPQYASLLVDEGCFQVKHHTETDGGCKVIWIP 554
           KTG+P+ESHAA+VLTP+AF KLQE+L++A  YAS  +DEG + V+HHT+ DGG KV W+P
Sbjct: 501 KTGAPMESHAASVLTPFAFSKLQEQLVLAAHYASFQMDEG-YLVRHHTKLDGGRKVYWVP 559

Query: 555 CQEHISCSCHQFEFSGILCRHVLRVLSTDNCFQIPDQYLPIRWRNVTSASTNPLRTTTRD 614
            +  ISCSC  FEFSG LCRH LRVLST NCFQ+PD+YLP+RWR ++++ +   R+   D
Sbjct: 560 QEGIISCSCQLFEFSGFLCRHALRVLSTGNCFQVPDRYLPLRWRRISTSFSKTFRSNAED 619

Query: 615 RSEKIQLLESMASALVSESLETEERLDVACEQVAMVLNHVKDLPRPIHGMDDIA 668
             E++QLL+++ S LVSES +++ERLD+A EQ +++L+ +++ P     + DI+
Sbjct: 620 HGERVQLLQNLVSTLVSESAKSKERLDIATEQTSILLSRIREQPVSSLAIRDIS 673

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

>sp\|Q9LKR4\|FRS10_ARATH Putative protein FAR1-RELATED SEQUENCE 10 OS=Arabidopsis thaliana GN=FRS10 PE=2 SV=2	Back alignment and function description

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

>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\|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\|Q9ZVC9\|FRS3_ARATH Protein FAR1-RELATED SEQUENCE 3 OS=Arabidopsis thaliana GN=FRS3 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

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		754
255556300		749	conserved hypothetical protein [Ricinus	0.989	0.995	0.767	0.0
356532535		758	PREDICTED: protein FAR1-RELATED SEQUENCE	1.0	0.994	0.766	0.0
356558145		853	PREDICTED: protein FAR1-RELATED SEQUENCE	1.0	0.883	0.759	0.0
225437495		758	PREDICTED: protein FAR1-RELATED SEQUENCE	0.990	0.985	0.733	0.0
225431875		709	PREDICTED: protein FAR1-RELATED SEQUENCE	0.935	0.994	0.726	0.0
296083285		746	unnamed protein product [Vitis vinifera]	0.935	0.945	0.726	0.0
147778791		775	hypothetical protein VITISV_028607 [Viti	0.946	0.921	0.665	0.0
224099207		646	predicted protein [Populus trichocarpa]	0.847	0.989	0.749	0.0
224068442		649	predicted protein [Populus trichocarpa]	0.859	0.998	0.741	0.0
147795787		671	hypothetical protein VITISV_037071 [Viti	0.864	0.971	0.612	0.0

>gi\|255556300\|ref\|XP_002519184.1\| conserved hypothetical protein [Ricinus communis] gi\|223541499\|gb\|EEF43048.1\| conserved hypothetical protein [Ricinus communis]	Back alignment and taxonomy information

 Score = 1255 bits (3248), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 581/757 (76%), Positives = 663/757 (87%), Gaps = 11/757 (1%)

Query: 1   MSEGNSM---ASENGTDLSQDDTGTIEENPEETILSQQTSVNLVPFIGQRFVSQDAAYEF 57
           MSEG SM   +SENGTD+SQDDTG +EE PE+TILS+QTSVNLVPFIGQRFVSQDAAYEF
Sbjct: 1   MSEGTSMVMESSENGTDISQDDTGNVEEIPEDTILSRQTSVNLVPFIGQRFVSQDAAYEF 60

Query: 58  YCSFAKQCGFSIRRHRTRGKDGVGRGVTRRDFTCHRGGFPQMKPSDDGKMQRNRKSSRCG 117
           YCSFAKQCGFSIRRHRTRGKDG+GRGVTRRDFTCHRGGFPQMKPS+DGKMQRNRKSSRCG
Sbjct: 61  YCSFAKQCGFSIRRHRTRGKDGIGRGVTRRDFTCHRGGFPQMKPSEDGKMQRNRKSSRCG 120

Query: 118 CQAYMRIVKRVDFDVPEWHVTGFSNVHNHELLKLNEVRLLPAYCSITPDDKTRICMFAKA 177
           CQAYMRIVKR DFDVPEW VTGFSN+HNHELLK NEV LLPAYC+++PDDKTRICMFAKA
Sbjct: 121 CQAYMRIVKRADFDVPEWRVTGFSNIHNHELLKSNEVHLLPAYCTMSPDDKTRICMFAKA 180

Query: 178 GMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNVNRDYDAIDLIAMCKKMKDKNP 237
           GMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRN+NRD DAIDLIAMCKK+KD++ 
Sbjct: 181 GMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNINRDNDAIDLIAMCKKLKDEDH 240

Query: 238 NFQYDFKMDGHNRLEHIAWSYASSVQLYEAFGDALVFDTTHRLDSYDMLFGIWVGLDNHG 297
           NF+YDFK+DG+NRLEHIAWSYASS+QLYEAFGDA+VFDTTHRLD+YDM+ GIW+GLDNHG
Sbjct: 241 NFKYDFKIDGNNRLEHIAWSYASSIQLYEAFGDAVVFDTTHRLDAYDMILGIWLGLDNHG 300

Query: 298 MACFFGCVLLRDENMQSFSWSLKTLLGFMNGKAPQTLLTDQNIWLKEAVAVEMPETKHAV 357
           M CFFGCVLLRDENMQSFSW+LK  + FMNGKAP T++TDQN+WLKEA+A+E+PETKHA 
Sbjct: 301 MTCFFGCVLLRDENMQSFSWALKAFMDFMNGKAPHTIMTDQNMWLKEAIAIEIPETKHAF 360

Query: 358 YIWHILAKLSDSLPTFLGSSYDDWKAEFYRLYNLELEEDFEEEWSKMVNKYGLREYKHIT 417
            IWHILAK SD     L S YDDWKAEF RLYNLE  EDFEE W +MV+KYGL   KHI 
Sbjct: 361 CIWHILAKFSDWFSLLLESCYDDWKAEFLRLYNLEFVEDFEEGWKEMVDKYGLHANKHIA 420

Query: 418 SLYALRTFWALPFLRHYFFAGLLSPCQSEAINAFIQRILSAQSQLDRFVERVAEIVEFND 477
           SLYALRTFWAL +LRHYFFAG+++ CQSE+INAFIQR LSAQSQL+RF+ERVA+IV+ N+
Sbjct: 421 SLYALRTFWALSYLRHYFFAGMMNTCQSESINAFIQRFLSAQSQLERFIERVADIVDLNN 480

Query: 478 RAATKQKMQRKLQKICLKTGSPIESHAATVLTPYAFGKLQEELLMAPQYASLLVDEGCFQ 537
            + +K +  RKLQK+ LKTGSPIESHAA++LTPYAF KLQEEL++APQYAS  +D+  +Q
Sbjct: 481 HSGSKAETHRKLQKVYLKTGSPIESHAASILTPYAFNKLQEELVLAPQYASFQIDDYGYQ 540

Query: 538 VKHHTETDGGCKVIWIPCQEHISCSCHQFEFSGILCRHVLRVLSTDNCFQIPDQYLPIRW 597
           V+HHT+  GGCKVIW PCQEHISCSC +FEF GILCRHVLRVLS +NCF IPDQY+P RW
Sbjct: 541 VRHHTQISGGCKVIWDPCQEHISCSCSRFEFLGILCRHVLRVLSNNNCFHIPDQYMPARW 600

Query: 598 RNVTSASTNPLRTTTRDRSEKIQLLESMASALVSESLETEERLDVACEQVAMVLNHVKDL 657
           R+V       L +T R +S++IQLLESMAS LV+E++ETEERL+VACE++AMVL+ +KDL
Sbjct: 601 RDVD------LSSTARTQSDRIQLLESMASTLVTEAVETEERLNVACEEIAMVLSRIKDL 654

Query: 658 PRPIHGMDDIAYACPSHSLILPEVEDTDGIVQSITVGNSHESFTLGKLKERRPRDGVDVS 717
           PR  H  D+ AY C S SLILP+VED DG+VQ++ +GN H+S +LGKLKERRPRDG D+S
Sbjct: 655 PRQTH--DENAYNCASDSLILPDVEDADGVVQTLAIGNPHDSISLGKLKERRPRDGTDIS 712

Query: 718 RKRRHCSEPCCRHFGHDASSCPIMGSDTLNAELLGYL 754
           RKRRHCS PCC  FGHD S CPIMGSD LN   LGY+
Sbjct: 713 RKRRHCSGPCCGQFGHDVSDCPIMGSDHLNGAALGYI 749

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|356532535\|ref\|XP_003534827.1\| PREDICTED: protein FAR1-RELATED SEQUENCE 11-like [Glycine max]	Back alignment and taxonomy information

>gi\|356558145\|ref\|XP_003547368.1\| PREDICTED: protein FAR1-RELATED SEQUENCE 11-like [Glycine max]	Back alignment and taxonomy information

>gi\|225437495\|ref\|XP_002269765.1\| PREDICTED: protein FAR1-RELATED SEQUENCE 11-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|225431875\|ref\|XP_002271698.1\| PREDICTED: protein FAR1-RELATED SEQUENCE 11 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|296083285\|emb\|CBI22921.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|147778791\|emb\|CAN75953.1\| hypothetical protein VITISV_028607 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|224099207\|ref\|XP_002311403.1\| predicted protein [Populus trichocarpa] gi\|222851223\|gb\|EEE88770.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|224068442\|ref\|XP_002302746.1\| predicted protein [Populus trichocarpa] gi\|222844472\|gb\|EEE82019.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|147795787\|emb\|CAN72074.1\| hypothetical protein VITISV_037071 [Vitis vinifera]	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		754
TAIR\|locus:2012828		680	FRS11 "FAR1-related sequence 1	0.866	0.960	0.562	2.8e-208
TAIR\|locus:2182778		685	FRS10 "FAR1-related sequence 1	0.831	0.915	0.385	3e-124
TAIR\|locus:2121060		788	FRS5 "FAR1-related sequence 5"	0.741	0.709	0.297	3e-69
TAIR\|locus:2129665		827	FAR1 "FAR-RED IMPAIRED RESPONS	0.834	0.760	0.267	3.2e-58
TAIR\|locus:2014639		732	FRS4 "FAR1-related sequence 4"	0.705	0.726	0.288	5.9e-57
TAIR\|locus:2090394		839	FHY3 "far-red elongated hypoco	0.855	0.768	0.255	1.7e-53
TAIR\|locus:2059304		851	FRS3 "FAR1-related sequence 3"	0.631	0.559	0.280	1.9e-50
TAIR\|locus:2082420		764	FRS7 "FAR1-related sequence 7"	0.572	0.565	0.269	4.1e-45
TAIR\|locus:2144930		788	FRS12 "FAR1-related sequence 1	0.533	0.510	0.267	9.4e-42
TAIR\|locus:2016259		725	FRS8 "FAR1-related sequence 8"	0.819	0.852	0.259	1.1e-40

TAIR\|locus:2012828 FRS11 "FAR1-related sequence 11" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 2014 (714.0 bits), Expect = 2.8e-208, P = 2.8e-208
 Identities = 368/654 (56%), Positives = 495/654 (75%)

Query:    15 LSQDDTGTIEENPEETILSQQTSVNLVPFIGQRFVSQDAAYEFYCSFAKQCGFSIRRHRT 74
             LS DD  + EE+P++  LS +   N +P++GQ F++ D AYEFY +FAK+CGFSIRRHRT
Sbjct:    21 LSLDDASSTEESPDDNNLSLEAVHNAIPYLGQIFLTHDTAYEFYSTFAKRCGFSIRRHRT 80

Query:    75 RGKDGVGRGVTRRDFTCHRGGFPQMKPSDDGKMQRNRKSSRCGCQAYMRIVKRVDFDVPE 134
              GKDGVG+G+TRR F CHR G   +K   +GK QRNR+SSRCGCQAY+RI K  +    E
Sbjct:    81 EGKDGVGKGLTRRYFVCHRAGNTPIKTLSEGKPQRNRRSSRCGCQAYLRISKLTELGSTE 140

Query:   135 WHVTGFSNVHNHELLKLNEVRLLPAYCSITPDDKTRICMFAKAGMSVRQMLRLMELEKGV 194
             W VTGF+N HNHELL+ N+VR LPAY SI+  DK+RI MF+K G+SV+QM+RL+ELEK V
Sbjct:   141 WRVTGFANHHNHELLEPNQVRFLPAYRSISDADKSRILMFSKTGISVQQMMRLLELEKCV 200

Query:   195 KLGCLPFTEIDVRNLLQSFRNVNRDYDAIDLIAMCKKMKDKNPNFQYDFKMDGHNRLEHI 254
             + G LPFTE DVRNLLQSF+ ++ + + ID + MC+ +K+K+PNF+++F +D +++LE+I
Sbjct:   201 EPGFLPFTEKDVRNLLQSFKKLDPEDENIDFLRMCQSIKEKDPNFKFEFTLDANDKLENI 260

Query:   255 AWSYASSVQLYEAFGDALVFDTTHRLDSYDMLFGIWVGLDNHGMACFFGCVLLRDENMQS 314
             AWSYASS+Q YE FGDA+VFDTTHRL + +M  GIWVG++N+G+ CFFGCVLLRDEN++S
Sbjct:   261 AWSYASSIQSYELFGDAVVFDTTHRLSAVEMPLGIWVGVNNYGVPCFFGCVLLRDENLRS 320

Query:   315 FSWSLKTLLGFMNGKAPQTLLTDQNIWLKEAVAVEMPETKHAVYIWHILAKLSDSLPTFL 374
             +SW+L+   GFMNGKAPQT+LTD N+ LKEA+A EMP TKHA+ IW ++ K        L
Sbjct:   321 WSWALQAFTGFMNGKAPQTILTDHNMCLKEAIAGEMPATKHALCIWMVVGKFPSWFNAGL 380

Query:   375 GSSYDDWKAEFYRLYNXXXXXXXXXXWSKMVNKYGLREYKHITSLYALRTFWALPFLRHY 434
             G  Y+DWKAEFYRLY+          W  MVN +GL   +HI +LYA R+ W+LP+LR +
Sbjct:   381 GERYNDWKAEFYRLYHLESVEEFELGWRDMVNSFGLHTNRHINNLYASRSLWSLPYLRSH 440

Query:   435 FFAGLLSPCQSEAINAFIQRILSAQSQLDRFVERVAEIVEFNDRAATKQKMQRKLQKICL 494
             F AG+    +S+AINAFIQR LSAQ++L  FVE+VA +V+F D+A  +Q MQ+ LQ I L
Sbjct:   441 FLAGMTLTGRSKAINAFIQRFLSAQTRLAHFVEQVAVVVDFKDQATEQQTMQQNLQNISL 500

Query:   495 KTGSPIESHAATVLTPYAFGKLQEELLMAPQYASLLVDEGCFQVKHHTETDGGCKVIWIP 554
             KTG+P+ESHAA+VLTP+AF KLQE+L++A  YAS  +DEG + V+HHT+ DGG KV W+P
Sbjct:   501 KTGAPMESHAASVLTPFAFSKLQEQLVLAAHYASFQMDEG-YLVRHHTKLDGGRKVYWVP 559

Query:   555 CQEHISCSCHQFEFSGILCRHVLRVLSTDNCFQIPDQYLPIRWRNVTSASTNPLRTTTRD 614
              +  ISCSC  FEFSG LCRH LRVLST NCFQ+PD+YLP+RWR ++++ +   R+   D
Sbjct:   560 QEGIISCSCQLFEFSGFLCRHALRVLSTGNCFQVPDRYLPLRWRRISTSFSKTFRSNAED 619

Query:   615 RSEKIQLLESMASALVSESLETEERLDVACEQVAMVLNHVKDLPRPIHGMDDIA 668
               E++QLL+++ S LVSES +++ERLD+A EQ +++L+ +++ P     + DI+
Sbjct:   620 HGERVQLLQNLVSTLVSESAKSKERLDIATEQTSILLSRIREQPVSSLAIRDIS 673

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:2182778 FRS10 "FAR1-related sequence 10" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2121060 FRS5 "FAR1-related sequence 5" [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:2014639 FRS4 "FAR1-related sequence 4" [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:2059304 FRS3 "FAR1-related sequence 3" [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:2144930 FRS12 "FAR1-related sequence 12" [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

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)
Q9SY66	FRS11_ARATH	No assigned EC number	0.5703	0.8660	0.9602	yes	no

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		754
PLN03097		846	PLN03097, FHY3, Protein FAR-RED ELONGATED HYPOCOTY	2e-70
pfam03101		90	pfam03101, FAR1, FAR1 DNA-binding domain	2e-22
pfam10551		88	pfam10551, MULE, MULE transposase domain	2e-15
pfam04434		38	pfam04434, SWIM, SWIM zinc finger	1e-04
smart00575		28	smart00575, ZnF_PMZ, plant mutator transposase zin	1e-04

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

 Score =  246 bits (629), Expect = 2e-70
 Identities = 170/629 (27%), Positives = 287/629 (45%), Gaps = 70/629 (11%)

Query: 5   NSMASENGTDLSQDDTGTIEE--------------NPEETILSQQTSVNLVPFIGQRFVS 50
           ++M SE        + G + +              +P   ++  +   NL P  G  F S
Sbjct: 23  DNMLSEVKLHNGDMEIGNVVDVAEEVLSIDGGDMNSPTGELVEFKEDTNLEPLSGMEFES 82

Query: 51  QDAAYEFYCSFAKQCGFSIRRHRTRGKDGVGRGVTRRDFTCHRGGF----------PQMK 100
              AY FY  +A+  GF+     +R +    R      F C R G           P+ +
Sbjct: 83  HGEAYSFYQEYARSMGFNTAIQNSR-RSKTSREFIDAKFACSRYGTKREYDKSFNRPRAR 141

Query: 101 PS--DDGKMQRNRKSSRCGCQAYMRIVKRVDFDVPEWHVTGFSNVHNHELLKLNEVRLLP 158
            +  D       R  ++  C+A M + +R D    +W +  F   HNHELL    V    
Sbjct: 142 QTKQDPENGTGRRSCAKTDCKASMHVKRRPD---GKWVIHSFVKEHNHELLPAQAV---- 194

Query: 159 AYCSITPDDKTRICMFAKAGMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNVNR 218
                   ++TR  M+A       +   ++ L+             D ++     RN+  
Sbjct: 195 -------SEQTRK-MYAAMARQFAEYKNVVGLKN------------DSKSSFDKGRNLGL 234

Query: 219 DY-DAIDLIAMCKKMKDKNPNFQYDFKMDGHNRLEHIAWSYASSVQLYEAFGDALVFDTT 277
           +  D   L+    +M++ N NF Y   +    RL+++ W  A S   Y  F D + FDTT
Sbjct: 235 EAGDTKILLDFFTQMQNMNSNFFYAVDLGEDQRLKNLFWVDAKSRHDYGNFSDVVSFDTT 294

Query: 278 HRLDSYDMLFGIWVGLDNHGMACFFGCVLLRDENMQSFSWSLKTLLGFMNGKAPQTLLTD 337
           +  + Y M   ++VG++ H      GC L+ DE+  ++SW ++T L  M G+AP+ ++TD
Sbjct: 295 YVRNKYKMPLALFVGVNQHYQFMLLGCALISDESAATYSWLMQTWLRAMGGQAPKVIITD 354

Query: 338 QNIWLKEAVAVEMPETKHAVYIWHILAKLSDSLPTFLGSSYDDWKAEFYR-LYNLELEED 396
           Q+  +K  ++   P   H  ++WHIL K+S++L   +   ++++ A+F + +Y    EE+
Sbjct: 355 QDKAMKSVISEVFPNAHHCFFLWHILGKVSENLGQVI-KQHENFMAKFEKCIYRSWTEEE 413

Query: 397 FEEEWSKMVNKYGLREYKHITSLYALRTFWALPFLRHYFFAGLLSPCQSEAINAFIQRIL 456
           F + W K+++++ L+E + + SLY  R  W   ++R  F AG+ +  +SE+INAF  + +
Sbjct: 414 FGKRWWKILDRFELKEDEWMQSLYEDRKQWVPTYMRDAFLAGMSTVQRSESINAFFDKYV 473

Query: 457 SAQSQLDRFVERVAEIVE--FNDRAATKQKMQRKLQKICLKTGSPIESHAATVLTPYAFG 514
             ++ +  FV++   I++  + + A        K  +  LK+ SP+E   + V T   F 
Sbjct: 474 HKKTTVQEFVKQYETILQDRYEEEAKADSDTWNK--QPALKSPSPLEKSVSGVYTHAVFK 531

Query: 515 KLQEELLMA----PQYASLLVDEGC--FQVKHHTETDGGCKVIWIPCQEHISCSCHQFEF 568
           K Q E+L A    P+  S   DE    F+V+   E +    V W   +  +SC C  FE+
Sbjct: 532 KFQVEVLGAVACHPKMESQ--DETSITFRVQ-DFEKNQDFTVTWNQTKLEVSCICRLFEY 588

Query: 569 SGILCRHVLRVLSTDNCFQIPDQYLPIRW 597
            G LCRH L VL       IP QY+  RW
Sbjct: 589 KGYLCRHALVVLQMCQLSAIPSQYILKRW 617

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

>gnl\|CDD\|128845 smart00575, ZnF_PMZ, plant mutator transposase 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		754
PLN03097		846	FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provis	100.0
PF10551		93	MULE: MULE transposase domain; InterPro: IPR018289	99.86
PF03101		91	FAR1: FAR1 DNA-binding domain; InterPro: IPR004330	99.79
PF00872		381	Transposase_mut: Transposase, Mutator family; Inte	99.78
COG3328		379	Transposase and inactivated derivatives [DNA repli	99.36
PF08731		111	AFT: Transcription factor AFT; InterPro: IPR014842	99.25
smart00575		28	ZnF_PMZ plant mutator transposase zinc finger.	98.87
PF03108		67	DBD_Tnp_Mut: MuDR family transposase; InterPro: IP	98.47
PF04434		40	SWIM: SWIM zinc finger; InterPro: IPR007527 Zinc f	98.21
PF01610		249	DDE_Tnp_ISL3: Transposase; InterPro: IPR002560 Aut	97.12
PF06782		470	UPF0236: Uncharacterised protein family (UPF0236);	96.47
PF13610		140	DDE_Tnp_IS240: DDE domain	95.81
PF03106		60	WRKY: WRKY DNA -binding domain; InterPro: IPR00365	95.43
PF15288		40	zf-CCHC_6: Zinc knuckle	94.74
PF00098		18	zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi	94.72
PF13696		32	zf-CCHC_2: Zinc knuckle	93.19
smart00774		59	WRKY DNA binding domain. The WRKY domain is a DNA	89.11
PF00665		120	rve: Integrase core domain; InterPro: IPR001584 In	88.91
PRK08561		151	rps15p 30S ribosomal protein S15P; Reviewed	82.21
COG5179		968	TAF1 Transcription initiation factor TFIID, subuni	80.32

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

Probab=100.00  E-value=5.2e-124  Score=1065.09  Aligned_cols=686  Identities=25%  Similarity=0.431  Sum_probs=571.9

Q ss_pred             CccCCCCcccccccCCCCCCCCCCCccCCHHHHHHHHHHHHhhcCCeEEEcceeccCCCCcceEEEEEeecCCCCCCCCC
Q 004429           22 TIEENPEETILSQQTSVNLVPFIGQRFVSQDAAYEFYCSFAKQCGFSIRRHRTRGKDGVGRGVTRRDFTCHRGGFPQMKP  101 (754)
Q Consensus        22 ~~~~~~~~~~~~~~~~~~~~P~vg~~F~S~eea~~~y~~yA~~~GF~ir~~~s~~~~~~~k~~~~~~~~C~r~G~~~~~~  101 (754)
                      .+..+++...+..+.+...+|.+||+|+|+|||++||+.||.+.||+||+.++++++.. +.++.++|+|+|+|+++.+.
T Consensus        54 ~~~~~~~~~~~~~~~~~~~~P~vGMeF~S~eeA~~FYn~YA~~~GFsVRi~~srrsk~~-~~ii~r~fvCsreG~~~~~~  132 (846)
T PLN03097         54 GDMNSPTGELVEFKEDTNLEPLSGMEFESHGEAYSFYQEYARSMGFNTAIQNSRRSKTS-REFIDAKFACSRYGTKREYD  132 (846)
T ss_pred             ccccccccccccccCCCCccCcCCCeECCHHHHHHHHHHHHhhcCceEEeeceeccCCC-CcEEEEEEEEcCCCCCcccc
Confidence            33445556666777888899999999999999999999999999999999999887654 36889999999999875432


Q ss_pred             CC------------ccccccCCCcccccccceEEEEEeeeCCCCcEEEEeecCCccCCCCCccccccccccCCCCcchhh
Q 004429          102 SD------------DGKMQRNRKSSRCGCQAYMRIVKRVDFDVPEWHVTGFSNVHNHELLKLNEVRLLPAYCSITPDDKT  169 (754)
Q Consensus       102 ~~------------~~~~~r~~~s~r~gCpa~i~v~~~~~~~~~~w~V~~~~~~HNH~l~~~~~~~~l~s~R~l~~~~k~  169 (754)
                      +.            ....+++|+.+||||||+|+|++.   .+|+|+|+.|+.+|||||.++..+         +     
T Consensus       133 ~~~~~~~~~~~k~~~~~~~~rR~~tRtGC~A~m~Vk~~---~~gkW~V~~fv~eHNH~L~p~~~~---------~-----  195 (846)
T PLN03097        133 KSFNRPRARQTKQDPENGTGRRSCAKTDCKASMHVKRR---PDGKWVIHSFVKEHNHELLPAQAV---------S-----  195 (846)
T ss_pred             cccccccccccccCcccccccccccCCCCceEEEEEEc---CCCeEEEEEEecCCCCCCCCcccc---------c-----
Confidence            10            001123456789999999999875   458999999999999999876421         1     


Q ss_pred             HHHHhhhcCCcHHHHHHHHHHhcCccCCCCCcchhhhhhhHHHhhhc-cCcccHHHHHHHHHHhhcCCCCcEEEEEecCC
Q 004429          170 RICMFAKAGMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNV-NRDYDAIDLIAMCKKMKDKNPNFQYDFKMDGH  248 (754)
Q Consensus       170 ~i~~l~~~g~~~~~i~~~l~~~~g~~~~~~~~~~~Di~N~~~~~r~~-~~~~d~~~l~~~~~~~~~~np~~~~~~~~d~~  248 (754)
                               +.++.++..+....+. +.++..+..|..|...+.|+. +..+|+++|++||++++.+||+|+|.+++|++
T Consensus       196 ---------~~~r~~~~~~~~~~~~-~~~v~~~~~d~~~~~~~~r~~~~~~gD~~~ll~yf~~~q~~nP~Ffy~~qlDe~  265 (846)
T PLN03097        196 ---------EQTRKMYAAMARQFAE-YKNVVGLKNDSKSSFDKGRNLGLEAGDTKILLDFFTQMQNMNSNFFYAVDLGED  265 (846)
T ss_pred             ---------hhhhhhHHHHHhhhhc-cccccccchhhcchhhHHHhhhcccchHHHHHHHHHHHHhhCCCceEEEEEccC
Confidence                     1233444444444442 567777888888887776644 56899999999999999999999999999999


Q ss_pred             CceeeEEeccchhHHHHHHcCCEEEEcCccccCcCCceeeEEEEeecCCceeEEeeecccCCchhhHHHHHHHHHHHhCC
Q 004429          249 NRLEHIAWSYASSVQLYEAFGDALVFDTTHRLDSYDMLFGIWVGLDNHGMACFFGCVLLRDENMQSFSWSLKTLLGFMNG  328 (754)
Q Consensus       249 ~~~~~if~~~~~~~~~~~~~~dvl~~D~Ty~~n~y~~~l~~~~g~d~~~~~~~~a~al~~~E~~es~~w~l~~~~~~~~~  328 (754)
                      |++++|||+|+.|+.+|.+|||||+||+||+||+|++||++|+|||+|+|+++|||||+.+|+.++|.|+|++|+++|++
T Consensus       266 ~~l~niFWaD~~sr~~Y~~FGDvV~fDTTY~tN~y~~Pfa~FvGvNhH~qtvlfGcaLl~dEt~eSf~WLf~tfl~aM~g  345 (846)
T PLN03097        266 QRLKNLFWVDAKSRHDYGNFSDVVSFDTTYVRNKYKMPLALFVGVNQHYQFMLLGCALISDESAATYSWLMQTWLRAMGG  345 (846)
T ss_pred             CCeeeEEeccHHHHHHHHhcCCEEEEeceeeccccCcEEEEEEEecCCCCeEEEEEEEcccCchhhHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCeEeeccccHHHHHHHHhhCCCCccccchhhhhhhccccCCcccCCChhhHHHHHHH-HhcCCCHHHHHHHHHHHHHh
Q 004429          329 KAPQTLLTDQNIWLKEAVAVEMPETKHAVYIWHILAKLSDSLPTFLGSSYDDWKAEFYR-LYNLELEEDFEEEWSKMVNK  407 (754)
Q Consensus       329 ~~p~~iitD~~~~l~~Ai~~vfP~a~h~lC~~Hi~~n~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~eFe~~w~~l~~~  407 (754)
                      +.|++||||+|.+|.+||++|||++.|++|+|||++|+.+++..++ ...+.|..+|+. ++.+.+++|||..|..|+++
T Consensus       346 k~P~tIiTDqd~am~~AI~~VfP~t~Hr~C~wHI~~~~~e~L~~~~-~~~~~f~~~f~~cv~~s~t~eEFE~~W~~mi~k  424 (846)
T PLN03097        346 QAPKVIITDQDKAMKSVISEVFPNAHHCFFLWHILGKVSENLGQVI-KQHENFMAKFEKCIYRSWTEEEFGKRWWKILDR  424 (846)
T ss_pred             CCCceEEecCCHHHHHHHHHHCCCceehhhHHHHHHHHHHHhhHHh-hhhhHHHHHHHHHHhCCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999998765 346789999987 45689999999999999999


Q ss_pred             ccCchhHHHHHHHHhhcccccccccccccccccCCCccchHHHHHHhhhcccccHHHHHHHHHHHHHhHhHHHHHHHHHH
Q 004429          408 YGLREYKHITSLYALRTFWALPFLRHYFFAGLLSPCQSEAINAFIQRILSAQSQLDRFVERVAEIVEFNDRAATKQKMQR  487 (754)
Q Consensus       408 ~~~~~~~~l~~l~~~r~~W~~a~~~~~~~~g~~ttn~~Es~n~~lk~~l~~~~~l~~f~~~~~~~~~~~~~~e~~~~~~~  487 (754)
                      |++++++||+.||+.|++||++|+++.|++||.||+|+||+|++|++|+++.++|..|+++|+.++..++++|++++..+
T Consensus       425 y~L~~n~WL~~LY~~RekWapaY~k~~F~agm~sTqRSES~Ns~fk~yv~~~tsL~~Fv~qye~~l~~~~ekE~~aD~~s  504 (846)
T PLN03097        425 FELKEDEWMQSLYEDRKQWVPTYMRDAFLAGMSTVQRSESINAFFDKYVHKKTTVQEFVKQYETILQDRYEEEAKADSDT  504 (846)
T ss_pred             hcccccHHHHHHHHhHhhhhHHHhcccccCCcccccccccHHHHHHHHhCcCCCHHHHHHHHHHHHHHHHHHHHHhhhhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             hhcccccccCChHHHHHHhhhhHHHHHHHHHHHHhccCceEEEee-CC---eEEEEEeeeeCCceEEEEecCCCeeEEEc
Q 004429          488 KLQKICLKTGSPIESHAATVLTPYAFGKLQEELLMAPQYASLLVD-EG---CFQVKHHTETDGGCKVIWIPCQEHISCSC  563 (754)
Q Consensus       488 ~~~~~~~~t~~~~e~q~~~~~T~~~f~~~q~e~~~s~~~~v~~~~-~~---~y~V~~~~~~~~~~~V~~~~~~~~~~CsC  563 (754)
                      ....|.+++.+|||+||+.+|||.||++||+|+..+..|.+.... +|   +|.|....+ .+.|.|.++.....++|+|
T Consensus       505 ~~~~P~l~t~~piEkQAs~iYT~~iF~kFQ~El~~~~~~~~~~~~~dg~~~~y~V~~~~~-~~~~~V~~d~~~~~v~CsC  583 (846)
T PLN03097        505 WNKQPALKSPSPLEKSVSGVYTHAVFKKFQVEVLGAVACHPKMESQDETSITFRVQDFEK-NQDFTVTWNQTKLEVSCIC  583 (846)
T ss_pred             ccCCcccccccHHHHHHHHHhHHHHHHHHHHHHHHhhheEEeeeccCCceEEEEEEEecC-CCcEEEEEecCCCeEEeec
Confidence            888899999999999999999999999999999999988876653 33   688876544 5689999999999999999


Q ss_pred             cCccccCcchhhHHHHhhcCCcccCCCCCcccccccccCCCCCCCCCC--CCChhHHHHHHHHHHHHHHHHHhcCHHHHH
Q 004429          564 HQFEFSGILCRHVLRVLSTDNCFQIPDQYLPIRWRNVTSASTNPLRTT--TRDRSEKIQLLESMASALVSESLETEERLD  641 (754)
Q Consensus       564 ~~f~~~GiPC~Hil~vl~~~~i~~ip~~yi~~rWtk~a~~~~~~~~~~--~~~~~~r~~~l~~~~~~~~~~~~~s~e~~~  641 (754)
                      ++|++.||||+|||+||.++++.+||++||++||||+|+.....+...  ..+...||+.|++.+.+++.+|+.|+|.|+
T Consensus       584 ~kFE~~GILCrHaLkVL~~~~v~~IP~~YILkRWTKdAK~~~~~~~~~~~~~~~~~Ryn~L~r~a~kla~~as~S~E~y~  663 (846)
T PLN03097        584 RLFEYKGYLCRHALVVLQMCQLSAIPSQYILKRWTKDAKSRHLLGEESEQVQSRVQRYNDLCQRALKLSEEASLSQESYN  663 (846)
T ss_pred             cCeecCccchhhHHHHHhhcCcccCchhhhhhhchhhhhhcccCccccccccchhhHHHHHHHHHHHHHHHHhCCHHHHH
Confidence            999999999999999999999999999999999999999876554332  234567999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCCcCCCCcccCCCCCCccCcccccccccccccccCCC-CcccccCCccccCCCCCccc----
Q 004429          642 VACEQVAMVLNHVKDLPRPIHGMDDIAYACPSHSLILPEVEDTDGIVQSITVGNS-HESFTLGKLKERRPRDGVDV----  716 (754)
Q Consensus       642 ~~~~~l~~l~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P-~~~~~kGrpk~~r~r~~~~~----  716 (754)
                      .|++.|++++.++..|..+.....+ +.+....+++..++++...      ...| ..++++++.+  +..++.+.    
T Consensus       664 ~a~~~L~e~~~~~~~~~n~~~~~~~-~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~--~~~~~~~~~~~~  734 (846)
T PLN03097        664 IAFRALEEAFGNCISMNNSNKSLVE-AGTSPTHGLLCIEDDNQSR------SMTKTNKKKNPTKKR--KVNSEQEVTTVA  734 (846)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCccc-cccccccCCcccccccccc------ccCcCCccccccccc--cccCchhhhhhh
Confidence            9999999999999877655433221 1122233333333332221      2222 2223333222  22222221    


Q ss_pred             ccccccccCCccC-CCCCCCCCCCCcCcCCc
Q 004429          717 SRKRRHCSEPCCR-HFGHDASSCPIMGSDTL  746 (754)
Q Consensus       717 ~~~~r~~~C~~C~-~~gHn~~tCp~~~~~~~  746 (754)
                      ....++--|..|. ..+|+...||....-.|
T Consensus       735 ~~~~~~~~~~~~~~~~~~d~~y~~q~~~q~~  765 (846)
T PLN03097        735 AQDSLQQMDKLSSRAVALESYYGTQQSVQGM  765 (846)
T ss_pred             hhhhhhhHHhhhcccCCcccccccHHhhhHH
Confidence            1112333377888 68888888887766555

>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

>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

>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

>COG3328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]	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

>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

>PF01610 DDE_Tnp_ISL3: Transposase; InterPro: IPR002560 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

>PF06782 UPF0236: Uncharacterised protein family (UPF0236); InterPro: IPR009620 This is a group of proteins of unknown function	Back alignment and domain information

>PF13610 DDE_Tnp_IS240: DDE domain	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

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

>smart00774 WRKY DNA binding domain	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

>PRK08561 rps15p 30S ribosomal protein S15P; Reviewed	Back alignment and domain information

>COG5179 TAF1 Transcription initiation factor TFIID, subunit TAF1 [Transcription]	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		754
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-10
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-10
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-06

>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 = 63.7 bits (154), Expect = 2e-10
 Identities = 54/361 (14%), Positives = 103/361 (28%), Gaps = 126/361 (34%)

Query: 140 FSNVHNHELLKLNEV---RLLPAY---CSI--TPDDKTR-ICMFAKAGMSVRQMLRLMEL 190
            S  + + LL L  V   +   A+   C I  T    TR   +      +    + L   
Sbjct: 239 KSKPYENCLLVLLNVQNAKAWNAFNLSCKILLT----TRFKQVTDFLSAATTTHISLDHH 294

Query: 191 EKGVKLGCLPFTEIDVRNLLQSFRNVNRDYDAIDL-----------IAMCKKMKDKNPN- 238
                      T  +V++LL  + +        DL           +++  +        
Sbjct: 295 SMT-------LTPDEVKSLLLKYLDCRPQ----DLPREVLTTNPRRLSIIAESIRDGLAT 343

Query: 239 FQYDFKMDGHNRLEHIAWSYASSVQLYEAFGDALVFDTTHRLDSYDMLFGIWVGLDNHGM 298
           +   +K    ++L  I     SS+ +               L+  +              
Sbjct: 344 WDN-WKHVNCDKLTTI---IESSLNV---------------LEPAEYR------------ 372

Query: 299 ACFFGCVLLRDENMQSFSWSLKTLLGFMNGKAPQTLLTDQNIWLKEAVAVEMPETKHAVY 358
             F    +                    +   P  LL    IW     +  M        
Sbjct: 373 KMFDRLSVFPP-----------------SAHIPTILL--SLIWFDVIKSDVM-------- 405

Query: 359 IWHILAKLSDSLPTFLGSSYD-DWKAEFYRLYNL--ELEEDFEEEWS---KMVNKYGLRE 412
              ++ KL         S  +   K     + ++  EL+   E E++    +V+ Y + +
Sbjct: 406 --VVVNKLHKY------SLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPK 457

Query: 413 YKHITSLYALRTFWALPFLRHYFFAGL---LSPC-QSEAINAFIQRILSAQSQLD-RFVE 467
                 L         P+L  YF++ +   L      E +  F + +      LD RF+E
Sbjct: 458 TFDSDDL-------IPPYLDQYFYSHIGHHLKNIEHPERMTLF-RMVF-----LDFRFLE 504

Query: 468 R 468
           +
Sbjct: 505 Q 505

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

>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		754
2ayd_A		76	WRKY transcription factor 1; beta strands, zinc fi	95.36
1wj2_A		78	Probable WRKY transcription factor 4; DNA-binding	94.93
1a6b_B		40	Momulv, zinc finger protein NCP10; nucleocapsid pr	93.51
1u6p_A		56	GAG polyprotein; MLV, A-minor K-turn, stem loop, b	92.77
1nc8_A		29	Nucleocapsid protein; HIV-2, RNA recognition, zinc	92.13
1dsq_A		26	Nucleic acid binding protein P14; CCHC type zinc f	92.08
2ysa_A		55	Retinoblastoma-binding protein 6; zinc finger, CCH	87.75
2a51_A		39	Nucleocapsid protein; sivlhoest, structure, NCP8,	83.9
3alr_A		106	Nanos protein; zinc-finger, translational repressi	81.93
2ec7_A		49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	81.06

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

Probab=95.36  E-value=0.049  Score=42.75  Aligned_cols=58  Identities=17%  Similarity=0.417  Sum_probs=42.2

Q ss_pred             cCCeEEEcceeccCCCCcceEEEEEeecCCCCCCCCCCCccccccCCCcccccccceEEEEEeeeCCCCcEEEEeecCCc
Q 004429           65 CGFSIRRHRTRGKDGVGRGVTRRDFTCHRGGFPQMKPSDDGKMQRNRKSSRCGCQAYMRIVKRVDFDVPEWHVTGFSNVH  144 (754)
Q Consensus        65 ~GF~ir~~~s~~~~~~~k~~~~~~~~C~r~G~~~~~~~~~~~~~r~~~s~r~gCpa~i~v~~~~~~~~~~w~V~~~~~~H  144 (754)
                      -||.+|+--.+.-++.  ..-+.+|.|+.                      .||||+=.|.+..  .+....++....+|
T Consensus        16 DGy~WRKYGQK~ikgs--~~PRsYYrCt~----------------------~gC~a~K~Ver~~--~d~~~~~~tY~G~H   69 (76)
T 2ayd_A           16 DGYRWRKYGQKSVKGS--PYPRSYYRCSS----------------------PGCPVKKHVERSS--HDTKLLITTYEGKH   69 (76)
T ss_dssp             CSSCEEEEEEECCTTC--SSCEEEEEECS----------------------TTCCCEEEEEECS--SSTTEEEEEEESCC
T ss_pred             CCchhhhCcccccCCC--CCceeEeEcCC----------------------CCCCceeeEEEEC--CCCCEEEEEEccCc
Confidence            4788887655443332  23466788852                      3799999898864  45788899999999


Q ss_pred             cCCC
Q 004429          145 NHEL  148 (754)
Q Consensus       145 NH~l  148 (754)
                      ||++
T Consensus        70 ~H~~   73 (76)
T 2ayd_A           70 DHDM   73 (76)
T ss_dssp             SSCC
T ss_pred             CCCC
Confidence            9987

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

>1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A	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

>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}	Back alignment and structure

>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}	Back alignment and structure

>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1	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		754
d1wj2a_		71	WRKY DNA-binding protein 4 {Thale cress (Arabidops	95.39
d1nc8a_		29	HIV nucleocapsid {Human immunodeficiency virus typ	94.04
d1a6bb_		40	Zinc finger protein ncp10 {Moloney murine leukemia	92.93
d2exfa1		42	HIV nucleocapsid {Human immunodeficiency virus typ	92.7
d2exfa1		42	HIV nucleocapsid {Human immunodeficiency virus typ	84.39

>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=95.39  E-value=0.011  Score=43.68  Aligned_cols=58  Identities=24%  Similarity=0.433  Sum_probs=41.2

Q ss_pred             cCCeEEEcceeccCCCCcceEEEEEeecCCCCCCCCCCCccccccCCCcccccccceEEEEEeeeCCCCcEEEEeecCCc
Q 004429           65 CGFSIRRHRTRGKDGVGRGVTRRDFTCHRGGFPQMKPSDDGKMQRNRKSSRCGCQAYMRIVKRVDFDVPEWHVTGFSNVH  144 (754)
Q Consensus        65 ~GF~ir~~~s~~~~~~~k~~~~~~~~C~r~G~~~~~~~~~~~~~r~~~s~r~gCpa~i~v~~~~~~~~~~w~V~~~~~~H  144 (754)
                      =||.+|+--.+.-++.  ..-+-+|.|+.                      .||+|+=.|.+..  .++.-.++....+|
T Consensus        12 DGy~WRKYGQK~ikgs--~~pRsYYrCt~----------------------~~C~a~K~Vqr~~--~d~~~~~vtY~G~H   65 (71)
T d1wj2a_          12 DGYRWRKYGQKVVKGN--PYPRSYYKCTT----------------------PGCGVRKHVERAA--TDPKAVVTTYEGKH   65 (71)
T ss_dssp             SSSCBCCCEEECCTTC--SSCEEEEEEEC----------------------SSCEEEEEEEEET--TTTSEEEEEEESCC
T ss_pred             CCcEecccCceeccCC--CCceEEEEccc----------------------cCCCCcceEEEEc--CCCCEEEEEEeeEe
Confidence            3788777554433332  23466788954                      3699999998875  45778888899999


Q ss_pred             cCCC
Q 004429          145 NHEL  148 (754)
Q Consensus       145 NH~l  148 (754)
                      ||++
T Consensus        66 ~h~~   69 (71)
T d1wj2a_          66 NHDL   69 (71)
T ss_dssp             SSCC
T ss_pred             CCCC
Confidence            9976

PyMOL of d1wj2a_

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

>d1a6bb_ g.40.1.1 (B:) Zinc finger protein ncp10 {Moloney murine leukemia virus, MoMLV [TaxId: 11801]}	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

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