Citrus Sinensis ID: 007314

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Local Sequence Feature Prediction

Residue Number Marker
--------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-------61
Protein Sequence
MSNIDHIVDRIGLDISFDPASALPAGDDQHRKAAQQWENTITGVDQRFSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYRATRGWVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHMVDVLRGKMMETIYTRRVESNQWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTFEVRGESADIVDVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPVPNVDRPILDESTQELVTVTPPPTRRPPGRPKMKQPESAEIIKRSLQCSKCKGLGHNKKTCKDS
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccEEccHHHHHHHHHHHHHHccEEEEEEEEccEEEEEEEEccccccEEEEEEEccccEEEEEEEEccccccccccccccccccccHHHHHHHHHHcccccccccccHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHcccHHHHHHHccccccccEEEEEccccccccEEEEEEcccccccccccccEEEEccccccccccccEEEEEEEcccccEEEEEEEEEEccccccHHHHHHcccccccccccEEEEEccccccccccccccccccccccHHccHHHHHccccccccHHHHHHHHHHHHHHHHccccccccccHHHHcccccHHHHHHHHccccccccccccccccccccccccccccccccccccccEEEHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccEEEEEccccEEEEEccEEEEEEEEEEEEEcccccccccccHHHHHHHHHHHccccccccccccHHHHHHHHccEEEccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccEEEcccccEEEEccEcccHHHHHHHHHHHHHHcccEEEEEEccccEEEEEEEcccccEEEEEEEcccccEEEEEEEccccEcccccccccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHcccEEcHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHccccEEEEEcccccHHHHEEEEHHHHHHHHHHccccEEEEEccEEccccccEEEEEEEEcccccEEEEEEEEEcccccHHHHHHHHHHHHHHcccccEEEEEcccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcHHHHHHHHHccHHHHHHHcccccccccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHccEEEEEccccEEEEEEccEEEEEEcccEEcccccccccccHHHHHHHHHHccccHHHHHHHHccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccccccccccccc
Coil and Loop (DISEMBL)
MSNIDHIVDRigldisfdpasalpagddQHRKAAQQWENTITGVDQRFSSFSEFREALHKYSIAHGFAyrykkndshrvtvkckcqgcpwriyasrLSTTQLVCIKKmnskhtcegasvkagyratrGWVGNIIKEklkaspnykpkdiadDIKREYGIQLNYSQAWRAKEIAREQLqgsykdsytlLPFFCEkiketnpgsvvtfttkedssfhrLFVSFHASIsgfqqgcrpllfldttplnskyqGTLLtatsadgddgifPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYaaayapkfegfqcsiesikgispdaydwvtqsepehwantyfpgarydhmtsnfgQQFYSWVSeahelpitHMVDVLRGKMMETIYTRRVEsnqwltkltpskedkLQKETAIARSFQVLHLQsstfevrgesadivdvdrwdctcktwhltglpcchaIAVLEwigrspydycskyfttesyrmtysesiqpvpnvdrpildestqelvtvtppptrrppgrpkmkqpesAEIIKRSLqcskckglghnkktckds
Flexible Loop (DISEMBL)
MSNIDHIVDRIGLDISFDPASALPAGDDQHRKAAQQWENTITGVDQRFSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMnskhtcegasvkagyratrgwVGNIIkeklkaspnykpkDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKiketnpgsVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHMVDVLRGKMMETIYTRrvesnqwltkltpskedklQKETAIARSFQVlhlqsstfevrgesadivdVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPVPNVDRPILDEstqelvtvtppptrrppgrpkmkqpeSAEIIKrslqcskckglghnkktckds
Low Complexity Region (SEG)
MSNIDHIVDRIGLDISFDPASALPAGDDQHRKAAQQWENTITGVDQRFSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYRATRGWVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHMVDVLRGKMMETIYTRRVESNQWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTFEVRGESADIVDVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPVPNVDRPILDESTQELvtvtppptrrppgrpKMKQPESAEIIKRSLQCSKCKGLGHNKKTCKDS
Disordered region (IsUnstruct)
*****HIVDRIGLDISF*******************WENTITGVDQRFSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYRATRGWVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHMVDVLRGKMMETIYTRRVESNQWLTKL***********TAIARSFQVLHLQSSTFEVRGESADIVDVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSE********************************************************************
Disordered Region (DISOPRED)
******I*DRIGLDI******************AQQWENTITGVDQRFSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGAS*KAGYRATRGWVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHMVDVLRGKMMETIYTRRVESNQWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTFEVRGESADIVDVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPVPNVDRPILDESTQELVTVT*****************************KCKGLG*****C***
Disordered Region (DISEMBL)
MSNIDHIVDRIGLDISFDPASAL**********AQQWENTITGVDQRFSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYRATRGWVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHMVDVLRGKMMETIYTRRVESNQWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTFEVRGESADIVDVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPVPNVDRPILDESTQELVTVTPP*****************EIIKRSLQCSKCKGL**********
Disordered Region (DISPRO)
**********************L*A***QHRKAAQQWENTITGVDQRFSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYRATRGWVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHMVDVLRGKMMETIYTRRVESNQWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTFEVRGESADIVDVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPVPNVDRPILDESTQELVTVTPPPT*****************IKRSLQCSKCKG***********
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSNIDHIVDRIGLDISFDPASALPAGDDQHRKAAQQWENTITGVDQRFSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYRATRGWVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHMVDVLRGKMMETIYTRRVESNQWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTFEVRGESADIVDVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPVPNVDRPILDESTQELVTVTPPPTRRPPGRPKMKQPESAEIIKRSLQCSKCKGLGHNKKTCKDS
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	608	2.2.26 [Sep-21-2011]
Q9SSQ4	703	Protein FAR1-RELATED SEQU	no	no	0.536	0.463	0.203	1e-06

>sp|Q9SSQ4|FRS6_ARATH Protein FAR1-RELATED SEQUENCE 6 OS=Arabidopsis thaliana GN=FRS6 PE=2 SV=1

 Score = 55.8 bits (133), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 78/384 (20%), Positives = 152/384 (39%), Gaps = 58/384 (15%)

Query: 183 DSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLF-VSFHASISGFQQGCRPLLFLDTT 241
           DS  +  +FC +++ TNP         ++     +F     + +S    G   ++F+D++
Sbjct: 247 DSAAIYNYFC-RMQLTNPNFFYLMDVNDEGQLRNVFWADAFSKVSCSYFG--DVIFIDSS 303

Query: 242 PLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIAD 301
            ++ K++  L+T T  +       ++   +  ET +++HW L+   S +  S Q T + D
Sbjct: 304 YISGKFEIPLVTFTGVNHHGKTTLLSCGFLAGETMESYHWLLKVWLSVMKRSPQ-TIVTD 362

Query: 302 FQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEA-RRFMINDLYAAAYAPKFE 360
               L  ++++VF   +  + L H+  K+   + G  +++A R+     +Y      +FE
Sbjct: 363 RCKPLEAAISQVFPRSHQRFSLTHIMRKIPEKLGGLHNYDAVRKAFTKAVYETLKVVEFE 422

Query: 361 ---GFQCS----IES--IKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYS 411
              GF       IE+  ++ +  +   W     P +  +T+F G    H        F  
Sbjct: 423 AAWGFMVHNFGVIENEWLRSLYEERAKWA----PVYLKDTFFAGIAAAHPGETLKPFFER 478

Query: 412 WVSEAHELPITHMVDVLRGKMMETIYTRRVESNQWLTKLTPSKEDKLQKETAIAR----- 466
           +V +  + P+   +D     + +      +   +  T  T   + K   ET ++R     
Sbjct: 479 YVHK--QTPLKEFLDKYELALQKKHREETLSDIESQTLNTAELKTKCSFETQLSRIYTRD 536

Query: 467 ---SFQV-------------LHLQSSTF------EVRGESA--DIVD--------VDRWD 494
               FQ+             +H+            VRGES+  +I D        V    
Sbjct: 537 MFKKFQIEVEEMYSCFSTTQVHVDGPFVIFLVKERVRGESSRREIRDFEVLYNRSVGEVR 596

Query: 495 CTCKTWHLTGLPCCHAIAVLEWIG 518
           C C  ++  G  C HA+ VL + G
Sbjct: 597 CICSCFNFYGYLCRHALCVLNFNG 620

Putative transcription activator involved in regulating light control of development. May have a role in controlling flowering time.
Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	608
356548025	748	PREDICTED: uncharacterized protein LOC10	0.970	0.788	0.809	0.0
356565507	748	PREDICTED: uncharacterized protein LOC10	0.960	0.780	0.815	0.0
225432189	746	PREDICTED: uncharacterized protein LOC10	0.995	0.810	0.784	0.0
449485027	844	PREDICTED: LOW QUALITY PROTEIN: uncharac	0.988	0.712	0.809	0.0
449441646	850	PREDICTED: uncharacterized protein LOC10	0.988	0.707	0.809	0.0
147865779	1147	hypothetical protein VITISV_020810 [Viti	0.972	0.515	0.781	0.0
18087533	749	AT3g06940/F17A9_9 [Arabidopsis thaliana]	0.976	0.793	0.672	0.0
6729001	609	putative mudrA protein [Arabidopsis thal	0.976	0.975	0.672	0.0
225450448	768	PREDICTED: uncharacterized protein LOC10	0.958	0.759	0.699	0.0
224122824	580	predicted protein [Populus trichocarpa]	0.953	1.0	0.706	0.0

>gi|356548025|ref|XP_003542404.1| PREDICTED: uncharacterized protein LOC100776940 [Glycine max]

 Score = 1041 bits (2693), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 479/592 (80%), Positives = 529/592 (89%), Gaps = 2/592 (0%)

Query: 19  PASALPAG--DDQHRKAAQQWENTITGVDQRFSSFSEFREALHKYSIAHGFAYRYKKNDS 76
           PA ++ +G  DD HRKAAQQWENTITGVDQRF+SFSEFREALHKYSIAHGFAY+YKKNDS
Sbjct: 157 PARSICSGGNDDNHRKAAQQWENTITGVDQRFNSFSEFREALHKYSIAHGFAYKYKKNDS 216

Query: 77  HRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYRATRGWVGNIIKE 136
           HRVTVKCK QGCPWR+YAS+LSTTQL+CIKKM+  HTCEG+ VKAGYRATRGWVG+IIKE
Sbjct: 217 HRVTVKCKSQGCPWRVYASKLSTTQLICIKKMHCNHTCEGSVVKAGYRATRGWVGSIIKE 276

Query: 137 KLKASPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIK 196
           KLK SPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYK++YT LP FCEKIK
Sbjct: 277 KLKDSPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKEAYTQLPLFCEKIK 336

Query: 197 ETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATS 256
           ETNPGS  TFTTKEDSSFHRLFV+FHASISGFQ GCRPL+FLD TPLNSKYQG LL A S
Sbjct: 337 ETNPGSFATFTTKEDSSFHRLFVAFHASISGFQLGCRPLIFLDRTPLNSKYQGELLAAIS 396

Query: 257 ADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDN 316
            DG+DGIFPVAFAVVD ETEDNWHWFLQELK A STS+QITF+ADFQNGL KSL++VF+ 
Sbjct: 397 VDGNDGIFPVAFAVVDTETEDNWHWFLQELKLATSTSEQITFVADFQNGLKKSLSDVFEK 456

Query: 317 CYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIKGISPDA 376
           CYHSYCLRHLAEKLN+D+KGQFSHEARRFM+ND YAAAYAPK E F+ SIE+IKGISP+A
Sbjct: 457 CYHSYCLRHLAEKLNKDLKGQFSHEARRFMVNDFYAAAYAPKLETFERSIENIKGISPEA 516

Query: 377 YDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHMVDVLRGKMMETI 436
           YDWV QSEPEHWAN +F GARY+ ++SNFGQQFYSWVSEAHELPIT M+D LRGKMMETI
Sbjct: 517 YDWVIQSEPEHWANAFFNGARYNLLSSNFGQQFYSWVSEAHELPITQMIDALRGKMMETI 576

Query: 437 YTRRVESNQWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTFEVRGESADIVDVDRWDCT 496
           YTR+VESNQW+TKLTPSKE+ LQKE  +A S QVL  Q STFEVRGES DIVD+D WDC+
Sbjct: 577 YTRQVESNQWMTKLTPSKEELLQKERLVAHSLQVLFSQGSTFEVRGESVDIVDIDNWDCS 636

Query: 497 CKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPVPNVDRPILDES 556
           CK W LTG+PCCHAIAV E +GRSPYDYCS+YFT E+YR+TY+ESI PVPNVD+P +   
Sbjct: 637 CKGWQLTGVPCCHAIAVFECVGRSPYDYCSRYFTVENYRLTYAESIHPVPNVDKPPVQGE 696

Query: 557 TQELVTVTPPPTRRPPGRPKMKQPESAEIIKRSLQCSKCKGLGHNKKTCKDS 608
           +  LV V PPPT+RPPGRPKMKQ ES +IIKR LQCSKCKGLGHN+KTCK S
Sbjct: 697 STALVMVIPPPTKRPPGRPKMKQVESIDIIKRQLQCSKCKGLGHNRKTCKLS 748

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356565507|ref|XP_003550981.1| PREDICTED: uncharacterized protein LOC100809446 [Glycine max]

 Score = 1041 bits (2691), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 476/584 (81%), Positives = 525/584 (89%)

Query: 25  AGDDQHRKAAQQWENTITGVDQRFSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCK 84
             DD HRKAAQQWENTITGVDQRF+SFSEFREALHKYSIAHGFAY+YKKNDSHRVTVKCK
Sbjct: 165 GNDDNHRKAAQQWENTITGVDQRFNSFSEFREALHKYSIAHGFAYKYKKNDSHRVTVKCK 224

Query: 85  CQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYRATRGWVGNIIKEKLKASPNY 144
            QGCPWR+YASRLSTTQL+CIKKM+  HTCEG++VKAGYRATRGWVG+IIKEKLK SPNY
Sbjct: 225 SQGCPWRVYASRLSTTQLICIKKMHCDHTCEGSAVKAGYRATRGWVGSIIKEKLKDSPNY 284

Query: 145 KPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVV 204
           KPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSY ++YT LP FCEKIKETNPGS  
Sbjct: 285 KPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYIEAYTQLPLFCEKIKETNPGSFA 344

Query: 205 TFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIF 264
           TFTTKEDSSFHRLFV+FHAS SGFQ GCRPL+FLDTTPLNSKYQG LL AT+ DG+DGIF
Sbjct: 345 TFTTKEDSSFHRLFVAFHASTSGFQLGCRPLIFLDTTPLNSKYQGELLAATAVDGNDGIF 404

Query: 265 PVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDNCYHSYCLR 324
           PVAFAVVD ETEDNW WFLQELK A STS++ITF+ADFQNGL KSL++VF+ CYHSYCLR
Sbjct: 405 PVAFAVVDTETEDNWRWFLQELKLATSTSEKITFVADFQNGLKKSLSDVFEKCYHSYCLR 464

Query: 325 HLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIKGISPDAYDWVTQSE 384
           HLAEKLN+D+KGQFSHEARRFM+ND YAAAYAPK E F+ S+E+IKGISP+AYDWV QSE
Sbjct: 465 HLAEKLNKDLKGQFSHEARRFMVNDFYAAAYAPKLETFERSVENIKGISPEAYDWVIQSE 524

Query: 385 PEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHMVDVLRGKMMETIYTRRVESN 444
           PEHWAN +F GARY+ ++SNFGQQFYSWVSEAHELPIT M+D LRGKMMETIYTRRVESN
Sbjct: 525 PEHWANAFFNGARYNLLSSNFGQQFYSWVSEAHELPITQMIDALRGKMMETIYTRRVESN 584

Query: 445 QWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTFEVRGESADIVDVDRWDCTCKTWHLTG 504
           QW+TKLTPSKE+ LQKET +A S QVL  Q STFEVRGES DIVD+D WDC+CK W LTG
Sbjct: 585 QWMTKLTPSKEELLQKETLVAPSLQVLFSQGSTFEVRGESVDIVDIDNWDCSCKGWQLTG 644

Query: 505 LPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPVPNVDRPILDESTQELVTVT 564
           +PCCHAIAV E +GRSPYDYCS+YFT E+YR+TY+ESI PVPNVD+P +   +  LV VT
Sbjct: 645 VPCCHAIAVFECVGRSPYDYCSRYFTVENYRLTYAESIHPVPNVDKPPVQGESTSLVMVT 704

Query: 565 PPPTRRPPGRPKMKQPESAEIIKRSLQCSKCKGLGHNKKTCKDS 608
           PPPT+RPPGRPKMKQ ES +IIKR LQCSKCKGLGHN+KTCK S
Sbjct: 705 PPPTKRPPGRPKMKQVESIDIIKRQLQCSKCKGLGHNRKTCKLS 748

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225432189|ref|XP_002268620.1| PREDICTED: uncharacterized protein LOC100247698 [Vitis vinifera]

 Score = 1040 bits (2690), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 477/608 (78%), Positives = 538/608 (88%), Gaps = 3/608 (0%)

Query: 3   NIDHIVDRIGLDI---SFDPASALPAGDDQHRKAAQQWENTITGVDQRFSSFSEFREALH 59
           ++ H +D++ +D+   +    + + + DD+H+KAAQQWENTITGVDQRF+SF+EFREALH
Sbjct: 138 DMTHAIDKVDMDMANYTHSDNAPVISNDDKHQKAAQQWENTITGVDQRFNSFNEFREALH 197

Query: 60  KYSIAHGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASV 119
           KYSIAHGFAY+YKKNDSHRVTVKCK QGCPWRIYASRLSTTQL+CIKKM++ HTCEGA V
Sbjct: 198 KYSIAHGFAYKYKKNDSHRVTVKCKSQGCPWRIYASRLSTTQLICIKKMHTTHTCEGAIV 257

Query: 120 KAGYRATRGWVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQG 179
           KAGYRATRGWVG IIKEKLK SPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQG
Sbjct: 258 KAGYRATRGWVGTIIKEKLKVSPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQG 317

Query: 180 SYKDSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLD 239
           SYK++Y+ LPFFCEKIKETNPGS  TF TKEDSSFHRLF+SFHA+ISGFQQGCRPLLFLD
Sbjct: 318 SYKEAYSQLPFFCEKIKETNPGSFATFETKEDSSFHRLFISFHAAISGFQQGCRPLLFLD 377

Query: 240 TTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFI 299
           +TPLNSKYQG LLTAT+ADGDDG+FPVAFAVVDAET+DNW WFL ELKSAVST++ ITF+
Sbjct: 378 STPLNSKYQGMLLTATAADGDDGVFPVAFAVVDAETDDNWSWFLLELKSAVSTARPITFV 437

Query: 300 ADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKF 359
           ADFQ GL KSLAE+FDN YHSYCLR+L EKLN+D+KGQFSHEARRFMIND YAAAYA + 
Sbjct: 438 ADFQKGLKKSLAEIFDNGYHSYCLRYLTEKLNKDLKGQFSHEARRFMINDFYAAAYASRL 497

Query: 360 EGFQCSIESIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHEL 419
           E FQ   E+IKGISP+AY+WV QSEP+HW+N +F GARY HM SNFGQ FY+WVSEA++L
Sbjct: 498 ETFQRCTENIKGISPEAYNWVIQSEPDHWSNAFFGGARYSHMASNFGQLFYNWVSEANDL 557

Query: 420 PITHMVDVLRGKMMETIYTRRVESNQWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTFE 479
           PIT MVDVLRGKMME IY RRV+S+QW+TKLTPSKE+KL K+T+ ARS QVL    STFE
Sbjct: 558 PITQMVDVLRGKMMELIYKRRVDSSQWITKLTPSKEEKLLKDTSTARSLQVLLSHGSTFE 617

Query: 480 VRGESADIVDVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYS 539
           VRGES DIVD+D WDC+CK W L+GLPCCHAIAV EWIGR+PYDYCS+YFT ESYR+TY+
Sbjct: 618 VRGESIDIVDIDHWDCSCKDWQLSGLPCCHAIAVFEWIGRNPYDYCSRYFTVESYRLTYA 677

Query: 540 ESIQPVPNVDRPILDESTQELVTVTPPPTRRPPGRPKMKQPESAEIIKRSLQCSKCKGLG 599
           ESI PVPNVDRP+  ESTQ  + VTPPPT+RPPGRPKMKQ  S E IKR LQCSKCKGLG
Sbjct: 678 ESIHPVPNVDRPVKTESTQVGIIVTPPPTKRPPGRPKMKQAGSVETIKRQLQCSKCKGLG 737

Query: 600 HNKKTCKD 607
           HNKKTCKD
Sbjct: 738 HNKKTCKD 745

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449485027|ref|XP_004157051.1| PREDICTED: LOW QUALITY PROTEIN: uncharacterized protein LOC101228329 [Cucumis sativus]

 Score = 1019 bits (2634), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 489/604 (80%), Positives = 537/604 (88%), Gaps = 3/604 (0%)

Query: 8   VDRIGLDISFD-PASALPAG--DDQHRKAAQQWENTITGVDQRFSSFSEFREALHKYSIA 64
           +D+IG+DIS + P   +PAG  D++HRKAAQQWEN I GVDQRF+SFSEFREALHKYSIA
Sbjct: 241 MDQIGMDISSEVPLICVPAGSSDEKHRKAAQQWENAIIGVDQRFNSFSEFREALHKYSIA 300

Query: 65  HGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYR 124
           HGFAYRYKKNDSHRVTVKCK QGCPWRIYASRLSTTQL+CIKKMN+ H+CEGA+ KAGYR
Sbjct: 301 HGFAYRYKKNDSHRVTVKCKYQGCPWRIYASRLSTTQLICIKKMNTHHSCEGAAAKAGYR 360

Query: 125 ATRGWVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDS 184
           ATRGWVGNIIKEKLK SPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYK++
Sbjct: 361 ATRGWVGNIIKEKLKVSPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKEA 420

Query: 185 YTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLN 244
           Y  LP+FCEKIKETNPGSV +FTTK+DSSFHRLFVSFHASISGFQQGCRPLLFLD+TPLN
Sbjct: 421 YNQLPYFCEKIKETNPGSVASFTTKDDSSFHRLFVSFHASISGFQQGCRPLLFLDSTPLN 480

Query: 245 SKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQN 304
           SKYQG  L AT+ DG+D IFP AFAVVDAETE+NWHWFL ELKSAV  S+QITF+ADFQN
Sbjct: 481 SKYQGFFLXATAVDGEDAIFPAAFAVVDAETEENWHWFLLELKSAVKRSEQITFVADFQN 540

Query: 305 GLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQC 364
           GLNKSL E+FD  YHSYCLRHLAEKLN D+KGQFSHEARRFMIND YAAA A K E FQ 
Sbjct: 541 GLNKSLGEIFDKSYHSYCLRHLAEKLNNDLKGQFSHEARRFMINDFYAAALATKLEDFQR 600

Query: 365 SIESIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHM 424
             ESIKGISPDAY+W+ QSEPEHWAN +F GARY+H+TSNFGQQFYS +SEAHELPIT M
Sbjct: 601 CAESIKGISPDAYNWIIQSEPEHWANAFFGGARYNHITSNFGQQFYSSISEAHELPITQM 660

Query: 425 VDVLRGKMMETIYTRRVESNQWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTFEVRGES 484
           +DVLRGKMMETIY+RRVES+QW+TKLTP+ E+KLQKE +IARSFQV     + FEVRGES
Sbjct: 661 IDVLRGKMMETIYSRRVESDQWVTKLTPTNEEKLQKEISIARSFQVSLSHGNIFEVRGES 720

Query: 485 ADIVDVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQP 544
              VDVD WDC+CK W LTGLPCCHAIAV+E IGRSPYDYC +YFT ESYR+TY+ESI P
Sbjct: 721 VYSVDVDNWDCSCKAWQLTGLPCCHAIAVIECIGRSPYDYCPRYFTVESYRLTYAESIHP 780

Query: 545 VPNVDRPILDESTQELVTVTPPPTRRPPGRPKMKQPESAEIIKRSLQCSKCKGLGHNKKT 604
           +PNVDR IL ESTQ +VTVTPPPTRRPPGRPKMKQ ES E++KR LQCSKCK LGHNKKT
Sbjct: 781 IPNVDRLILGESTQAIVTVTPPPTRRPPGRPKMKQNESLEVVKRQLQCSKCKALGHNKKT 840

Query: 605 CKDS 608
           CKDS
Sbjct: 841 CKDS 844

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449441646|ref|XP_004138593.1| PREDICTED: uncharacterized protein LOC101203713 [Cucumis sativus]

 Score = 1018 bits (2631), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 489/604 (80%), Positives = 537/604 (88%), Gaps = 3/604 (0%)

Query: 8   VDRIGLDISFD-PASALPAG--DDQHRKAAQQWENTITGVDQRFSSFSEFREALHKYSIA 64
           +D+IG+DIS + P   +PAG  D++HRKAAQQWEN I GVDQRF+SFSEFREALHKYSIA
Sbjct: 247 MDQIGMDISSEVPLICVPAGSSDEKHRKAAQQWENAIIGVDQRFNSFSEFREALHKYSIA 306

Query: 65  HGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYR 124
           HGFAYRYKKNDSHRVTVKCK QGCPWRIYASRLSTTQL+CIKKMN+ H+CEGA+ KAGYR
Sbjct: 307 HGFAYRYKKNDSHRVTVKCKYQGCPWRIYASRLSTTQLICIKKMNTHHSCEGAAAKAGYR 366

Query: 125 ATRGWVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDS 184
           ATRGWVGNIIKEKLK SPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYK++
Sbjct: 367 ATRGWVGNIIKEKLKVSPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKEA 426

Query: 185 YTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLN 244
           Y  LP+FCEKIKETNPGSV +FTTK+DSSFHRLFVSFHASISGFQQGCRPLLFLD+TPLN
Sbjct: 427 YNQLPYFCEKIKETNPGSVASFTTKDDSSFHRLFVSFHASISGFQQGCRPLLFLDSTPLN 486

Query: 245 SKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQN 304
           SKYQG   TAT+ DG+D IFP AFAVVDAETE+NWHWFL ELKSAV  S+QITF+ADFQN
Sbjct: 487 SKYQGFFFTATAVDGEDAIFPAAFAVVDAETEENWHWFLLELKSAVKRSEQITFVADFQN 546

Query: 305 GLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQC 364
           GLNKSL E+FD  YHSYCLRHLAEKLN D+KGQFSHEARRFMIND YAAA A K E FQ 
Sbjct: 547 GLNKSLGEIFDKSYHSYCLRHLAEKLNNDLKGQFSHEARRFMINDFYAAALATKLEDFQR 606

Query: 365 SIESIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHM 424
             ESIKGISPDAY+W+ QSEPEHWAN +F GARY+H+TSNFGQQFYS +SEAHELPIT M
Sbjct: 607 CAESIKGISPDAYNWIIQSEPEHWANAFFGGARYNHITSNFGQQFYSSISEAHELPITQM 666

Query: 425 VDVLRGKMMETIYTRRVESNQWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTFEVRGES 484
           +DVLRGKMMETIY+RRVES+QW+TKLTP+ E+KLQKE +IARSFQV     + FEVRGES
Sbjct: 667 IDVLRGKMMETIYSRRVESDQWVTKLTPTNEEKLQKEISIARSFQVSLSHGNIFEVRGES 726

Query: 485 ADIVDVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQP 544
              VDVD WDC+CK W LTGLPCCHAIAV+E IGRSPYDYC +YFT ESYR+TY+ESI P
Sbjct: 727 VYSVDVDNWDCSCKAWQLTGLPCCHAIAVIECIGRSPYDYCPRYFTVESYRLTYAESIHP 786

Query: 545 VPNVDRPILDESTQELVTVTPPPTRRPPGRPKMKQPESAEIIKRSLQCSKCKGLGHNKKT 604
           +PNVDR IL ESTQ +VTVTPPPTRRPPGRPKMKQ ES E++KR LQCSKCK LGHNKKT
Sbjct: 787 IPNVDRLILGESTQAIVTVTPPPTRRPPGRPKMKQNESLEVVKRQLQCSKCKALGHNKKT 846

Query: 605 CKDS 608
           CKDS
Sbjct: 847 CKDS 850

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147865779|emb|CAN81145.1| hypothetical protein VITISV_020810 [Vitis vinifera]

 Score = 1015 bits (2625), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 466/596 (78%), Positives = 525/596 (88%), Gaps = 5/596 (0%)

Query: 3   NIDHIVDRIGLDIS----FDPASALPAGDDQHRKAAQQWENTITGVDQRFSSFSEFREAL 58
           ++ H +D++ +D++     D A  + + DD+H+KAAQQWENTITGVDQRF+SF+EFREAL
Sbjct: 156 DMTHAIDKVDMDMANYTHSDNAPVI-SNDDKHQKAAQQWENTITGVDQRFNSFNEFREAL 214

Query: 59  HKYSIAHGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGAS 118
           HKYSIAHGFAY+YKKNDSHRVTVKCK QGCPWRIYASRLSTTQL+CIKKM++ HTCEGA 
Sbjct: 215 HKYSIAHGFAYKYKKNDSHRVTVKCKSQGCPWRIYASRLSTTQLICIKKMHTTHTCEGAI 274

Query: 119 VKAGYRATRGWVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQ 178
           VKAGYRATRGWVG IIKEKLK SPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQ
Sbjct: 275 VKAGYRATRGWVGTIIKEKLKVSPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQ 334

Query: 179 GSYKDSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFL 238
           GSYK++Y+ LPFFCEKIKETNPGS  TF TKEDSSFHRLF+SFHA+ISGFQQGCRPLLFL
Sbjct: 335 GSYKEAYSQLPFFCEKIKETNPGSFATFETKEDSSFHRLFISFHAAISGFQQGCRPLLFL 394

Query: 239 DTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITF 298
           D+TPLNSKYQG LLTAT+ADGDDG+FPVAFAVVDAET+DNW WFL ELKSAVST++ ITF
Sbjct: 395 DSTPLNSKYQGMLLTATAADGDDGVFPVAFAVVDAETDDNWSWFLLELKSAVSTARPITF 454

Query: 299 IADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPK 358
           +ADFQ GL KSLAE+FDN YHSYCLR+L EKLN+D+KGQFSHEARRFMIND YAAAYA +
Sbjct: 455 VADFQKGLKKSLAEIFDNGYHSYCLRYLTEKLNKDLKGQFSHEARRFMINDFYAAAYASR 514

Query: 359 FEGFQCSIESIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHE 418
            E FQ   E+IKGISP+AY+WV QSEP+HW+N +F GARY HM SNFGQ FY+WVSEA++
Sbjct: 515 LETFQRCTENIKGISPEAYNWVIQSEPDHWSNAFFGGARYSHMASNFGQLFYNWVSEAND 574

Query: 419 LPITHMVDVLRGKMMETIYTRRVESNQWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTF 478
           LPIT MVDVLRGKMME IY RRV+S+QW+TKLTPSKE+KL K+T+ ARS QVL    STF
Sbjct: 575 LPITQMVDVLRGKMMELIYKRRVDSSQWITKLTPSKEEKLLKDTSTARSLQVLLSHGSTF 634

Query: 479 EVRGESADIVDVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTY 538
           EVRGES DIVD+D WDC+CK W L+GLPCCHAIAV EWIGR+PYDYCS+YFT ESYR+TY
Sbjct: 635 EVRGESIDIVDIDHWDCSCKDWQLSGLPCCHAIAVFEWIGRNPYDYCSRYFTVESYRLTY 694

Query: 539 SESIQPVPNVDRPILDESTQELVTVTPPPTRRPPGRPKMKQPESAEIIKRSLQCSK 594
           +ESI PVPNVDRP+  ESTQ    VTPPPT+RPPGRPKMKQ  S E IKR LQCSK
Sbjct: 695 AESIHPVPNVDRPVKTESTQVGXIVTPPPTKRPPGRPKMKQAGSXETIKRQLQCSK 750

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18087533|gb|AAL58900.1|AF462806_1 AT3g06940/F17A9_9 [Arabidopsis thaliana] gi|17380908|gb|AAL36266.1| putative mudrA protein [Arabidopsis thaliana] gi|20855902|gb|AAM26637.1| AT3g06940/F17A9_9 [Arabidopsis thaliana] gi|28393919|gb|AAO42367.1| putative mudrA protein [Arabidopsis thaliana]

 Score =  878 bits (2268), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 404/601 (67%), Positives = 491/601 (81%), Gaps = 7/601 (1%)

Query: 13  LDISFDPASALPAG----DDQHRKAAQQWENTITGVDQRFSSFSEFREALHKYSIAHGFA 68
           ++++    S LP      D +H  A QQWEN ITGVDQRF++F EFR+ALHKYS+AHGFA
Sbjct: 147 IEMAMPDDSPLPCNFVLVDQRHHTAIQQWENVITGVDQRFNTFLEFRDALHKYSVAHGFA 206

Query: 69  YRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYRATRG 128
           Y+YKKNDSHRV+VKCK QGCPWRI ASRLSTTQL+CIKKMN +HTCE A +K GYRATRG
Sbjct: 207 YKYKKNDSHRVSVKCKAQGCPWRITASRLSTTQLICIKKMNPRHTCERAVIKPGYRATRG 266

Query: 129 WVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLL 188
           WV  I+KEKLKA P+YKPKDIA+DIK+EYGIQLNYSQAWRAKEIAREQLQGSYK++Y+ L
Sbjct: 267 WVRTILKEKLKAFPDYKPKDIAEDIKKEYGIQLNYSQAWRAKEIAREQLQGSYKEAYSQL 326

Query: 189 PFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQ 248
           P  CEKIKETNPGS+ TF TKEDSSFHRLF+SF+ASISGF+QG RPLLFLD   LNSKYQ
Sbjct: 327 PLICEKIKETNPGSIATFMTKEDSSFHRLFISFYASISGFKQGSRPLLFLDNAILNSKYQ 386

Query: 249 GTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNK 308
           G +L AT++D +DGIFPVAFA+VD+ETE+NW WFL++LK+A+S S+ ITF+ADFQNGL  
Sbjct: 387 GVMLVATASDAEDGIFPVAFAIVDSETEENWLWFLEQLKTALSESRIITFVADFQNGLKN 446

Query: 309 SLAEVFD-NCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIE 367
           ++A+VF+ + +H+YCL  LAEKLN D+KGQFSHEARR+M+ND Y+ AYA    G+  ++E
Sbjct: 447 AIAQVFEKDAHHAYCLGQLAEKLNVDLKGQFSHEARRYMLNDFYSVAYATTPVGYYLALE 506

Query: 368 SIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHMVDV 427
           +IK ISPDAY+WV +SEP HWAN  F G RY+ M SNFG+ FYSWVSEAHE PIT M+D 
Sbjct: 507 NIKSISPDAYNWVIESEPHHWANALFQGERYNKMNSNFGKDFYSWVSEAHEFPITQMIDE 566

Query: 428 LRGKMMETIYTRRVESNQWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTFEVRG--ESA 485
            R KMM++IYTR+V+S +W+T LTPS E+KLQKE  +A+  QV   + S F+V G   S 
Sbjct: 567 FRAKMMQSIYTRQVKSREWVTTLTPSNEEKLQKEIELAQLLQVSSPEGSLFQVNGGESSV 626

Query: 486 DIVDVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPV 545
            IVD+++ DC CKTW LTGLPC HAIAV+  I +SPY+YCS Y T ES+R+ Y+ESIQPV
Sbjct: 627 SIVDINQCDCDCKTWRLTGLPCSHAIAVIGCIEKSPYEYCSTYLTVESHRLMYAESIQPV 686

Query: 546 PNVDRPILDESTQELVTVTPPPTRRPPGRPKMKQPESAEIIKRSLQCSKCKGLGHNKKTC 605
           PN+DR +LD+  + LV VTPPPTRR PGRPK+K+ E  +++KR LQCSKCKGLGHNKKTC
Sbjct: 687 PNMDRMMLDDPPEGLVCVTPPPTRRTPGRPKIKKVEPLDMMKRQLQCSKCKGLGHNKKTC 746

Query: 606 K 606
           K
Sbjct: 747 K 747

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|6729001|gb|AAF26998.1|AC016827_9 putative mudrA protein [Arabidopsis thaliana]

 Score =  874 bits (2259), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 404/601 (67%), Positives = 491/601 (81%), Gaps = 7/601 (1%)

Query: 13  LDISFDPASALPAG----DDQHRKAAQQWENTITGVDQRFSSFSEFREALHKYSIAHGFA 68
           ++++    S LP      D +H  A QQWEN ITGVDQRF++F EFR+ALHKYS+AHGFA
Sbjct: 7   IEMAMPDDSPLPCNFVLVDQRHHTAIQQWENVITGVDQRFNTFLEFRDALHKYSVAHGFA 66

Query: 69  YRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYRATRG 128
           Y+YKKNDSHRV+VKCK QGCPWRI ASRLSTTQL+CIKKMN +HTCE A +K GYRATRG
Sbjct: 67  YKYKKNDSHRVSVKCKAQGCPWRITASRLSTTQLICIKKMNPRHTCERAVIKPGYRATRG 126

Query: 129 WVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLL 188
           WV  I+KEKLKA P+YKPKDIA+DIK+EYGIQLNYSQAWRAKEIAREQLQGSYK++Y+ L
Sbjct: 127 WVRTILKEKLKAFPDYKPKDIAEDIKKEYGIQLNYSQAWRAKEIAREQLQGSYKEAYSQL 186

Query: 189 PFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQ 248
           P  CEKIKETNPGS+ TF TKEDSSFHRLF+SF+ASISGF+QG RPLLFLD   LNSKYQ
Sbjct: 187 PLICEKIKETNPGSIATFMTKEDSSFHRLFISFYASISGFKQGSRPLLFLDNAILNSKYQ 246

Query: 249 GTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNK 308
           G +L AT++D +DGIFPVAFA+VD+ETE+NW WFL++LK+A+S S+ ITF+ADFQNGL  
Sbjct: 247 GVMLVATASDAEDGIFPVAFAIVDSETEENWLWFLEQLKTALSESRIITFVADFQNGLKN 306

Query: 309 SLAEVFD-NCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIE 367
           ++A+VF+ + +H+YCL  LAEKLN D+KGQFSHEARR+M+ND Y+ AYA    G+  ++E
Sbjct: 307 AIAQVFEKDAHHAYCLGQLAEKLNVDLKGQFSHEARRYMLNDFYSVAYATTPVGYYLALE 366

Query: 368 SIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHMVDV 427
           +IK ISPDAY+WV +SEP HWAN  F G RY+ M SNFG+ FYSWVSEAHE PIT M+D 
Sbjct: 367 NIKSISPDAYNWVIESEPHHWANALFQGERYNKMNSNFGKDFYSWVSEAHEFPITQMIDE 426

Query: 428 LRGKMMETIYTRRVESNQWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTFEVRG--ESA 485
            R KMM++IYTR+V+S +W+T LTPS E+KLQKE  +A+  QV   + S F+V G   S 
Sbjct: 427 FRAKMMQSIYTRQVKSREWVTTLTPSNEEKLQKEIELAQLLQVSSPEGSLFQVNGGESSV 486

Query: 486 DIVDVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPV 545
            IVD+++ DC CKTW LTGLPC HAIAV+  I +SPY+YCS Y T ES+R+ Y+ESIQPV
Sbjct: 487 SIVDINQCDCDCKTWRLTGLPCSHAIAVIGCIEKSPYEYCSTYLTVESHRLMYAESIQPV 546

Query: 546 PNVDRPILDESTQELVTVTPPPTRRPPGRPKMKQPESAEIIKRSLQCSKCKGLGHNKKTC 605
           PN+DR +LD+  + LV VTPPPTRR PGRPK+K+ E  +++KR LQCSKCKGLGHNKKTC
Sbjct: 547 PNMDRMMLDDPPEGLVCVTPPPTRRTPGRPKIKKVEPLDMMKRQLQCSKCKGLGHNKKTC 606

Query: 606 K 606
           K
Sbjct: 607 K 607

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225450448|ref|XP_002276424.1| PREDICTED: uncharacterized protein LOC100251030 [Vitis vinifera]

 Score =  868 bits (2242), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 408/583 (69%), Positives = 490/583 (84%)

Query: 25  AGDDQHRKAAQQWENTITGVDQRFSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCK 84
           + +++H KAAQQW+NTITGV QRFS   EFREAL KY+IAH FA+RYKKNDSHRVTVKCK
Sbjct: 184 SNEEKHVKAAQQWQNTITGVGQRFSGVHEFREALRKYAIAHQFAFRYKKNDSHRVTVKCK 243

Query: 85  CQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYRATRGWVGNIIKEKLKASPNY 144
            +GCPWRI+ASRLSTTQL+CIKKMN+ HTCEGA V  GY+ATR WV +II +KLK  PNY
Sbjct: 244 AEGCPWRIHASRLSTTQLICIKKMNATHTCEGAVVTTGYQATRSWVASIIMDKLKVFPNY 303

Query: 145 KPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVV 204
           KPKDI +DIK+EYGIQLNY QAWR KEIA+EQLQGSYK++Y+ LPFFCEKI ETNPGS  
Sbjct: 304 KPKDIVNDIKQEYGIQLNYFQAWRGKEIAKEQLQGSYKEAYSQLPFFCEKIMETNPGSFA 363

Query: 205 TFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIF 264
           TFTTKEDSSFHRLFVSFHAS+ GFQQGCRPLLFLD+  L SKYQGTLL AT+ADGDDG+F
Sbjct: 364 TFTTKEDSSFHRLFVSFHASLYGFQQGCRPLLFLDSISLKSKYQGTLLAATAADGDDGVF 423

Query: 265 PVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDNCYHSYCLR 324
           PVAF+VVDAET+DNWHWFL +LKSA+ TS+ ITF+AD + GL +S+AE+F   +H YCLR
Sbjct: 424 PVAFSVVDAETDDNWHWFLLQLKSALPTSRPITFVADREKGLRESIAEIFQGSFHGYCLR 483

Query: 325 HLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIKGISPDAYDWVTQSE 384
           +L E+L +D+KGQFSHE +R M+ D YAAAYAP+ E FQ  +E+IK IS +AY+W+ QSE
Sbjct: 484 YLTEQLLKDLKGQFSHEVKRLMVEDFYAAAYAPRPESFQRCLETIKSISLEAYNWLIQSE 543

Query: 385 PEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHMVDVLRGKMMETIYTRRVESN 444
           P +WAN +F  ARY+HM SNFG+ FYSW SEAHELPIT MVDV+RGK+ME  +TRR +SN
Sbjct: 544 PMNWANAFFQSARYNHMASNFGELFYSWASEAHELPITQMVDVIRGKIMELFFTRRTDSN 603

Query: 445 QWLTKLTPSKEDKLQKETAIARSFQVLHLQSSTFEVRGESADIVDVDRWDCTCKTWHLTG 504
           QW+T+LTPS E+KL+KET   R  QVL    +TFEVRG++ ++VD+D WDC+CK W LTG
Sbjct: 604 QWMTRLTPSMEEKLEKETVKVRPLQVLLSGGNTFEVRGDTIEVVDIDHWDCSCKGWQLTG 663

Query: 505 LPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPVPNVDRPILDESTQELVTVT 564
           LPCCHAIAV+  IG+SPY+YCS+YFTTESYR+TYSES+ P+PNVDRP+  +S+   VTVT
Sbjct: 664 LPCCHAIAVISCIGQSPYEYCSRYFTTESYRLTYSESVHPIPNVDRPMEKDSSLVAVTVT 723

Query: 565 PPPTRRPPGRPKMKQPESAEIIKRSLQCSKCKGLGHNKKTCKD 607
           PPPTRRPPGRP  K+  S E++KR LQCS+CKG+GHNK TCK+
Sbjct: 724 PPPTRRPPGRPTTKRFGSQEVVKRQLQCSRCKGVGHNKSTCKE 766

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122824|ref|XP_002318925.1| predicted protein [Populus trichocarpa] gi|222857301|gb|EEE94848.1| predicted protein [Populus trichocarpa]

 Score =  858 bits (2217), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 410/580 (70%), Positives = 488/580 (84%)

Query: 27  DDQHRKAAQQWENTITGVDQRFSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCKCQ 86
           D++H K AQQW+NTITGV QRFSS  EFRE+L KY+IAH FA+RYKKNDSHRVTVKCK +
Sbjct: 1   DEKHAKGAQQWQNTITGVGQRFSSVHEFRESLRKYAIAHQFAFRYKKNDSHRVTVKCKAE 60

Query: 87  GCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYRATRGWVGNIIKEKLKASPNYKP 146
           GCPWRI+ASRLSTTQL+CIKKMN  HTCEG+ V  G++ATR WV +IIKEKLK  PNYKP
Sbjct: 61  GCPWRIHASRLSTTQLICIKKMNPTHTCEGSVVTTGHQATRSWVASIIKEKLKVFPNYKP 120

Query: 147 KDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTF 206
           KDI +DIK EYGIQLNY QAWR KEIA+EQLQGSYK++Y  LPFFC+KI ETNPGS+ TF
Sbjct: 121 KDIVNDIKHEYGIQLNYFQAWRGKEIAKEQLQGSYKEAYNQLPFFCDKIMETNPGSLATF 180

Query: 207 TTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPV 266
           TTK+DSSF RLFVSFHAS+ GF QGCRPLLFLD+ PLNSKYQGTLL AT+ADG+D +FPV
Sbjct: 181 TTKDDSSFERLFVSFHASLYGFVQGCRPLLFLDSLPLNSKYQGTLLAATAADGNDSVFPV 240

Query: 267 AFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDNCYHSYCLRHL 326
           AFA+VDAET DNWHWFL ++K+A+STS  ITF+AD   GL +S+AE+F   +H YCLR+L
Sbjct: 241 AFALVDAETNDNWHWFLLQMKTALSTSCPITFVADKLKGLKESIAEIFKGSFHGYCLRYL 300

Query: 327 AEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIKGISPDAYDWVTQSEPE 386
           +E+L +D+KGQFSHE +R MI DL AAAYA + E FQ  +ESIK IS +AY+W+ QSEP+
Sbjct: 301 SEQLIQDLKGQFSHEVKRLMIEDLNAAAYACRPEIFQRCMESIKSISLEAYNWILQSEPQ 360

Query: 387 HWANTYFPGARYDHMTSNFGQQFYSWVSEAHELPITHMVDVLRGKMMETIYTRRVESNQW 446
            WAN++F GARY++MTSNFG+ FYSWVS+AHELPIT MVDV+RGK+ME IYTRR +SNQW
Sbjct: 361 SWANSFFQGARYNYMTSNFGEMFYSWVSDAHELPITQMVDVIRGKIMELIYTRRADSNQW 420

Query: 447 LTKLTPSKEDKLQKETAIARSFQVLHLQSSTFEVRGESADIVDVDRWDCTCKTWHLTGLP 506
           LT+LTPS E+KL+KE+    S QVL    S FEVRGES ++VD+DRWDC+CK W L+GLP
Sbjct: 421 LTRLTPSAEEKLEKESLKVHSLQVLLSAGSIFEVRGESVEVVDIDRWDCSCKDWQLSGLP 480

Query: 507 CCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPVPNVDRPILDESTQELVTVTPP 566
           CCHA+AV+  IGRSPYDYCS+YFTTESYR+TYSES+ PVPNVD P+  +S+Q  VTVTPP
Sbjct: 481 CCHALAVIGCIGRSPYDYCSRYFTTESYRLTYSESVHPVPNVDMPLEKDSSQVAVTVTPP 540

Query: 567 PTRRPPGRPKMKQPESAEIIKRSLQCSKCKGLGHNKKTCK 606
           PTRRPPGRP  K+    +++KR LQCS+CKGLGHNK TCK
Sbjct: 541 PTRRPPGRPTTKKYGQQDVVKRQLQCSRCKGLGHNKSTCK 580

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	608
TAIR|locus:2014230	719	AT1G64260 "AT1G64260" [Arabido	0.796	0.673	0.254	3.5e-36
TAIR|locus:2197122	785	AT1G49920 "AT1G49920" [Arabido	0.565	0.438	0.263	4.9e-35
TAIR|locus:1006230722	750	AT1G64255 [Arabidopsis thalian	0.733	0.594	0.267	1.9e-30
TAIR|locus:2035144	703	FRS6 "FAR1-related sequence 6"	0.453	0.392	0.195	1.6e-07
TAIR|locus:2121060	788	FRS5 "FAR1-related sequence 5"	0.439	0.338	0.190	0.0001
TAIR|locus:2014639	732	FRS4 "FAR1-related sequence 4"	0.485	0.403	0.198	0.00016

TAIR|locus:2014230 AT1G64260 "AT1G64260" [Arabidopsis thaliana (taxid:3702)]

 Score = 411 (149.7 bits), Expect = 3.5e-36, P = 3.5e-36
 Identities = 133/523 (25%), Positives = 233/523 (44%)

Query:    48 FSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKK 107
             F    E ++A+  + I        ++ +    T +C    C W + A+R+    LV I K
Sbjct:   191 FKDRDELKKAVDWWCIRRRRNCIVRETEKEMYTFECVRWKCKWSLRAARMEEHGLVEITK 250

Query:   108 MNSKHTCEGASVKAGYRATRGWVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNYSQAW 167
                 HTC        + +   +  + I+  ++  P     ++    K + G +L  S+  
Sbjct:   251 YTGPHTCSH-EYPNDFESE--FAADEIERVVRIQPTLSIAELKKWWKEKTGYELQTSKMR 307

Query:   168 RAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVT-----FTTKEDSSFHRLFVSFH 222
               K    +++ G    S+ ++P        +N G +V      F   + +SF  +F SF 
Sbjct:   308 DGKLEVIKRVFGDEDQSFRVMPKLISAFHSSN-GLLVDWQYDLFPNPDFASFRGVFWSFS 366

Query:   223 ASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWF 282
              SI GFQ  CRPL+ +DT  LN KYQ  L+ A+  D  +  FP+AFAV    + D+W WF
Sbjct:   367 QSIEGFQH-CRPLIVVDTKSLNGKYQLKLMIASGVDAANKFFPLAFAVTKEVSTDSWRWF 425

Query:   283 LQELKSAVSTSQQITFIA----DFQNGLNKSLAEVFDN--CYHSYCLRHLAEKLNRDIKG 336
               +++  V+  + +  I+    D    +N+    ++     +H +CL HL        + 
Sbjct:   426 FTKIREKVTQRKDLCLISSPLRDIVAVVNEP-GSLWQEPWAHHKFCLNHL--------RS 476

Query:   337 QFSHEARRFMINDLYAAAYAP-KFEGFQCSIESIKGISPDAYDWVTQSEPEH-WANTYFP 394
             QF    R + +  L   A +  + E F   +  IK  +P+A+ W+ Q  P H WA  +  
Sbjct:   477 QFLGVFRDYNLESLVEQAGSTNQKEEFDSYMNDIKEKNPEAWKWLDQI-PRHKWALAHDS 535

Query:   395 GARYDHMTSNFGQQF-----YSWVSEAHELPITHMVDVLRGKMMETIYTRRVESNQWLTK 449
             G RY  +  +    F     + + + A    +  M D LR    +++ +     N+ +  
Sbjct:   536 GLRYGIIEIDREALFAVCRGFPYCTVAMTGGVMLMFDELRSSFDKSLSSIYSSLNRGVVY 595

Query:   450 LTPSKEDKLQKETAIARSFQVLHLQSSTFEVRGESAD----IVDVDRWDCTCKTWHLTGL 505
               P   DKL++    +  + +  L+  +F+V  ES++    IV ++   CTC+ +     
Sbjct:   596 TEPFM-DKLEEFMTDSIPYVITQLERDSFKV-SESSEKEEWIVQLNVSTCTCRKFQSYKF 653

Query:   506 PCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPVPNV 548
             PC HA+AV E +  +P  Y  + +T E Y  TY+ +  PVP+V
Sbjct:   654 PCLHALAVFEKLKINPLQYVDECYTVEQYCKTYAATFSPVPDV 696

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2197122 AT1G49920 "AT1G49920" [Arabidopsis thaliana (taxid:3702)]

 Score = 309 (113.8 bits), Expect = 4.9e-35, Sum P(2) = 4.9e-35
 Identities = 98/372 (26%), Positives = 172/372 (46%)

Query:    48 FSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCIKK 107
             F   +E ++A+   SI        ++ +     V+C+   C W I ASR     L  I +
Sbjct:   186 FKDLAEMKKAVDWCSIKRRQKCLLRETEKDVYVVECERWHCKWSICASRREEDGLFEITE 245

Query:   108 MNSKHTCEGASVKAGYRATRGWVGNIIKEKLKASPNYKPKDIADDIKREYGIQLNY---- 163
              +  H C    +   + A    +   I+  ++  P     ++    ++++G  L+     
Sbjct:   246 CSGPHDCYPEHLN-DFDAE--CIPFQIERVVRVQPTLSTAELDKWWEKKFGFALDQVVEH 302

Query:   164 -SQAW--RAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTFT------TKEDSSF 214
              S+     AK  A ++  G +  S+ L+P     +  +N G +V +         E +SF
Sbjct:   303 CSEGLVEDAKVKAIKRFFGDWDQSFRLIPKLMSVLHSSN-GLLVDWQYDSLTHDPEHASF 361

Query:   215 HRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAE 274
               LF +F  SI GFQ  CRPL+ +DT  L  KY+  L+ A++ D  +  FP+AFAV    
Sbjct:   362 RGLFWAFSQSIQGFQH-CRPLIVVDTKNLGGKYKMKLMIASAFDATNQYFPLAFAVTKEV 420

Query:   275 TEDNWHWFLQELKSAVSTSQQITFIA----DFQNGLNKSLAEVFDN-CYHSYCLRHLAEK 329
             + D+W WFL  ++  V+  Q I  I+    D    +N+  ++  +   YH +CL HL  K
Sbjct:   421 SVDSWRWFLTRIREKVTQRQGICLISSPDPDILAVINEPGSQWKEPWAYHRFCLYHLCSK 480

Query:   330 LNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIKGISPDAYDWVTQSEPEHWA 389
             L     G F +    F++++  +++   +F+ +   ++ IK  +P+A+ W+ Q  P  WA
Sbjct:   481 LCSVSPG-FDYNMH-FLVDEAGSSSQKEEFDSY---MKEIKERNPEAWKWLDQFPPHQWA 535

Query:   390 NTYFPGARYDHM 401
               +  G RY  M
Sbjct:   536 LAHDDGRRYGIM 547

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:1006230722 AT1G64255 [Arabidopsis thaliana (taxid:3702)]

 Score = 363 (132.8 bits), Expect = 1.9e-30, P = 1.9e-30
 Identities = 129/483 (26%), Positives = 212/483 (43%)

Query:    88 CPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYRATRGWVGNIIKEKLKASPNYKPK 147
             C W + A+R+    LV I K    HTC    V   +++   +  + I+  ++  P     
Sbjct:   238 CKWSLGAARMKKHGLVEIIKYTGPHTCHPI-VPEDFKSE--FETDEIERAVRYMPTQTIS 294

Query:   148 DIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVT-- 205
             ++    K++ G +L  S    AKE A +++ G +  S+   P     +  +N G +V   
Sbjct:   295 ELKKWWKKKIGYELETSDVRLAKEKAIKRVFGDWDQSFEDFPKLMSALCSSN-GLLVDWK 353

Query:   206 ---FTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDG 262
                F     +SF  +F +F  SI GFQ  CRPL+ +DT  LN +YQ  L+ A+  D  + 
Sbjct:   354 YDLFPNPNFASFCGVFWAFPQSIEGFQH-CRPLIVVDTKNLNCEYQLKLMIASGVDAANK 412

Query:   263 IFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIA----DFQNGLNKSLAEVFDN-C 317
              FP+AFAV    + D W WFL  ++  V+  + +  I+    D    +N+S ++  +   
Sbjct:   413 YFPLAFAVTKEVSTDIWRWFLTGIREKVTQRKGLCLISSPHPDIIAVVNESGSQWQEPWA 472

Query:   318 YHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIKGISPDAY 377
             YH + L H   + +R +   F   AR      +  A    + + F   +  IK  +P+A 
Sbjct:   473 YHRFSLNHFYSQFSR-VFPSFCLGAR------IRRAGSTSQKDEFVSYMNDIKEKNPEAR 525

Query:   378 DWVTQSEPEHWANTYFPGARYDHMTSNFGQQFY---SWVSEAHELP--ITHMVDVLRGKM 432
              W+ Q     WA  +  G RY  M  N    F    ++    H +   +  + D LR K 
Sbjct:   526 KWLDQFPQNRWALAHDNGRRYGIMEINTKALFAVCNAFEQAGHVVTGSVLLLFDELRSKF 585

Query:   433 METIYTRRVESNQWLTKLTPSKEDKLQ--KETAIARSFQVLHLQSSTFEV-----RGESA 485
              ++    R   N       P   DKL+  + T +  S+ V  L ++ F+V     +GE  
Sbjct:   586 DKSFSCSRSSLNCGDVYTEPVM-DKLEEFRTTFVTYSYIVTPLDNNAFQVATALDKGEC- 643

Query:   486 DIVDVDRWDCTCKTWHLTGLPCCHAIAVLEWIGRSPYDYCSKYFTTESYRMTYSESIQPV 545
              IV +    CTC  +     PC HA+AV + +  +P  Y    +T E  + TY+     V
Sbjct:   644 -IVQLSDCSCTCGDFQRYKFPCLHALAVCKKLKFNPLQYVDDCYTLERLKRTYATIFSHV 702

Query:   546 PNV 548
             P +
Sbjct:   703 PEM 705

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2035144 FRS6 "FAR1-related sequence 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 151 (58.2 bits), Expect = 1.6e-07, Sum P(2) = 1.6e-07
 Identities = 58/297 (19%), Positives = 124/297 (41%)

Query:   183 DSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLF-VSFHASISGFQQGCRPLLFLDTT 241
             DS  +  +FC +++ TNP         ++     +F     + +S    G   ++F+D++
Sbjct:   247 DSAAIYNYFC-RMQLTNPNFFYLMDVNDEGQLRNVFWADAFSKVSCSYFG--DVIFIDSS 303

Query:   242 PLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIAD 301
              ++ K++  L+T T  +       ++   +  ET +++HW L+   S +  S Q T + D
Sbjct:   304 YISGKFEIPLVTFTGVNHHGKTTLLSCGFLAGETMESYHWLLKVWLSVMKRSPQ-TIVTD 362

Query:   302 FQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEA-RRFMINDLYAAAYAPKFE 360
                 L  ++++VF   +  + L H+  K+   + G  +++A R+     +Y      +FE
Sbjct:   363 RCKPLEAAISQVFPRSHQRFSLTHIMRKIPEKLGGLHNYDAVRKAFTKAVYETLKVVEFE 422

Query:   361 ---GFQCS----IES--IKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYS 411
                GF       IE+  ++ +  +   W     P +  +T+F G    H        F  
Sbjct:   423 AAWGFMVHNFGVIENEWLRSLYEERAKWA----PVYLKDTFFAGIAAAHPGETLKPFFER 478

Query:   412 WVSEAHELPITHMVDVLRGKMMETIYTRRVESNQWLTKLTPSKEDKLQKETAIARSF 468
             +V +  + P+   +D     + +      +   +  T  T   + K   ET ++R +
Sbjct:   479 YVHK--QTPLKEFLDKYELALQKKHREETLSDIESQTLNTAELKTKCSFETQLSRIY 533

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:2121060 FRS5 "FAR1-related sequence 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 125 (49.1 bits), Expect = 0.00010, Sum P(2) = 0.00010
 Identities = 55/288 (19%), Positives = 110/288 (38%)

Query:   146 PKDIADDIKREYG--IQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSV 203
             P+ I   + +EYG   ++ +++    +   R   Q S +    LL  +  ++   NP   
Sbjct:   210 PRRIMSALIKEYGGISKVGFTEV-DCRNYMRNNRQKSIEGEIQLLLDYLRQMNADNPNFF 268

Query:   204 VTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTL--LTATSADGDD 261
              +    ED S   +F +   +I  F      + F DTT  +++Y+      T  +  G  
Sbjct:   269 YSVQGSEDQSVGNVFWADPKAIMDFTHFGDTVTF-DTTYRSNRYRLPFAPFTGVNHHGQP 327

Query:   262 GIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDNCYHSY 321
              +F  AF +   ETE ++ W      +A+S    ++   D    +  ++  VF    H +
Sbjct:   328 ILFGCAFII--NETEASFVWLFNTWLAAMSAHPPVSITTDHDAVIRAAIMHVFPGARHRF 385

Query:   322 CLRHLAEKLNRDIKGQF-SHEARRFMINDLYAAA-YAPKFEGFQ-CSIESIKGISPDAYD 378
             C  H+ +K    +   F  H +     +D +         E F+ C    +       ++
Sbjct:   386 CKWHILKKCQEKLSHVFLKHPSFE---SDFHKCVNLTESVEDFERCWFSLLDKYELRDHE 442

Query:   379 WVTQ--SEPEHWA-----NTYFPGARYDHMTSNFGQQFYSWVSEAHEL 419
             W+    S+   W      +T+F      H + +    F  +++ +  L
Sbjct:   443 WLQAIYSDRRQWVPVYLRDTFFADMSLTHRSDSINSYFDGYINASTNL 490

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:2014639 FRS4 "FAR1-related sequence 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 109 (43.4 bits), Expect = 0.00016, Sum P(2) = 0.00016
 Identities = 62/313 (19%), Positives = 120/313 (38%)

Query:   183 DSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTP 242
             D+  LL F   +++E NP         ED     +F      I  ++     + F +T+ 
Sbjct:   162 DAEILLEFLM-RMQEENPKFFFAVDFSEDHLLRNVFWVDAKGIEDYKSFSDVVSF-ETSY 219

Query:   243 LNSKYQGTLLTATSADGDDGIFPVAFA--VVDAETEDNWHWFLQELKSAVSTSQQITFIA 300
               SKY+  L+     +    + PV     ++  +T   + W +Q    A+   +    + 
Sbjct:   220 FVSKYKVPLVLFVGVNHH--VQPVLLGCGLLADDTVYTYVWLMQSWLVAMGGQKPKVMLT 277

Query:   301 DFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAP-KF 359
             D  N +  ++A V     H YCL H+ ++L R++   +S     FM   L+   Y     
Sbjct:   278 DQNNAIKAAIAAVLPETRHCYCLWHVLDQLPRNLD-YWSMWQDTFM-KKLFKCIYRSWSE 335

Query:   360 EGFQCS-IESIKGISPDAYDWVTQ--SEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEA 416
             E F    ++ I         W+     E + WA T+  G  +  ++     +  + + + 
Sbjct:   336 EEFDRRWLKLIDKFHLRDVPWMRSLYEERKFWAPTFMRGITFAGLSMRCRSESVNSLFDR 395

Query:   417 HELPITHMVDVLRGK--MMETIYTRRVESN--QWLTKLTPSKEDKLQKETAIARSFQVLH 472
             +  P T + + L G   M+E  Y    +++   W            +K+  +  S ++  
Sbjct:   396 YVHPETSLKEFLEGYGLMLEDRYEEEAKADFDAWHEAPELKSPSPFEKQMLLVYSHEIF- 454

Query:   473 LQSSTFEVRGESA 485
              +    EV G +A
Sbjct:   455 -RRFQLEVLGAAA 466

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

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

---

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	Length	Definition	E-value
Query	608
pfam10551	88	pfam10551, MULE, MULE transposase domain	3e-22
pfam03108	67	pfam03108, DBD_Tnp_Mut, MuDR family transposase	6e-20
smart00575	28	smart00575, ZnF_PMZ, plant mutator transposase zin	9e-07
PLN03097	846	PLN03097, FHY3, Protein FAR-RED ELONGATED HYPOCOTY	9e-06
pfam04434	38	pfam04434, SWIM, SWIM zinc finger	5e-05
pfam00872	381	pfam00872, Transposase_mut, Transposase, Mutator f	7e-04

>gnl|CDD|220806 pfam10551, MULE, MULE transposase domain

 Score = 90.9 bits (226), Expect = 3e-22
 Identities = 37/92 (40%), Positives = 51/92 (55%), Gaps = 4/92 (4%)

Query: 240 TTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFI 299
            T L +KY+G    A   D     FP+AFA+V  E+E++W WFL+ LK A+     +T I
Sbjct: 1   GTYLTNKYKG----AVGVDHHGQGFPLAFALVSDESEESWTWFLEGLKKALGGRPPLTII 56

Query: 300 ADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLN 331
           +D   GL K++ EVF N  H  CL H+   L 
Sbjct: 57  SDGDKGLKKAIKEVFPNARHRLCLWHILRNLK 88

This domain was identified by Babu and colleagues. Length = 88

>gnl|CDD|190526 pfam03108, DBD_Tnp_Mut, MuDR family transposase

 Score = 83.4 bits (207), Expect = 6e-20
 Identities = 27/62 (43%), Positives = 39/62 (62%)

Query: 44  VDQRFSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLV 103
           V Q F S  EF++A+ KY+I + F ++ KK+D  R   KCK +GCPWR+ AS+L  +   
Sbjct: 6   VGQVFKSKEEFKKAVRKYAIKNRFEFKVKKSDKTRYRAKCKDEGCPWRVRASKLKDSDTF 65

Query: 104 CI 105
            I
Sbjct: 66  QI 67

This region is found in plant proteins that are presumed to be the transposases for Mutator transposable elements. These transposons contain two ORFs. The molecular function of this region is unknown. Length = 67

>gnl|CDD|128845 smart00575, ZnF_PMZ, plant mutator transposase zinc finger

 Score = 44.9 bits (107), Expect = 9e-07
 Identities = 12/28 (42%), Positives = 18/28 (64%)

Query: 493 WDCTCKTWHLTGLPCCHAIAVLEWIGRS 520
             C+C+ + L+G+PC HA+A    IG S
Sbjct: 1   KTCSCRKFQLSGIPCRHALAAAIHIGLS 28

Length = 28

>gnl|CDD|178645 PLN03097, FHY3, Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional

 Score = 48.5 bits (115), Expect = 9e-06
 Identities = 79/389 (20%), Positives = 142/389 (36%), Gaps = 43/389 (11%)

Query: 183 DSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTP 242
           D+  LL FF  +++  N          ED     LF     S   +      + F DTT 
Sbjct: 238 DTKILLDFF-TQMQNMNSNFFYAVDLGEDQRLKNLFWVDAKSRHDYGNFSDVVSF-DTTY 295

Query: 243 LNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADF 302
           + +KY+  L      +       +  A++  E+   + W +Q    A+        I D 
Sbjct: 296 VRNKYKMPLALFVGVNQHYQFMLLGCALISDESAATYSWLMQTWLRAMGGQAPKVIITDQ 355

Query: 303 QNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMI---NDLYAAAYAPKF 359
              +   ++EVF N +H + L H+  K++ ++ GQ   +   FM      +Y +    +F
Sbjct: 356 DKAMKSVISEVFPNAHHCFFLWHILGKVSENL-GQVIKQHENFMAKFEKCIYRSWTEEEF 414

Query: 360 EGFQCSIESIKGISPDAYDWVTQSEPEHWANTYFPGARYDHMTSNFGQQFYSWVSEAHEL 419
                 I     +  D +      + + W  TY   A    M++    +  +   + +  
Sbjct: 415 GKRWWKILDRFELKEDEWMQSLYEDRKQWVPTYMRDAFLAGMSTVQRSESINAFFDKYVH 474

Query: 420 PITHMVDVLRGKMMETIYTRRVE------SNQWLTKLTPSKEDKLQKET------AIARS 467
             T + + ++    ETI   R E      S+ W  +        L+K        A+ + 
Sbjct: 475 KKTTVQEFVK--QYETILQDRYEEEAKADSDTWNKQPALKSPSPLEKSVSGVYTHAVFKK 532

Query: 468 FQVLHLQSSTFEVRGESAD-------IVDVDR-------WD-------CTCKTWHLTGLP 506
           FQV  L +     + ES D       + D ++       W+       C C+ +   G  
Sbjct: 533 FQVEVLGAVACHPKMESQDETSITFRVQDFEKNQDFTVTWNQTKLEVSCICRLFEYKGYL 592

Query: 507 CCHAIAVLEWIGRS--PYDYCSKYFTTES 533
           C HA+ VL+    S  P  Y  K +T ++
Sbjct: 593 CRHALVVLQMCQLSAIPSQYILKRWTKDA 621

Length = 846

>gnl|CDD|218087 pfam04434, SWIM, SWIM zinc finger

 Score = 40.5 bits (95), Expect = 5e-05
 Identities = 13/30 (43%), Positives = 20/30 (66%)

Query: 486 DIVDVDRWDCTCKTWHLTGLPCCHAIAVLE 515
           D+ D+ +  C+C  + L G+PC HA+AVL 
Sbjct: 6   DLDDLVKASCSCPAFQLYGIPCKHALAVLL 35

This domain is found in bacterial, archaeal and eukaryotic proteins. It is predicted to be organised into two N-terminal beta-strands and a C-terminal alpha helix, thus possibly adopting a fold similar to that of the C2H2 zinc finger (pfam00096). SWIM is thought to be a versatile domain that can interact with DNA or proteins in different contexts. Length = 38

>gnl|CDD|216166 pfam00872, Transposase_mut, Transposase, Mutator family

 Score = 41.9 bits (99), Expect = 7e-04
 Identities = 31/133 (23%), Positives = 50/133 (37%), Gaps = 21/133 (15%)

Query: 234 PLLFLDTTPL------NSKYQGTLL-TATSADGDDGIFPVAFAVVDAETEDNWHWFLQEL 286
           P LFLD T +          +  L+    +ADG   I  +   V D E+   W  FL +L
Sbjct: 163 PYLFLDATYVKVREEGRVVSKAVLIALGVTADGRREI--LGIEVGDGESAAFWLTFLDDL 220

Query: 287 KSAVSTSQQITF-IADFQNGLNKSLAEVFDNCYHSYC----LRHLAEKLNRDIKGQFSHE 341
           K+     Q +   ++D   GL  ++  VF       C    LR+L   + +        +
Sbjct: 221 KA--RGLQGVLLVVSDGHKGLVAAIRAVFPGASWQRCRVHFLRNLLAAVPKK-----DAK 273

Query: 342 ARRFMINDLYAAA 354
                +  +Y A 
Sbjct: 274 TVAAALKAIYRAP 286

Length = 381

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	608
PLN03097	846	FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provis	100.0
PF10551	93	MULE: MULE transposase domain; InterPro: IPR018289	99.87
PF00872	381	Transposase_mut: Transposase, Mutator family; Inte	99.84
PF03108	67	DBD_Tnp_Mut: MuDR family transposase; InterPro: IP	99.67
COG3328	379	Transposase and inactivated derivatives [DNA repli	99.57
PF08731	111	AFT: Transcription factor AFT; InterPro: IPR014842	99.01
smart00575	28	ZnF_PMZ plant mutator transposase zinc finger.	98.92
PF03101	91	FAR1: FAR1 DNA-binding domain; InterPro: IPR004330	98.79
PF04434	40	SWIM: SWIM zinc finger; InterPro: IPR007527 Zinc f	98.14
PF00098	18	zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi	96.36
PF01610	249	DDE_Tnp_ISL3: Transposase; InterPro: IPR002560 Aut	95.53
PF15288	40	zf-CCHC_6: Zinc knuckle	95.43
PF13610	140	DDE_Tnp_IS240: DDE domain	95.03
PHA02517	277	putative transposase OrfB; Reviewed	94.88
PF06782	470	UPF0236: Uncharacterised protein family (UPF0236);	94.79
PF03106	60	WRKY: WRKY DNA -binding domain; InterPro: IPR00365	94.74
PF04684	496	BAF1_ABF1: BAF1 / ABF1 chromatin reorganising fact	94.09
COG3316	215	Transposase and inactivated derivatives [DNA repli	93.66
PF13696	32	zf-CCHC_2: Zinc knuckle	93.6
PRK14702	262	insertion element IS2 transposase InsD; Provisiona	93.45
PF03050	271	DDE_Tnp_IS66: Transposase IS66 family ; InterPro:	92.61
PF04500	62	FLYWCH: FLYWCH zinc finger domain; InterPro: IPR00	90.37
PRK09409	301	IS2 transposase TnpB; Reviewed	90.26
smart00774	59	WRKY DNA binding domain. The WRKY domain is a DNA	89.33
PF00665	120	rve: Integrase core domain; InterPro: IPR001584 In	87.93
PF14392	49	zf-CCHC_4: Zinc knuckle	86.54
smart00343	26	ZnF_C2HC zinc finger.	86.02
PF13565	77	HTH_32: Homeodomain-like domain	84.18
PF04937	153	DUF659: Protein of unknown function (DUF 659); Int	81.73
PF02178	13	AT_hook: AT hook motif; InterPro: IPR017956 AT hoo	80.51

>PLN03097 FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional

Probab=100.00  E-value=2.2e-76  Score=644.56  Aligned_cols=474  Identities=18%  Similarity=0.237  Sum_probs=377.9

Q ss_pred             CccccccceeCCHHHHHHHHHHHHHhcCceEEEEeeCCe-------EEEEEEec--------------------------
Q 007314           39 NTITGVDQRFSSFSEFREALHKYSIAHGFAYRYKKNDSH-------RVTVKCKC--------------------------   85 (608)
Q Consensus        39 ~~~~~vG~~F~s~~e~~~~~~~ya~~~gf~~~~~~s~~~-------r~~~~C~~--------------------------   85 (608)
                      +..|.+||+|+|.+|+++||+.||...||++++.++.++       ..+++|++                          
T Consensus        71 ~~~P~vGMeF~S~eeA~~FYn~YA~~~GFsVRi~~srrsk~~~~ii~r~fvCsreG~~~~~~~~~~~~~~~~~k~~~~~~  150 (846)
T PLN03097         71 NLEPLSGMEFESHGEAYSFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSFNRPRARQTKQDPENG  150 (846)
T ss_pred             CccCcCCCeECCHHHHHHHHHHHHhhcCceEEeeceeccCCCCcEEEEEEEEcCCCCCcccccccccccccccccCcccc
Confidence            456899999999999999999999999999998654322       23566653                          


Q ss_pred             --------cCCCeEEEEEEcCCcceEEEEeccCcccccccccccccccchhhHHHHHHHHhhhCCCCCHHHHHHHHHHHh
Q 007314           86 --------QGCPWRIYASRLSTTQLVCIKKMNSKHTCEGASVKAGYRATRGWVGNIIKEKLKASPNYKPKDIADDIKREY  157 (608)
Q Consensus        86 --------~gC~~~v~~~~~~~~~~~~V~~~~~~H~c~~~~~~~~~~~s~~~i~~~~~~~l~~~~~~~~~~i~~~v~~~~  157 (608)
                              +||+++|++++..+ +.|.|+.++.+|||++.........+++.... +...+....++.            
T Consensus       151 ~~rR~~tRtGC~A~m~Vk~~~~-gkW~V~~fv~eHNH~L~p~~~~~~~~r~~~~~-~~~~~~~~~~v~------------  216 (846)
T PLN03097        151 TGRRSCAKTDCKASMHVKRRPD-GKWVIHSFVKEHNHELLPAQAVSEQTRKMYAA-MARQFAEYKNVV------------  216 (846)
T ss_pred             cccccccCCCCceEEEEEEcCC-CeEEEEEEecCCCCCCCCccccchhhhhhHHH-HHhhhhcccccc------------
Confidence                    47999999988544 68999999999999997432211111111111 000000000000            


Q ss_pred             CCcc-cHHHHHHHHHHHHHHHhcChHhHhccHHHHHHHHHhhCCCcEEEEEecCCCceeEEEeehhhhHHHHhhcCccEE
Q 007314          158 GIQL-NYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLL  236 (608)
Q Consensus       158 g~~~-s~~~~~~~k~~~~~~~~g~~~~~~~~L~~~~~~~~~~npg~~~~~~~~~~~~~~~if~~~~~~~~~~~~~~~~vi  236 (608)
                      +... ......+.|.+   .+.   .+..+.|..|+.+++..||+|+|.+++|+++++++|||+++.++.+|.. |+|||
T Consensus       217 ~~~~d~~~~~~~~r~~---~~~---~gD~~~ll~yf~~~q~~nP~Ffy~~qlDe~~~l~niFWaD~~sr~~Y~~-FGDvV  289 (846)
T PLN03097        217 GLKNDSKSSFDKGRNL---GLE---AGDTKILLDFFTQMQNMNSNFFYAVDLGEDQRLKNLFWVDAKSRHDYGN-FSDVV  289 (846)
T ss_pred             ccchhhcchhhHHHhh---hcc---cchHHHHHHHHHHHHhhCCCceEEEEEccCCCeeeEEeccHHHHHHHHh-cCCEE
Confidence            0000 00011111111   111   2356779999999999999999999999999999999999999999998 99999


Q ss_pred             EeecccccCccceeEEEEEEecCCCCeEEEEEEEeecCCcccHHHHHHHHHHhcCCCCcEEEEecCcccHHHHHhhhcCC
Q 007314          237 FLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDN  316 (608)
Q Consensus       237 ~~D~T~~~~~y~~~l~~~~g~d~~~~~~~~a~a~~~~E~~~~~~w~l~~l~~~~~~~~~~~iitD~~~~l~~Ai~~vfP~  316 (608)
                      .+|+||.+|+|++||+.++|+|+|++++++|+||+.+|+.++|.|+|++|+++|++..|.+||||++.+|.+||++|||+
T Consensus       290 ~fDTTY~tN~y~~Pfa~FvGvNhH~qtvlfGcaLl~dEt~eSf~WLf~tfl~aM~gk~P~tIiTDqd~am~~AI~~VfP~  369 (846)
T PLN03097        290 SFDTTYVRNKYKMPLALFVGVNQHYQFMLLGCALISDESAATYSWLMQTWLRAMGGQAPKVIITDQDKAMKSVISEVFPN  369 (846)
T ss_pred             EEeceeeccccCcEEEEEEEecCCCCeEEEEEEEcccCchhhHHHHHHHHHHHhCCCCCceEEecCCHHHHHHHHHHCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccchHHHHHHHHHhhhcccccHHHHHHHHHHHHHHhcC-CCcccHHHHHHHH-hccChhHHHHHHhc--CCCCccccc
Q 007314          317 CYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYA-PKFEGFQCSIESI-KGISPDAYDWVTQS--EPEHWANTY  392 (608)
Q Consensus       317 a~~~~C~~Hi~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~-~t~~~f~~~~~~l-~~~~~~~~~~l~~~--~~~~W~~~~  392 (608)
                      +.|++|.|||++|+.++++..+..  .+.+...|..+++. .+++||+..|..| .+++++.++||+.+  .|++|+++|
T Consensus       370 t~Hr~C~wHI~~~~~e~L~~~~~~--~~~f~~~f~~cv~~s~t~eEFE~~W~~mi~ky~L~~n~WL~~LY~~RekWapaY  447 (846)
T PLN03097        370 AHHCFFLWHILGKVSENLGQVIKQ--HENFMAKFEKCIYRSWTEEEFGKRWWKILDRFELKEDEWMQSLYEDRKQWVPTY  447 (846)
T ss_pred             ceehhhHHHHHHHHHHHhhHHhhh--hhHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhcccccHHHHHHHHhHhhhhHHH
Confidence            999999999999999999876532  35788899998886 7999999999665 56779999999999  799999999


Q ss_pred             cCCCccccc-ccchhHHHHHHHHhh--hcCChhhhHHHHHHHHHHHHHHhh-----------------HhhhhcccCCCh
Q 007314          393 FPGARYDHM-TSNFGQQFYSWVSEA--HELPITHMVDVLRGKMMETIYTRR-----------------VESNQWLTKLTP  452 (608)
Q Consensus       393 ~~~~~~~~~-ttn~~Es~n~~lk~~--r~~~i~~l~~~i~~~~~~~~~~r~-----------------~~~~~~~~~~tp  452 (608)
                      +++.+++.| ||+++||+|+.+++.  +..+|..|++.+-..+..+..+..                 ...+|.+..|||
T Consensus       448 ~k~~F~agm~sTqRSES~Ns~fk~yv~~~tsL~~Fv~qye~~l~~~~ekE~~aD~~s~~~~P~l~t~~piEkQAs~iYT~  527 (846)
T PLN03097        448 MRDAFLAGMSTVQRSESINAFFDKYVHKKTTVQEFVKQYETILQDRYEEEAKADSDTWNKQPALKSPSPLEKSVSGVYTH  527 (846)
T ss_pred             hcccccCCcccccccccHHHHHHHHhCcCCCHHHHHHHHHHHHHHHHHHHHHhhhhcccCCcccccccHHHHHHHHHhHH
Confidence            998887655 779999999999985  778888888766544433322211                 134567889999


Q ss_pred             hHHHHHHHHHhhccceEEEEe----cCceEEEEc---CceEEEEe----cceeeecCCcccCCCCchhHHHHHHHhCC--
Q 007314          453 SKEDKLQKETAIARSFQVLHL----QSSTFEVRG---ESADIVDV----DRWDCTCKTWHLTGLPCCHAIAVLEWIGR--  519 (608)
Q Consensus       453 ~~~~~l~~~~~~~~~~~v~~~----~~~~f~V~~---~~~~~V~l----~~~~CsC~~~~~~giPC~H~lav~~~~~~--  519 (608)
                      .+|++||+++..+..+.+...    ...+|.|.+   .+.|.|..    ...+|+|++|+..||||+|||.||...++  
T Consensus       528 ~iF~kFQ~El~~~~~~~~~~~~~dg~~~~y~V~~~~~~~~~~V~~d~~~~~v~CsC~kFE~~GILCrHaLkVL~~~~v~~  607 (846)
T PLN03097        528 AVFKKFQVEVLGAVACHPKMESQDETSITFRVQDFEKNQDFTVTWNQTKLEVSCICRLFEYKGYLCRHALVVLQMCQLSA  607 (846)
T ss_pred             HHHHHHHHHHHHhhheEEeeeccCCceEEEEEEEecCCCcEEEEEecCCCeEEeeccCeecCccchhhHHHHHhhcCccc
Confidence            999999999999988887642    235688865   34577743    36899999999999999999999999986  


Q ss_pred             Cccccccccchhhhhh
Q 007314          520 SPYDYCSKYFTTESYR  535 (608)
Q Consensus       520 ~p~~~i~~~~t~~~~~  535 (608)
                      +|+.||.+|||+++-.
T Consensus       608 IP~~YILkRWTKdAK~  623 (846)
T PLN03097        608 IPSQYILKRWTKDAKS  623 (846)
T ss_pred             Cchhhhhhhchhhhhh
Confidence            6999999999998864

>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 [, ]

Probab=99.87  E-value=1.5e-22  Score=167.04  Aligned_cols=90  Identities=39%  Similarity=0.716  Sum_probs=86.8

Q ss_pred             cccccCccceeEEE---EEEecCCCCeEEEEEEEeecCCcccHHHHHHHHHHhcCCCCcEEEEecCcccHHHHHhhhcCC
Q 007314          240 TTPLNSKYQGTLLT---ATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAEVFDN  316 (608)
Q Consensus       240 ~T~~~~~y~~~l~~---~~g~d~~~~~~~~a~a~~~~E~~~~~~w~l~~l~~~~~~~~~~~iitD~~~~l~~Ai~~vfP~  316 (608)
                      |||++|+| ++++.   ++|+|++|+.+|+||+++++|+.++|.|||+.+++.++.. |.+||+|++.|+.+||+++||+
T Consensus         1 ~T~~tn~~-~~l~~~~~~~~~d~~~~~~~v~~~l~~~e~~~~~~~~l~~~~~~~~~~-p~~ii~D~~~~~~~Ai~~vfP~   78 (93)
T PF10551_consen    1 GTYKTNKY-GPLLYLMIAVGIDGNGRGFPVAFALVSSESEESYEWFLEKLKEAMPQK-PKVIISDFDKALINAIKEVFPD   78 (93)
T ss_pred             Cccccccc-cccceeceEEEEcCCCCEEEEEEEEEcCCChhhhHHHHHHhhhccccC-ceeeeccccHHHHHHHHHHCCC
Confidence            79999999 88885   9999999999999999999999999999999999999887 9999999999999999999999


Q ss_pred             ccccchHHHHHHHHH
Q 007314          317 CYHSYCLRHLAEKLN  331 (608)
Q Consensus       317 a~~~~C~~Hi~~n~~  331 (608)
                      +.|++|.||+.+|++
T Consensus        79 ~~~~~C~~H~~~n~k   93 (93)
T PF10551_consen   79 ARHQLCLFHILRNIK   93 (93)
T ss_pred             ceEehhHHHHHHhhC
Confidence            999999999999974

This domain is also found in a transposase for the insertion sequence element IS256 in transposon Tn4001 [].

>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

Probab=99.84  E-value=5.8e-22  Score=205.05  Aligned_cols=240  Identities=22%  Similarity=0.270  Sum_probs=189.3

Q ss_pred             CCCCHHHHHHHHHHHhC-CcccHHHHHHHHHHHHHHHhcChHhHhccHHHHHHHHHhhCCCcEEEEEecCCCceeEEEee
Q 007314          142 PNYKPKDIADDIKREYG-IQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVS  220 (608)
Q Consensus       142 ~~~~~~~i~~~v~~~~g-~~~s~~~~~~~k~~~~~~~~g~~~~~~~~L~~~~~~~~~~npg~~~~~~~~~~~~~~~if~~  220 (608)
                      .|++.++|.+.++..+| ..+|.+++.+..+.....+.           .|..+-++                       
T Consensus       113 ~G~Str~i~~~l~~l~g~~~~S~s~vSri~~~~~~~~~-----------~w~~R~L~-----------------------  158 (381)
T PF00872_consen  113 KGVSTRDIEEALEELYGEVAVSKSTVSRITKQLDEEVE-----------AWRNRPLE-----------------------  158 (381)
T ss_pred             cccccccccchhhhhhcccccCchhhhhhhhhhhhhHH-----------HHhhhccc-----------------------
Confidence            47899999999999999 77999888886665544322           22211111                       


Q ss_pred             hhhhHHHHhhcC-ccEEEeecccccCccc-----eeEEEEEEecCCCCeEEEEEEEeecCCcccHHHHHHHHHHhcCCCC
Q 007314          221 FHASISGFQQGC-RPLLFLDTTPLNSKYQ-----GTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQ  294 (608)
Q Consensus       221 ~~~~~~~~~~~~-~~vi~~D~T~~~~~y~-----~~l~~~~g~d~~~~~~~~a~a~~~~E~~~~~~w~l~~l~~~~~~~~  294 (608)
                                .. .++|++||+|.+-+.+     ..+++++|+|.+|+..+||+.+.+.|+.++|.-||+.|++. |...
T Consensus       159 ----------~~~y~~l~iD~~~~kvr~~~~~~~~~~~v~iGi~~dG~r~vLg~~~~~~Es~~~W~~~l~~L~~R-Gl~~  227 (381)
T PF00872_consen  159 ----------SEPYPYLWIDGTYFKVREDGRVVKKAVYVAIGIDEDGRREVLGFWVGDRESAASWREFLQDLKER-GLKD  227 (381)
T ss_pred             ----------cccccceeeeeeecccccccccccchhhhhhhhhcccccceeeeecccCCccCEeeecchhhhhc-cccc
Confidence                      14 5789999999976643     46899999999999999999999999999999999999888 4456


Q ss_pred             cEEEEecCcccHHHHHhhhcCCccccchHHHHHHHHHhhhcccccHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh----
Q 007314          295 QITFIADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIESIK----  370 (608)
Q Consensus       295 ~~~iitD~~~~l~~Ai~~vfP~a~~~~C~~Hi~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~f~~~~~~l~----  370 (608)
                      |..||+|+.+||.+||.++||++.++.|++|+++|+.+++...    .++.+...++.+..+.+.++....++.+.    
T Consensus       228 ~~lvv~Dg~~gl~~ai~~~fp~a~~QrC~vH~~RNv~~~v~~k----~~~~v~~~Lk~I~~a~~~e~a~~~l~~f~~~~~  303 (381)
T PF00872_consen  228 ILLVVSDGHKGLKEAIREVFPGAKWQRCVVHLMRNVLRKVPKK----DRKEVKADLKAIYQAPDKEEAREALEEFAEKWE  303 (381)
T ss_pred             cceeeccccccccccccccccchhhhhheechhhhhccccccc----cchhhhhhccccccccccchhhhhhhhcccccc
Confidence            9999999999999999999999999999999999999998653    34567777778878888887777776654    


Q ss_pred             ccChhHHHHHHhcCCCCccccccCCCcc-cccccchhHHHHHHHHhh----hcCChhhhHHHHHH
Q 007314          371 GISPDAYDWVTQSEPEHWANTYFPGARY-DHMTSNFGQQFYSWVSEA----HELPITHMVDVLRG  430 (608)
Q Consensus       371 ~~~~~~~~~l~~~~~~~W~~~~~~~~~~-~~~ttn~~Es~n~~lk~~----r~~~i~~l~~~i~~  430 (608)
                      ..+|++.++|++...+.|+..-|+...+ -..|||.+|++|+.+|+.    ...|-.+.+..+..
T Consensus       304 ~kyp~~~~~l~~~~~~~~tf~~fP~~~~~~i~TTN~iEsln~~irrr~~~~~~Fp~~~s~lr~~~  368 (381)
T PF00872_consen  304 KKYPKAAKSLEENWDELLTFLDFPPEHRRSIRTTNAIESLNKEIRRRTKVVGIFPNEESALRLVY  368 (381)
T ss_pred             cccchhhhhhhhccccccceeeecchhccccchhhhccccccchhhhccccccCCCHHHHHHHHH
Confidence            4568899999888777777655665444 567999999999999974    34555544444433

Transposases have been grouped into various families [, , ]. The mutator family of transposases consists of a number of elements that include, mutator from maize, IsT2 from Thiobacillus ferrooxidans, Is256 from Staphylococcus aureus, Is1201 from Lactobacillus helveticus, Is1081 from Mycobacterium bovis, IsRm3 from Rhizobium meliloti and others. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated

>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 [, ]

Probab=99.67  E-value=3.1e-16  Score=119.81  Aligned_cols=67  Identities=42%  Similarity=0.769  Sum_probs=64.9

Q ss_pred             CccccccceeCCHHHHHHHHHHHHHhcCceEEEEeeCCeEEEEEEeccCCCeEEEEEEcCCcceEEE
Q 007314           39 NTITGVDQRFSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCKCQGCPWRIYASRLSTTQLVCI  105 (608)
Q Consensus        39 ~~~~~vG~~F~s~~e~~~~~~~ya~~~gf~~~~~~s~~~r~~~~C~~~gC~~~v~~~~~~~~~~~~V  105 (608)
                      ||.+.+||+|+|++|+++|+..||+.++|.+++.+|++.|++++|...||||+|+|++.++++.|+|
T Consensus         1 n~~l~~G~~F~~~~e~k~av~~yai~~~~~~~v~ksd~~r~~~~C~~~~C~Wrv~as~~~~~~~~~I   67 (67)
T PF03108_consen    1 NPELEVGQTFPSKEEFKEAVREYAIKNGFEFKVKKSDKKRYRAKCKDKGCPWRVRASKRKRSDTFQI   67 (67)
T ss_pred             CCccccCCEECCHHHHHHHHHHHHHhcCcEEEEeccCCEEEEEEEcCCCCCEEEEEEEcCCCCEEEC
Confidence            6789999999999999999999999999999999999999999999999999999999999999986

The function of these proteins is unknown. More information about these proteins can be found at Protein of the Month: Transposase [].

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

Probab=99.57  E-value=7.6e-14  Score=141.27  Aligned_cols=236  Identities=18%  Similarity=0.207  Sum_probs=176.4

Q ss_pred             CCCCHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHHhcChHhHhccHHHHHHHHHhhCCCcEEEEEecCCCceeEEEeeh
Q 007314          142 PNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSF  221 (608)
Q Consensus       142 ~~~~~~~i~~~v~~~~g~~~s~~~~~~~k~~~~~~~~g~~~~~~~~L~~~~~~~~~~npg~~~~~~~~~~~~~~~if~~~  221 (608)
                      .+++++++.+.+++.++..++...+.+.-....+.+               .+++..-+                     
T Consensus        99 ~gv~Tr~i~~~~~~~~~~~~s~~~iS~~~~~~~e~v---------------~~~~~r~l---------------------  142 (379)
T COG3328          99 KGVTTREIEALLEELYGHKVSPSVISVVTDRLDEKV---------------KAWQNRPL---------------------  142 (379)
T ss_pred             cCCcHHHHHHHHHHhhCcccCHHHhhhHHHHHHHHH---------------HHHHhccc---------------------
Confidence            478999999999999888777776666555444432               22222211                     


Q ss_pred             hhhHHHHhhcCccEEEeecccccCc--cceeEEEEEEecCCCCeEEEEEEEeecCCcccHHHHHHHHHHhcCCCCcEEEE
Q 007314          222 HASISGFQQGCRPLLFLDTTPLNSK--YQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFI  299 (608)
Q Consensus       222 ~~~~~~~~~~~~~vi~~D~T~~~~~--y~~~l~~~~g~d~~~~~~~~a~a~~~~E~~~~~~w~l~~l~~~~~~~~~~~ii  299 (608)
                               +..+++++|++|++-+  -+..+++++|++.+|+-.++++.+...|+ ..|.-||..|+.. |......++
T Consensus       143 ---------~~~~~v~~D~~~~k~r~v~~~~~~ia~Gv~~eG~reilg~~~~~~e~-~~w~~~l~~l~~r-gl~~v~l~v  211 (379)
T COG3328         143 ---------GDYPYVYLDAKYVKVRSVRNKAVYIAIGVTEEGRREILGIWVGVRES-KFWLSFLLDLKNR-GLSDVLLVV  211 (379)
T ss_pred             ---------cCceEEEEecceeehhhhhhheeeeeeccCcccchhhhceeeecccc-hhHHHHHHHHHhc-cccceeEEe
Confidence                     1568999999999876  35689999999999999999999999999 9999888888877 334456677


Q ss_pred             ecCcccHHHHHhhhcCCccccchHHHHHHHHHhhhcccccHHHHHHHHHHHHHHhcCCCcccHHHHHHH----HhccChh
Q 007314          300 ADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDLYAAAYAPKFEGFQCSIES----IKGISPD  375 (608)
Q Consensus       300 tD~~~~l~~Ai~~vfP~a~~~~C~~Hi~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~f~~~~~~----l~~~~~~  375 (608)
                      +|+.+|+.+||.++||.+.++.|..|+.+|+..+...    +.++.+...+..+.-+.+.++....|..    +...+|.
T Consensus       212 ~Dg~~gl~~aI~~v~p~a~~Q~C~vH~~Rnll~~v~~----k~~d~i~~~~~~I~~a~~~e~~~~~~~~~~~~w~~~yP~  287 (379)
T COG3328         212 VDGLKGLPEAISAVFPQAAVQRCIVHLVRNLLDKVPR----KDQDAVLSDLRSIYIAPDAEEALLALLAFSELWGKRYPA  287 (379)
T ss_pred             cchhhhhHHHHHHhccHhhhhhhhhHHHhhhhhhhhh----hhhHHHHhhhhhhhccCCcHHHHHHHHHHHHhhhhhcch
Confidence            7999999999999999999999999999999998775    3445566666666666776666666655    4445688


Q ss_pred             HHHHHHhcCCCCccccccCC-CcccccccchhHHHHHHHHhh----hcCChhhhHHHH
Q 007314          376 AYDWVTQSEPEHWANTYFPG-ARYDHMTSNFGQQFYSWVSEA----HELPITHMVDVL  428 (608)
Q Consensus       376 ~~~~l~~~~~~~W~~~~~~~-~~~~~~ttn~~Es~n~~lk~~----r~~~i~~l~~~i  428 (608)
                      ...++.+..-+.|...-|+. .+-...|||.+|++|+.++..    ..+|-.+.+..+
T Consensus       288 i~~~~~~~~~~~~~F~~fp~~~r~~i~ttN~IE~~n~~ir~~~~~~~~fpn~~sv~k~  345 (379)
T COG3328         288 ILKSWRNALEELLPFFAFPSEIRKIIYTTNAIESLNKLIRRRTKVVGIFPNEESVEKL  345 (379)
T ss_pred             HHHHHHHHHHHhcccccCcHHHHhHhhcchHHHHHHHHHHHHHhhhccCCCHHHHHHH
Confidence            88888777666665444443 234678999999999988753    344444444443

>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

Probab=99.01  E-value=1.8e-09  Score=87.34  Aligned_cols=69  Identities=23%  Similarity=0.406  Sum_probs=65.7

Q ss_pred             eCCHHHHHHHHHHHHHhcCceEEEEeeCCeEEEEEEec------------------------------------------
Q 007314           48 FSSFSEFREALHKYSIAHGFAYRYKKNDSHRVTVKCKC------------------------------------------   85 (608)
Q Consensus        48 F~s~~e~~~~~~~ya~~~gf~~~~~~s~~~r~~~~C~~------------------------------------------   85 (608)
                      |.+++|++.+|..++..+||++.+.||+...+.|+|..                                          
T Consensus         1 F~~k~~ikpwlq~~~~~~Gi~iVIerSd~~ki~FkCk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~k~t~srk   80 (111)
T PF08731_consen    1 FDDKDEIKPWLQKIFYPQGIGIVIERSDKKKIVFKCKNGKRYRHKKKKKGQAQAQQKESTSGNKNKSSKKKKKKRTKSRK   80 (111)
T ss_pred             CCchHHHHHHHHHHhhhcCceEEEEecCCceEEEEEecCCCcccccccccccccccccccccccccccccccCCcccccc
Confidence            88999999999999999999999999999999999982                                          


Q ss_pred             cCCCeEEEEEEcCCcceEEEEeccCcccccc
Q 007314           86 QGCPWRIYASRLSTTQLVCIKKMNSKHTCEG  116 (608)
Q Consensus        86 ~gC~~~v~~~~~~~~~~~~V~~~~~~H~c~~  116 (608)
                      .+|||+|+|+.+...+.|.|..+++.|+|++
T Consensus        81 ~~CPFriRA~yS~k~k~W~lvvvnn~HnH~l  111 (111)
T PF08731_consen   81 NTCPFRIRANYSKKNKKWTLVVVNNEHNHPL  111 (111)
T ss_pred             cCCCeEEEEEEEecCCeEEEEEecCCcCCCC
Confidence            6999999999999999999999999999974

This entry includes the paralogous pair of transcription factors AFT1 and AFT2.

>smart00575 ZnF_PMZ plant mutator transposase zinc finger

Probab=98.92  E-value=5.7e-10  Score=68.10  Aligned_cols=27  Identities=41%  Similarity=0.960  Sum_probs=24.8

Q ss_pred             eeeecCCcccCCCCchhHHHHHHHhCC
Q 007314          493 WDCTCKTWHLTGLPCCHAIAVLEWIGR  519 (608)
Q Consensus       493 ~~CsC~~~~~~giPC~H~lav~~~~~~  519 (608)
                      .+|||++|+..||||+|+|+|+...++
T Consensus         1 ~~CsC~~~~~~gipC~H~i~v~~~~~~   27 (28)
T smart00575        1 KTCSCRKFQLSGIPCRHALAAAIHIGL   27 (28)
T ss_pred             CcccCCCcccCCccHHHHHHHHHHhCC
Confidence            479999999999999999999988775

>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

Probab=98.79  E-value=1.1e-08  Score=83.54  Aligned_cols=61  Identities=25%  Similarity=0.371  Sum_probs=53.6

Q ss_pred             HHHHHHHHhcCceEEEEeeCCe-------EEEEEEec----------------------cCCCeEEEEEEcCCcceEEEE
Q 007314           56 EALHKYSIAHGFAYRYKKNDSH-------RVTVKCKC----------------------QGCPWRIYASRLSTTQLVCIK  106 (608)
Q Consensus        56 ~~~~~ya~~~gf~~~~~~s~~~-------r~~~~C~~----------------------~gC~~~v~~~~~~~~~~~~V~  106 (608)
                      +||+.||..+||++++.++.+.       ++.++|.+                      +||||+|.+.... .+.|.|.
T Consensus         1 ~fy~~yA~~~GF~vr~~~s~~~~~~~~~~~~~~~C~r~G~~~~~~~~~~~~~r~~~s~ktgC~a~i~v~~~~-~~~w~v~   79 (91)
T PF03101_consen    1 DFYNSYARRHGFSVRKSSSRKSKKNGEIKRVTFVCSRGGKYKSKKKNEEKRRRNRPSKKTGCKARINVKRRK-DGKWRVT   79 (91)
T ss_pred             CHHHHhcCcCCeEEEEeeeEeCCCCceEEEEEEEECCcccccccccccccccccccccccCCCEEEEEEEcc-CCEEEEE
Confidence            4899999999999999776443       78899984                      7999999999987 7799999


Q ss_pred             eccCccccccc
Q 007314          107 KMNSKHTCEGA  117 (608)
Q Consensus       107 ~~~~~H~c~~~  117 (608)
                      .+..+|||++.
T Consensus        80 ~~~~~HNH~L~   90 (91)
T PF03101_consen   80 SFVLEHNHPLC   90 (91)
T ss_pred             ECcCCcCCCCC
Confidence            99999999874

It has been found that the proteins governing this response, which include FAR-RED ELONGATED HYPOCOTYL3 (FHY3) and FAR-RED-IMPAIRED RESPONSE1 (FAR1), are a pair of homologous proteins sharing significant sequence homology to mutator-like transposases. These proteins appear to be novel transcription factors, which are essential for activating the expression of FHY1 and FHL (for FHY1-like) and related genes, whose products are required for light-induced phytochrome A nuclear accumulation and subsequent light responses in plants. The FRS (FAR1 Related Sequences) family of proteins share a similar domain structure to mutator-like transposases, including an N-terminal C2H2 zinc finger domain, a central putative core transposase domain, and a C-terminal SWIM motif (named after SWI2/SNF and MuDR transposases). It seems plausible that the FRS family represent transcription factors derived from mutator-like transposases [, ]. This entry represents a domain found in FAR1 and FRS proteins. It contains a WRKY like fold and is therefore most likely a zinc binding DNA-binding domain.

>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

Probab=98.14  E-value=1.8e-06  Score=58.24  Aligned_cols=30  Identities=33%  Similarity=0.774  Sum_probs=26.8

Q ss_pred             EEecceeeecCCcccCCCCchhHHHHHHHh
Q 007314          488 VDVDRWDCTCKTWHLTGLPCCHAIAVLEWI  517 (608)
Q Consensus       488 V~l~~~~CsC~~~~~~giPC~H~lav~~~~  517 (608)
                      +++...+|||..|+..|.||+|++|++...
T Consensus        10 ~~~~~~~CsC~~~~~~~~~CkHi~av~~~~   39 (40)
T PF04434_consen   10 VSIEQASCSCPYFQFRGGPCKHIVAVLLAL   39 (40)
T ss_pred             ccccccEeeCCCccccCCcchhHHHHHHhh
Confidence            566789999999999999999999998764

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the SWIM (SWI2/SNF2 and MuDR) zinc-binding domain, which is found in a variety of prokaryotic and eukaryotic proteins, such as mitogen-activated protein kinase kinase kinase 1 (or MEKK1). It is also found in the related protein MEX (MEKK1-related protein X), a testis-expressed protein that acts as an E3 ubiquitin ligase through the action of E2 ubiquitin-conjugating enzymes in the proteasome degradation pathway; the SWIM domain is critical for MEX ubiquitination []. SWIM domains are also found in the homologous recombination protein Sws1 [], as well as in several hypothetical proteins. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding

>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

Probab=96.36  E-value=0.0023  Score=34.41  Aligned_cols=18  Identities=28%  Similarity=0.733  Sum_probs=16.3

Q ss_pred             eecCCcCCCCcCccCCCC
Q 007314          590 LQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       590 ~~C~~C~~~gHn~~tC~~  607 (608)
                      ++|-+|++.||..+.||.
T Consensus         1 ~~C~~C~~~GH~~~~Cp~   18 (18)
T PF00098_consen    1 RKCFNCGEPGHIARDCPK   18 (18)
T ss_dssp             SBCTTTSCSSSCGCTSSS
T ss_pred             CcCcCCCCcCcccccCcc
Confidence            379999999999999995

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....

>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

Probab=95.53  E-value=0.021  Score=56.08  Aligned_cols=94  Identities=15%  Similarity=0.182  Sum_probs=69.0

Q ss_pred             EEeecccccCccceeEEEEEEecC--CCCeEEEEEEEeecCCcccHHHHHHHH-HHhcCCCCcEEEEecCcccHHHHHhh
Q 007314          236 LFLDTTPLNSKYQGTLLTATSADG--DDGIFPVAFAVVDAETEDNWHWFLQEL-KSAVSTSQQITFIADFQNGLNKSLAE  312 (608)
Q Consensus       236 i~~D~T~~~~~y~~~l~~~~g~d~--~~~~~~~a~a~~~~E~~~~~~w~l~~l-~~~~~~~~~~~iitD~~~~l~~Ai~~  312 (608)
                      |+||-+.....++.  +..+.+|.  +++.   -+.++++-+.++..-||..+ -.. ......+|++|..++...|+++
T Consensus         1 lgiDE~~~~~g~~~--y~t~~~d~~~~~~~---il~i~~~r~~~~l~~~~~~~~~~~-~~~~v~~V~~Dm~~~y~~~~~~   74 (249)
T PF01610_consen    1 LGIDEFAFRKGHRS--YVTVVVDLDTDTGR---ILDILPGRDKETLKDFFRSLYPEE-ERKNVKVVSMDMSPPYRSAIRE   74 (249)
T ss_pred             CeEeeeeeecCCcc--eeEEEEECccCCce---EEEEcCCccHHHHHHHHHHhCccc-cccceEEEEcCCCccccccccc
Confidence            46777766544442  33333443  3322   23578888888888888866 333 3346889999999999999999


Q ss_pred             hcCCccccchHHHHHHHHHhhhc
Q 007314          313 VFDNCYHSYCLRHLAEKLNRDIK  335 (608)
Q Consensus       313 vfP~a~~~~C~~Hi~~n~~~~~~  335 (608)
                      .||+|.+..-.|||++++.+.+.
T Consensus        75 ~~P~A~iv~DrFHvvk~~~~al~   97 (249)
T PF01610_consen   75 YFPNAQIVADRFHVVKLANRALD   97 (249)
T ss_pred             cccccccccccchhhhhhhhcch
Confidence            99999999999999999988654

Transposases have been grouped into various families [, , ]. This family includes the IS204 [], IS1001 [], IS1096 [] and IS1165 [] transposases. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated

>PF15288 zf-CCHC_6: Zinc knuckle

Probab=95.43  E-value=0.0069  Score=39.65  Aligned_cols=18  Identities=33%  Similarity=0.973  Sum_probs=16.1

Q ss_pred             eecCCcCCCCcCc--cCCCC
Q 007314          590 LQCSKCKGLGHNK--KTCKD  607 (608)
Q Consensus       590 ~~C~~C~~~gHn~--~tC~~  607 (608)
                      ++|+.||..||.+  ++||.
T Consensus         2 ~kC~~CG~~GH~~t~k~CP~   21 (40)
T PF15288_consen    2 VKCKNCGAFGHMRTNKRCPM   21 (40)
T ss_pred             ccccccccccccccCccCCC
Confidence            6899999999998  78985

>PF13610 DDE_Tnp_IS240: DDE domain

Probab=95.03  E-value=0.014  Score=51.60  Aligned_cols=81  Identities=11%  Similarity=0.064  Sum_probs=66.5

Q ss_pred             ccEEEeecccccCccceeEEEEEEecCCCCeEEEEEEEeecCCcccHHHHHHHHHHhcCCCCcEEEEecCcccHHHHHhh
Q 007314          233 RPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLAE  312 (608)
Q Consensus       233 ~~vi~~D~T~~~~~y~~~l~~~~g~d~~~~~~~~a~a~~~~E~~~~~~w~l~~l~~~~~~~~~~~iitD~~~~l~~Ai~~  312 (608)
                      ++.+.+|-||.+-+ +-..+....+|.+++  +|++-|...-+...=..||..+.+..+ ..|..|+||+.++...|+++
T Consensus         1 ~~~w~~DEt~iki~-G~~~yl~~aiD~~~~--~l~~~ls~~Rd~~aA~~Fl~~~l~~~~-~~p~~ivtDk~~aY~~A~~~   76 (140)
T PF13610_consen    1 GDSWHVDETYIKIK-GKWHYLWRAIDAEGN--ILDFYLSKRRDTAAAKRFLKRALKRHR-GEPRVIVTDKLPAYPAAIKE   76 (140)
T ss_pred             CCEEEEeeEEEEEC-CEEEEEEEeeccccc--chhhhhhhhcccccceeeccccceeec-cccceeecccCCccchhhhh
Confidence            35789999998532 224566788899998  789999888888888888888877765 67999999999999999999


Q ss_pred             hcCCc
Q 007314          313 VFDNC  317 (608)
Q Consensus       313 vfP~a  317 (608)
                      ++|.-
T Consensus        77 l~~~~   81 (140)
T PF13610_consen   77 LNPEG   81 (140)
T ss_pred             ccccc
Confidence            99874

>PHA02517 putative transposase OrfB; Reviewed

Probab=94.88  E-value=1.5  Score=43.57  Aligned_cols=151  Identities=17%  Similarity=0.082  Sum_probs=83.6

Q ss_pred             hHHHHHHHHhhh-CCCCCHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHHhcChHhHhccHHHHHHHHHhhCCCcEEEEE
Q 007314          129 WVGNIIKEKLKA-SPNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTFT  207 (608)
Q Consensus       129 ~i~~~~~~~l~~-~~~~~~~~i~~~v~~~~g~~~s~~~~~~~k~~~~~~~~g~~~~~~~~L~~~~~~~~~~npg~~~~~~  207 (608)
                      .+.+.+.+.+.. .+.+..+.|...|.+. |..+|.++++|..+..     |-...  ..     ..-.....+-.   .
T Consensus        30 ~l~~~I~~i~~~~~~~~G~r~I~~~L~~~-g~~vs~~tV~Rim~~~-----gl~~~--~~-----~k~~~~~~~~~---~   93 (277)
T PHA02517         30 WLKSEILRVYDENHQVYGVRKVWRQLNRE-GIRVARCTVGRLMKEL-----GLAGV--LR-----GKKVRTTISRK---A   93 (277)
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHhc-CcccCHHHHHHHHHHc-----CCceE--ec-----CCCcCCCCCCC---C
Confidence            455566666554 5788999999998755 9999999888754432     10000  00     00000000000   0


Q ss_pred             ecCCCceeEEEeehhhhHHHHhhcCccEEEeecccccCccceeEEEEEEecCCCCeEEEEEEEeecCCcccHHHHHHHHH
Q 007314          208 TKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELK  287 (608)
Q Consensus       208 ~~~~~~~~~if~~~~~~~~~~~~~~~~vi~~D~T~~~~~y~~~l~~~~g~d~~~~~~~~a~a~~~~E~~~~~~w~l~~l~  287 (608)
                      ....+.+.+-|-+.         .-..++..|.||....- +..++.+.+|...+ .++|+.+...++.+...-+|+...
T Consensus        94 ~~~~n~~~r~f~~~---------~pn~~w~~D~t~~~~~~-g~~yl~~iiD~~sr-~i~~~~~~~~~~~~~~~~~l~~a~  162 (277)
T PHA02517         94 VAAPDRVNRQFVAT---------RPNQLWVADFTYVSTWQ-GWVYVAFIIDVFAR-RIVGWRVSSSMDTDFVLDALEQAL  162 (277)
T ss_pred             CCCCCcccCCCCCC---------CCCCeEEeceeEEEeCC-CCEEEEEecccCCC-eeeecccCCCCChHHHHHHHHHHH
Confidence            00011222222111         13568999999975443 45677777776655 467888887777776555555544


Q ss_pred             HhcCCCCcEEEEecCcccH
Q 007314          288 SAVSTSQQITFIADFQNGL  306 (608)
Q Consensus       288 ~~~~~~~~~~iitD~~~~l  306 (608)
                      ...+...+..|.||+....
T Consensus       163 ~~~~~~~~~i~~sD~G~~y  181 (277)
T PHA02517        163 WARGRPGGLIHHSDKGSQY  181 (277)
T ss_pred             HhcCCCcCcEeeccccccc
Confidence            4444333457779997643

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

Probab=94.79  E-value=1.2  Score=47.89  Aligned_cols=130  Identities=11%  Similarity=0.122  Sum_probs=85.8

Q ss_pred             cCCcccHHHHHHHHHHhcCCCC--cEEEEecCcccHHHHHhhhcCCccccchHHHHHHHHHhhhcccccHHHHHHHHHHH
Q 007314          273 AETEDNWHWFLQELKSAVSTSQ--QITFIADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKGQFSHEARRFMINDL  350 (608)
Q Consensus       273 ~E~~~~~~w~l~~l~~~~~~~~--~~~iitD~~~~l~~Ai~~vfP~a~~~~C~~Hi~~n~~~~~~~~~~~~~~~~~~~~~  350 (608)
                      ..+.+-|..+++.+.+......  -+++.+|+.+.+.+++. .+|.+.|.+..||+.+.+.+.++...      .+...+
T Consensus       235 ~~~~~~~~~v~~~i~~~Y~~~~~~~iiingDGa~WIk~~~~-~~~~~~~~LD~FHl~k~i~~~~~~~~------~~~~~~  307 (470)
T PF06782_consen  235 ESAEEFWEEVLDYIYNHYDLDKTTKIIINGDGASWIKEGAE-FFPKAEYFLDRFHLNKKIKQALSHDP------ELKEKI  307 (470)
T ss_pred             cchHHHHHHHHHHHHHhcCcccceEEEEeCCCcHHHHHHHH-hhcCceEEecHHHHHHHHHHHhhhCh------HHHHHH
Confidence            4556788888888877765332  57788999999988776 99999999999999999999887531      344555


Q ss_pred             HHHhcCCCcccHHHHHHHHhccC---------hhHHHHHHhcCCCCccc--cccCCCcccccccchhHHHHHHHHh
Q 007314          351 YAAAYAPKFEGFQCSIESIKGIS---------PDAYDWVTQSEPEHWAN--TYFPGARYDHMTSNFGQQFYSWVSE  415 (608)
Q Consensus       351 ~~~~~~~t~~~f~~~~~~l~~~~---------~~~~~~l~~~~~~~W~~--~~~~~~~~~~~ttn~~Es~n~~lk~  415 (608)
                      +++.......+++..++.+....         .++..||..+    |..  +|..  +-+.......|+.++.+..
T Consensus       308 ~~al~~~d~~~l~~~L~~~~~~~~~~~~~~~i~~~~~Yl~~n----~~~i~~y~~--~~~~~g~g~ee~~~~~~s~  377 (470)
T PF06782_consen  308 RKALKKGDKKKLETVLDTAESCAKDEEERKKIRKLRKYLLNN----WDGIKPYRE--REGLRGIGAEESVSHVLSY  377 (470)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHC----HHHhhhhhh--ccCCCccchhhhhhhHHHH
Confidence            56666667777777776655422         1345566655    221  1111  0222334457777776643

>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

Probab=94.74  E-value=0.078  Score=38.91  Aligned_cols=40  Identities=20%  Similarity=0.375  Sum_probs=33.0

Q ss_pred             CeEEEEEEeccCCCeEEEEEEcCCcceEEEEeccCccccc
Q 007314           76 SHRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCE  115 (608)
Q Consensus        76 ~~r~~~~C~~~gC~~~v~~~~~~~~~~~~V~~~~~~H~c~  115 (608)
                      ..|..++|+..+|+++-.+.+..+.....++++.++|||+
T Consensus        20 ~pRsYYrCt~~~C~akK~Vqr~~~d~~~~~vtY~G~H~h~   59 (60)
T PF03106_consen   20 YPRSYYRCTHPGCPAKKQVQRSADDPNIVIVTYEGEHNHP   59 (60)
T ss_dssp             CEEEEEEEECTTEEEEEEEEEETTCCCEEEEEEES--SS-
T ss_pred             eeeEeeeccccChhheeeEEEecCCCCEEEEEEeeeeCCC
Confidence            3577899999999999999998877788999999999996

The WRKY domain is found in one or two copies in a superfamily of plant transcription factors involved in the regulation of various physiological programs that are unique to plants, including pathogen defence, senescence, trichome development and the biosynthesis of secondary metabolites. The WRKY domain binds specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box. The invariant TGAC core of the W box is essential for function and WRKY binding []. Some proteins known to contain a WRKY domain include Arabidopsis thaliana ZAP1 (Zinc-dependent Activator Protein-1) and AtWRKY44/TTG2, a protein involved in trichome development and anthocyanin pigmentation; and wild oat ABF1-2, two proteins involved in the gibberelic acid-induced expression of the alpha-Amy2 gene. Structural studies indicate that this domain is a four-stranded beta-sheet with a zinc binding pocket, forming a novel zinc and DNA binding structure []. The WRKYGQK residues correspond to the most N-terminal beta-strand, which enables extensive hydrophobic interactions, contributing to the structural stability of the beta-sheet.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2AYD_A 1WJ2_A 2LEX_A.

>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

Probab=94.09  E-value=0.11  Score=53.29  Aligned_cols=57  Identities=16%  Similarity=0.442  Sum_probs=51.3

Q ss_pred             cccceeCCHHHHHHHHHHHHHhcCceEEEEeeC-CeEEEEEEeccCCCeEEEEEEcCC
Q 007314           43 GVDQRFSSFSEFREALHKYSIAHGFAYRYKKND-SHRVTVKCKCQGCPWRIYASRLST   99 (608)
Q Consensus        43 ~vG~~F~s~~e~~~~~~~ya~~~gf~~~~~~s~-~~r~~~~C~~~gC~~~v~~~~~~~   99 (608)
                      ..+..|++.++-+.+|+.|..+....|..+.|- .+.++|.|....|||+|.++..+.
T Consensus        23 ~~~~~f~tl~~wy~v~ndyefq~rcpiilknsh~nkhftfachlk~c~fkillsy~g~   80 (496)
T PF04684_consen   23 AQARKFPTLEAWYNVINDYEFQSRCPIILKNSHRNKHFTFACHLKNCPFKILLSYCGN   80 (496)
T ss_pred             ccccCCCcHHHHHHHHhhhhhhhcCceeecccccccceEEEeeccCCCceeeeeeccc
Confidence            356789999999999999999999999998884 567999999999999999998765

ABF1 is known to remodel chromatin, and it is proposed that it mediates its effects on transcription and gene expression by modifying local chromatin architecture []. These functions require a conserved stretch of 20 amino acids in the C-terminal region of ABF1 (amino acids 639 to 662 Saccharomyces cerevisiae (P14164 from SWISSPROT)) []. The N-terminal two thirds of the protein are necessary for DNA binding, and the N terminus (amino acids 9 to 91 in S. cerevisiae) is thought to contain a novel zinc-finger motif which may stabilise the protein structure [].; GO: 0003677 DNA binding, 0006338 chromatin remodeling, 0005634 nucleus

>COG3316 Transposase and inactivated derivatives [DNA replication, recombination, and repair]

Probab=93.66  E-value=0.63  Score=43.48  Aligned_cols=120  Identities=13%  Similarity=0.134  Sum_probs=81.8

Q ss_pred             HHHHHhCCcccHHHHHHHHHHHHHHHhcChHhHhccHHHHHHHHHhhCCCcEEEEEecCCCceeEEEeehhhhHHHHhhc
Q 007314          152 DIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSFHASISGFQQG  231 (608)
Q Consensus       152 ~v~~~~g~~~s~~~~~~~k~~~~~~~~g~~~~~~~~L~~~~~~~~~~npg~~~~~~~~~~~~~~~if~~~~~~~~~~~~~  231 (608)
                      .+..+.|+.+.+.++++.-++.-.              .+.+.+.+.++.                              
T Consensus        33 e~l~~rgi~v~h~Ti~rwv~k~~~--------------~~~~~~~~r~~~------------------------------   68 (215)
T COG3316          33 EMLAERGIEVDHETIHRWVQKYGP--------------LLARRLKRRKRK------------------------------   68 (215)
T ss_pred             HHHHHcCcchhHHHHHHHHHHHhH--------------HHHHHhhhhccc------------------------------
Confidence            345578999999999887665432              233455555433                              


Q ss_pred             CccEEEeecccccCccceeEEEEEEecCCCCeEEEEEEEeecCCcccHHHHHHHHHHhcCCCCcEEEEecCcccHHHHHh
Q 007314          232 CRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKSLA  311 (608)
Q Consensus       232 ~~~vi~~D~T~~~~~y~~~l~~~~g~d~~~~~~~~a~a~~~~E~~~~~~w~l~~l~~~~~~~~~~~iitD~~~~l~~Ai~  311 (608)
                      -.+++.+|-||.+-.-+ -.+.-..+|.+|  .++.+-|...-+...=.-||..+++..  ..|.+|+||+.+....|+.
T Consensus        69 ~~~~w~vDEt~ikv~gk-w~ylyrAid~~g--~~Ld~~L~~rRn~~aAk~Fl~kllk~~--g~p~v~vtDka~s~~~A~~  143 (215)
T COG3316          69 AGDSWRVDETYIKVNGK-WHYLYRAIDADG--LTLDVWLSKRRNALAAKAFLKKLLKKH--GEPRVFVTDKAPSYTAALR  143 (215)
T ss_pred             cccceeeeeeEEeeccE-eeehhhhhccCC--CeEEEEEEcccCcHHHHHHHHHHHHhc--CCCceEEecCccchHHHHH
Confidence            35677888888743211 122334455554  467777877777777777787777776  6899999999999999999


Q ss_pred             hhcCCcccc
Q 007314          312 EVFDNCYHS  320 (608)
Q Consensus       312 ~vfP~a~~~  320 (608)
                      ++-+.+.|+
T Consensus       144 ~l~~~~ehr  152 (215)
T COG3316         144 KLGSEVEHR  152 (215)
T ss_pred             hcCcchhee
Confidence            998865554

>PF13696 zf-CCHC_2: Zinc knuckle

Probab=93.60  E-value=0.038  Score=34.38  Aligned_cols=19  Identities=26%  Similarity=0.693  Sum_probs=17.7

Q ss_pred             eeecCCcCCCCcCccCCCC
Q 007314          589 SLQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       589 ~~~C~~C~~~gHn~~tC~~  607 (608)
                      .+.|..|++.||..+.||.
T Consensus         8 ~Y~C~~C~~~GH~i~dCP~   26 (32)
T PF13696_consen    8 GYVCHRCGQKGHWIQDCPT   26 (32)
T ss_pred             CCEeecCCCCCccHhHCCC
Confidence            4899999999999999996

>PRK14702 insertion element IS2 transposase InsD; Provisional

Probab=93.45  E-value=8.6  Score=37.91  Aligned_cols=146  Identities=14%  Similarity=0.084  Sum_probs=86.0

Q ss_pred             chhhHHHHHHHHhhhCCCCCHHHHHHHHHHH---hCC-cccHHHHHHHHHHHHHHHhcChHhHhccHHHHHHHHHhhCCC
Q 007314          126 TRGWVGNIIKEKLKASPNYKPKDIADDIKRE---YGI-QLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPG  201 (608)
Q Consensus       126 s~~~i~~~~~~~l~~~~~~~~~~i~~~v~~~---~g~-~~s~~~~~~~k~~~~~~~~g~~~~~~~~L~~~~~~~~~~npg  201 (608)
                      ....+...+.+....++.+..+.|...|..+   .|. .++...++|..+..--..                ..+...+.
T Consensus         9 ~~~~l~~~I~~~~~~~~~yG~rri~~~L~~~~~~~g~~~v~~krV~rlmr~~gL~~----------------~~r~~~~~   72 (262)
T PRK14702          9 DDTDVLLRIHHVIGELPTYGYRRVWALLRRQAELDGMPAINAKRVYRLMRQNALLL----------------ERKPAVPP   72 (262)
T ss_pred             chHHHHHHHHHHHHhCcccChHHHHHHHHhhhcccCccccCHHHHHHHHHHhCCcc----------------ccCCCCCC
Confidence            3445666677766677889999999999875   366 488888877644321000                00000000


Q ss_pred             cEEEEEecCCCceeEEEeehhhhHHHHhhcCccEEEeecccccCccceeEEEEEEecCCCCeEEEEEEEeec-CCcccHH
Q 007314          202 SVVTFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDA-ETEDNWH  280 (608)
Q Consensus       202 ~~~~~~~~~~~~~~~if~~~~~~~~~~~~~~~~vi~~D~T~~~~~y~~~l~~~~g~d~~~~~~~~a~a~~~~-E~~~~~~  280 (608)
                      +.       .+... .|.         ...-..++..|-||.....++.++.++.+|...+ .+|||++... .+.+.-.
T Consensus        73 ~~-------~~~~~-~~~---------~~~pn~~W~~DiT~~~~~~g~~~Yl~~viD~~sR-~ivg~~is~~~~~~~~v~  134 (262)
T PRK14702         73 SK-------RAHTG-RVA---------VKESNQRWCSDGFEFCCDNGERLRVTFALDCCDR-EALHWAVTTGGFNSETVQ  134 (262)
T ss_pred             CC-------cCCCC-ccc---------cCCCCCEEEeeeEEEEecCCcEEEEEEEEecccc-eeeeEEeccCcCCHHHHH
Confidence            00       00000 010         0113468999999976544556888888887776 6789999874 5655555


Q ss_pred             HHHHHH-HHhcC---CCCcEEEEecCccc
Q 007314          281 WFLQEL-KSAVS---TSQQITFIADFQNG  305 (608)
Q Consensus       281 w~l~~l-~~~~~---~~~~~~iitD~~~~  305 (608)
                      -+|+.. ....+   ...|..|.||+...
T Consensus       135 ~~l~~A~~~~~~~~~~~~~~iihSD~Gsq  163 (262)
T PRK14702        135 DVMLGAVERRFGNDLPSSPVEWLTDNGSC  163 (262)
T ss_pred             HHHHHHHHHHhcccCCCCCeEEEcCCCcc
Confidence            555543 33322   23578899999663

>PF03050 DDE_Tnp_IS66: Transposase IS66 family ; InterPro: IPR004291 Transposase proteins are necessary for efficient DNA transposition

Probab=92.61  E-value=0.54  Score=46.71  Aligned_cols=133  Identities=20%  Similarity=0.249  Sum_probs=86.4

Q ss_pred             CCCCHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHHhcChHhHhccHHHHHHHHHhhCCCcEEEEEecCCCceeEEEeeh
Q 007314          142 PNYKPKDIADDIKREYGIQLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVVTFTTKEDSSFHRLFVSF  221 (608)
Q Consensus       142 ~~~~~~~i~~~v~~~~g~~~s~~~~~~~k~~~~~~~~g~~~~~~~~L~~~~~~~~~~npg~~~~~~~~~~~~~~~if~~~  221 (608)
                      -.++...+.+.+.+. |+.+|.+++.+....+.+.+..    .|       +.+.+.                       
T Consensus        19 ~~lp~~r~~~~~~~~-G~~is~~ti~~~~~~~~~~l~~----~~-------~~l~~~-----------------------   63 (271)
T PF03050_consen   19 YHLPLYRIQQMLEDL-GITISRGTIANWIKRVAEALKP----LY-------EALKEE-----------------------   63 (271)
T ss_pred             CCCCHHHHhhhhhcc-ceeeccchhHhHhhhhhhhhhh----hh-------hhhhhh-----------------------
Confidence            356677777777777 9999999888876665543321    11       122221                       


Q ss_pred             hhhHHHHhhcCccEEEeeccccc----Ccc-ceeEEEEEEecCCCCeEEEEEEEeecCCcccHHHHHHHHHHhcCCCCcE
Q 007314          222 HASISGFQQGCRPLLFLDTTPLN----SKY-QGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQI  296 (608)
Q Consensus       222 ~~~~~~~~~~~~~vi~~D~T~~~----~~y-~~~l~~~~g~d~~~~~~~~a~a~~~~E~~~~~~w~l~~l~~~~~~~~~~  296 (608)
                            ..  -.+|+.+|-|...    ++. ++-+-++++.+      .+.|.+.++=..+...-+|..        -.-
T Consensus        64 ------~~--~~~~~~~DET~~~vl~~~~g~~~~~Wv~~~~~------~v~f~~~~sR~~~~~~~~L~~--------~~G  121 (271)
T PF03050_consen   64 ------LR--SSPVVHADETGWRVLDKGKGKKGYLWVFVSPE------VVLFFYAPSRSSKVIKEFLGD--------FSG  121 (271)
T ss_pred             ------cc--ccceeccCCceEEEeccccccceEEEeeeccc------eeeeeecccccccchhhhhcc--------cce
Confidence                  01  3578888888766    333 33444444444      566666666666666655543        224


Q ss_pred             EEEecCcccHHHHHhhhcCCccccchHHHHHHHHHhhhcc
Q 007314          297 TFIADFQNGLNKSLAEVFDNCYHSYCLRHLAEKLNRDIKG  336 (608)
Q Consensus       297 ~iitD~~~~l~~Ai~~vfP~a~~~~C~~Hi~~n~~~~~~~  336 (608)
                      +++||+-.+-..     +.++.|+.|+.|+.+.+..-...
T Consensus       122 ilvsD~y~~Y~~-----~~~~~hq~C~AH~~R~~~~~~~~  156 (271)
T PF03050_consen  122 ILVSDGYSAYNK-----LAGITHQLCWAHLRRDFQDAAES  156 (271)
T ss_pred             eeeccccccccc-----ccccccccccccccccccccccc
Confidence            899999887644     23889999999999999887664

This family includes the bacterial insertion sequence (IS) element, IS66, from Agrobacterium tumefaciens []. IS66 may cause genetic and structural variations of the T region and the vir region of the octopine Ti plasmids []. More information about these proteins can be found at Protein of the Month: Transposase [].

>PF04500 FLYWCH: FLYWCH zinc finger domain; InterPro: IPR007588 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=90.37  E-value=0.47  Score=34.89  Aligned_cols=46  Identities=20%  Similarity=0.509  Sum_probs=25.6

Q ss_pred             cCceEEEEeeCCeEEEEEEecc---CCCeEEEEEEcCCcceEEEEeccCcccc
Q 007314           65 HGFAYRYKKNDSHRVTVKCKCQ---GCPWRIYASRLSTTQLVCIKKMNSKHTC  114 (608)
Q Consensus        65 ~gf~~~~~~s~~~r~~~~C~~~---gC~~~v~~~~~~~~~~~~V~~~~~~H~c  114 (608)
                      .|+.|...+.......+.|...   +|+++|...  .+.  -.|.....+|||
T Consensus        14 ~Gy~y~~~~~~~~~~~WrC~~~~~~~C~a~~~~~--~~~--~~~~~~~~~HnH   62 (62)
T PF04500_consen   14 DGYRYYFNKRNDGKTYWRCSRRRSHGCRARLITD--AGD--GRVVRTNGEHNH   62 (62)
T ss_dssp             TTEEEEEEEE-SS-EEEEEGGGTTS----EEEEE----T--TEEEE-S---SS
T ss_pred             CCeEEECcCCCCCcEEEEeCCCCCCCCeEEEEEE--CCC--CEEEECCCccCC
Confidence            6788888777788889999864   899999998  222  345555578887

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a potential FLYWCH Zn-finger domain found in a number of eukaryotic proteins. FLYWCH is a C2H2-type zinc finger characterised by five conserved hydrophobic residues, containing the conserved sequence motif: F/Y-X(n)-L-X(n)-F/Y-X(n)-WXCX(6-12)CX(17-22)HXH where X indicates any amino acid. This domain was first characterised in Drosophila Modifier of mdg4 proteins, Mod(mgd4), putative chromatin modulators involved in higher order chromatin domains. Mod(mdg4) proteins share a common N-terminal BTB/POZ domain, but differ in their C-terminal region, most containing C-terminal FLYWCH zinc finger motifs []. The FLYWCH domain in Mod(mdg4) proteins has a putative role in protein-protein interactions; for example, Mod(mdg4)-67.2 interacts with DNA-binding protein Su(Hw) via its FLYWCH domain. FLYWCH domains have been described in other proteins as well, including suppressor of killer of prune, Su(Kpn), which contains 4 terminal FLYWCH zinc finger motifs in a tandem array and a C-terminal glutathione SH-transferase (GST) domain []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2RPR_A.

>PRK09409 IS2 transposase TnpB; Reviewed

Probab=90.26  E-value=5.8  Score=40.01  Aligned_cols=143  Identities=14%  Similarity=0.095  Sum_probs=84.3

Q ss_pred             hHHHHHHHHhhhCCCCCHHHHHHHHHHHh---CC-cccHHHHHHHHHHHHHHHhcChHhHhccHHHHHHHHHhhCCCcEE
Q 007314          129 WVGNIIKEKLKASPNYKPKDIADDIKREY---GI-QLNYSQAWRAKEIAREQLQGSYKDSYTLLPFFCEKIKETNPGSVV  204 (608)
Q Consensus       129 ~i~~~~~~~l~~~~~~~~~~i~~~v~~~~---g~-~~s~~~~~~~k~~~~~~~~g~~~~~~~~L~~~~~~~~~~npg~~~  204 (608)
                      .+...+.+.....+.+..+.|...|..+.   |. .++..+++|..+..--  .+              ..+...+.+. 
T Consensus        51 ~l~~~I~~i~~~~~~yG~Rri~~~L~~~g~~~g~~~v~~k~V~RlMr~~Gl--~~--------------~~~~~~~~~~-  113 (301)
T PRK09409         51 DVLLRIHHVIGELPTYGYRRVWALLRRQAELDGMPAINAKRVYRIMRQNAL--LL--------------ERKPAVPPSK-  113 (301)
T ss_pred             HHHHHHHHHHHhCccCCHHHHHHHHHhhhcccCccccCHHHHHHHHHHcCC--cc--------------cccCCCCCCC-
Confidence            34555666656678899999999998753   66 5888877775433210  00              0000000000 


Q ss_pred             EEEecCCCceeEEEeehhhhHHHHhhcCccEEEeecccccCccceeEEEEEEecCCCCeEEEEEEEeec-CCcccHHHHH
Q 007314          205 TFTTKEDSSFHRLFVSFHASISGFQQGCRPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDA-ETEDNWHWFL  283 (608)
Q Consensus       205 ~~~~~~~~~~~~if~~~~~~~~~~~~~~~~vi~~D~T~~~~~y~~~l~~~~g~d~~~~~~~~a~a~~~~-E~~~~~~w~l  283 (608)
                            .+.... |.         ...-..+++.|-||....-++-++.++.+|...+ .+|||++... .+.+.-..+|
T Consensus       114 ------~~~~~~-~~---------~~~pN~~W~tDiT~~~~~~g~~~Yl~~ViD~~sR-~ivg~~~s~~~~~~~~v~~~l  176 (301)
T PRK09409        114 ------RAHTGR-VA---------VKESNQRWCSDGFEFCCDNGERLRVTFALDCCDR-EALHWAVTTGGFNSETVQDVM  176 (301)
T ss_pred             ------CCCCCC-cC---------CCCCCCEEEeeeEEEEeCCCCEEEEEEEeecccc-eEEEEEeccCCCCHHHHHHHH
Confidence                  000000 10         1114569999999976544556888888888777 6789999875 5666655566


Q ss_pred             HH-HHHhcC---CCCcEEEEecCccc
Q 007314          284 QE-LKSAVS---TSQQITFIADFQNG  305 (608)
Q Consensus       284 ~~-l~~~~~---~~~~~~iitD~~~~  305 (608)
                      +. +....+   ...|..|-||+...
T Consensus       177 ~~a~~~~~~~~~~~~~~iihSDrGsq  202 (301)
T PRK09409        177 LGAVERRFGNDLPSSPVEWLTDNGSC  202 (301)
T ss_pred             HHHHHHHhccCCCCCCcEEecCCCcc
Confidence            54 444333   22478899999664

>smart00774 WRKY DNA binding domain

Probab=89.33  E-value=0.46  Score=34.61  Aligned_cols=38  Identities=26%  Similarity=0.412  Sum_probs=31.8

Q ss_pred             eEEEEEEec-cCCCeEEEEEEcCCcceEEEEeccCcccc
Q 007314           77 HRVTVKCKC-QGCPWRIYASRLSTTQLVCIKKMNSKHTC  114 (608)
Q Consensus        77 ~r~~~~C~~-~gC~~~v~~~~~~~~~~~~V~~~~~~H~c  114 (608)
                      -|..++|+. .||+++=.+.+..+.....++.+.++|||
T Consensus        21 pRsYYrCt~~~~C~a~K~Vq~~~~d~~~~~vtY~g~H~h   59 (59)
T smart00774       21 PRSYYRCTYSQGCPAKKQVQRSDDDPSVVEVTYEGEHTH   59 (59)
T ss_pred             cceEEeccccCCCCCcccEEEECCCCCEEEEEEeeEeCC
Confidence            466799998 89999988888765567788899999997

The WRKY domain is a DNA binding domain found in one or two copies in a superfamily of plant transcription factors. These transcription factors are involved in the regulation of various physiological programs that are unique to plants, including pathogen defense, senescence and trichome development. The 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. It binds specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box. The invariant TGAC core is essential for function and WRKY binding.

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

Probab=87.93  E-value=1.8  Score=36.58  Aligned_cols=74  Identities=16%  Similarity=0.090  Sum_probs=54.3

Q ss_pred             ccEEEeeccccc-CccceeEEEEEEecCCCCeEEEEEEEeecCCcccHHHHHHHHHHhcCCCCcEEEEecCcccHH
Q 007314          233 RPLLFLDTTPLN-SKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGLN  307 (608)
Q Consensus       233 ~~vi~~D~T~~~-~~y~~~l~~~~g~d~~~~~~~~a~a~~~~E~~~~~~w~l~~l~~~~~~~~~~~iitD~~~~l~  307 (608)
                      ..++.+|.++.. ...++..+..+.+|..-+. .+++.+-..++.+.+..+|.......+...|.+|++|+..+..
T Consensus         6 ~~~~~~D~~~~~~~~~~~~~~~~~~iD~~S~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~p~~i~tD~g~~f~   80 (120)
T PF00665_consen    6 GERWQIDFTPMPIPDKGGRVYLLVFIDDYSRF-IYAFPVSSKETAEAALRALKRAIEKRGGRPPRVIRTDNGSEFT   80 (120)
T ss_dssp             TTEEEEEEEEETGGCTT-CEEEEEEEETTTTE-EEEEEESSSSHHHHHHHHHHHHHHHHS-SE-SEEEEESCHHHH
T ss_pred             CCEEEEeeEEEecCCCCccEEEEEEEECCCCc-EEEEEeecccccccccccccccccccccccceecccccccccc
Confidence            457899999664 3455578888888877664 4577777777888888888877777666559999999998765

However, the manner in which the N-terminal, catalytic, and C-terminal domains interact in the holoenzyme remains obscure. Numerous studies indicate that the enzyme functions as a multimer, minimally a dimer. The integrase proteins from Human immunodeficiency virus 1 (HIV-1) and Avian sarcoma virus (ASV) have been studied most carefully with respect to the structural basis of catalysis. Although the active site of ASV integrase does not undergo significant conformational changes on binding the required metal cofactor, that of HIV-1 does. This active site-mediated conformational change in HIV-1 reorganises the catalytic core and C-terminal domains and appears to promote an interaction that is favourable for catalysis []. Retroviral integrase is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. The presence of retrovirus integrase-related gene sequences in eukaryotes is known. Bacterial transposases involved in the transposition of the insertion sequence also belong to this group. HIV integrase catalyses the incorporation of virally derived DNA into the human genome. This unique step in the virus life cycle provides a variety of points for intervention and hence is an attractive target for the development of new therapeutics for the treatment of AIDS []. Substrate recognition by the retroviral integrase enzyme is critical for retroviral integration. To catalyse this recombination event, integrase must recognise and act on two types of substrates, viral DNA and host DNA, yet the necessary interactions exhibit markedly different degrees of specificity [].; GO: 0015074 DNA integration; PDB: 3AO3_A 3OVN_A 3AO5_A 3AO4_A 3AO1_A 1C6V_D 3HPG_A 3HPH_A 3OYD_A 3OYF_B ....

>PF14392 zf-CCHC_4: Zinc knuckle

Probab=86.54  E-value=0.28  Score=34.41  Aligned_cols=19  Identities=32%  Similarity=0.800  Sum_probs=17.2

Q ss_pred             eeecCCcCCCCcCccCCCC
Q 007314          589 SLQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       589 ~~~C~~C~~~gHn~~tC~~  607 (608)
                      ...|+.||..||+.+.||+
T Consensus        31 p~~C~~C~~~gH~~~~C~k   49 (49)
T PF14392_consen   31 PRFCFHCGRIGHSDKECPK   49 (49)
T ss_pred             ChhhcCCCCcCcCHhHcCC
Confidence            4689999999999999985

>smart00343 ZnF_C2HC zinc finger

Probab=86.02  E-value=0.37  Score=28.64  Aligned_cols=16  Identities=31%  Similarity=0.862  Sum_probs=14.8

Q ss_pred             ecCCcCCCCcCccCCC
Q 007314          591 QCSKCKGLGHNKKTCK  606 (608)
Q Consensus       591 ~C~~C~~~gHn~~tC~  606 (608)
                      .|.+|++.||..+.||
T Consensus         1 ~C~~CG~~GH~~~~C~   16 (26)
T smart00343        1 KCYNCGKEGHIARDCP   16 (26)
T ss_pred             CCccCCCCCcchhhCC
Confidence            4889999999999998

>PF13565 HTH_32: Homeodomain-like domain

Probab=84.18  E-value=2.7  Score=32.43  Aligned_cols=40  Identities=25%  Similarity=0.551  Sum_probs=33.8

Q ss_pred             HHHHHHHHhhhCCCCCHHHHHHHHHHHhCCcc--cHHHHHHH
Q 007314          130 VGNIIKEKLKASPNYKPKDIADDIKREYGIQL--NYSQAWRA  169 (608)
Q Consensus       130 i~~~~~~~l~~~~~~~~~~i~~~v~~~~g~~~--s~~~~~~~  169 (608)
                      +...+.+.+..+|.+++.+|.+.|.+++|+.+  |.+++||.
T Consensus        35 ~~~~i~~~~~~~p~wt~~~i~~~L~~~~g~~~~~S~~tv~R~   76 (77)
T PF13565_consen   35 QRERIIALIEEHPRWTPREIAEYLEEEFGISVRVSRSTVYRI   76 (77)
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCCccHhHHHHh
Confidence            33566677778899999999999999999876  99999874

>PF04937 DUF659: Protein of unknown function (DUF 659); InterPro: IPR007021 These are transposase-like proteins with no known function

Probab=81.73  E-value=8.1  Score=34.56  Aligned_cols=63  Identities=19%  Similarity=0.331  Sum_probs=50.7

Q ss_pred             CCcccHHHHHHHHHHhcCCCCcEEEEecCcccHHHH---HhhhcCCccccchHHHHHHHHHhhhcc
Q 007314          274 ETEDNWHWFLQELKSAVSTSQQITFIADFQNGLNKS---LAEVFDNCYHSYCLRHLAEKLNRDIKG  336 (608)
Q Consensus       274 E~~~~~~w~l~~l~~~~~~~~~~~iitD~~~~l~~A---i~~vfP~a~~~~C~~Hi~~n~~~~~~~  336 (608)
                      .+.+....+|+...+.+|..+..-||||....+.+|   +.+-+|......|.-|-+.-+.+.+..
T Consensus        73 ~~a~~l~~ll~~vIeeVG~~nVvqVVTDn~~~~~~a~~~L~~k~p~ifw~~CaaH~inLmledi~k  138 (153)
T PF04937_consen   73 KTAEYLFELLDEVIEEVGEENVVQVVTDNASNMKKAGKLLMEKYPHIFWTPCAAHCINLMLEDIGK  138 (153)
T ss_pred             ccHHHHHHHHHHHHHHhhhhhhhHHhccCchhHHHHHHHHHhcCCCEEEechHHHHHHHHHHHHhc
Confidence            456666677777777778778888999999998888   566789999999999998888777664

>PF02178 AT_hook: AT hook motif; InterPro: IPR017956 AT hooks are DNA-binding motifs with a preference for A/T rich regions

Probab=80.51  E-value=0.74  Score=22.49  Aligned_cols=9  Identities=44%  Similarity=0.896  Sum_probs=3.5

Q ss_pred             CCCCCCCCC
Q 007314          570 RPPGRPKMK  578 (608)
Q Consensus       570 r~~GRPk~~  578 (608)
                      +++|||++.
T Consensus         2 r~RGRP~k~   10 (13)
T PF02178_consen    2 RKRGRPRKN   10 (13)
T ss_dssp             --SS--TT-
T ss_pred             CcCCCCccc
Confidence            679999875

These motifs are found in a variety of proteins, including the high mobility group (HMG) proteins [], in DNA-binding proteins from plants [] and in hBRG1 protein, a central ATPase of the human switching/sucrose non-fermenting (SWI/SNF) remodeling complex []. High mobility group (HMG) proteins are a family of relatively low molecular weight non-histone components in chromatin []. HMG-I and HMG-Y (HMGA) are proteins of about 100 amino acid residues which are produced by the alternative splicing of a single gene. HMG-I/Y proteins bind preferentially to the minor groove of AT-rich regions in double-stranded DNA in a non-sequence specific manner [, ]. It is suggested that these proteins could function in nucleosome phasing and in the 3' end processing of mRNA transcripts. They are also involved in the transcription regulation of genes containing, or in close proximity to, AT-rich regions. ; GO: 0003677 DNA binding; PDB: 2EZE_A 2EZD_A 2EZF_A 2EZG_A.

---

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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	608
1nc8_A	29	Nucleocapsid protein; HIV-2, RNA recognition, zinc	95.01
2ayd_A	76	WRKY transcription factor 1; beta strands, zinc fi	94.8
1wj2_A	78	Probable WRKY transcription factor 4; DNA-binding	93.77
1a6b_B	40	Momulv, zinc finger protein NCP10; nucleocapsid pr	93.63
1dsq_A	26	Nucleic acid binding protein P14; CCHC type zinc f	93.48
1u6p_A	56	GAG polyprotein; MLV, A-minor K-turn, stem loop, b	92.26
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	90.29
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	88.75
3hot_A	345	Transposable element mariner, complete CDS; protei	88.28
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	86.73
2ysa_A	55	Retinoblastoma-binding protein 6; zinc finger, CCH	86.68
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	85.87
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	84.37
2rpr_A	87	Flywch-type zinc finger-containing protein 1; flyw	84.36
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	83.09
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	80.8

>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

Probab=95.01  E-value=0.01  Score=35.59  Aligned_cols=21  Identities=24%  Similarity=0.855  Sum_probs=18.2

Q ss_pred             cceeecCCcCCCCcCccCCCC
Q 007314          587 KRSLQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       587 kr~~~C~~C~~~gHn~~tC~~  607 (608)
                      ++...|-+|++.||..+.|+.
T Consensus         4 r~~~~C~nCgk~GH~ar~C~~   24 (29)
T 1nc8_A            4 RKVIRCWNCGKEGHSARQCRA   24 (29)
T ss_dssp             CCCCBCTTTSCBSSCGGGCCS
T ss_pred             CCCCEEEECCccccCHhHCcc
Confidence            345789999999999999985

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

Probab=94.80  E-value=0.063  Score=40.08  Aligned_cols=41  Identities=24%  Similarity=0.416  Sum_probs=35.9

Q ss_pred             eEEEEEEeccCCCeEEEEEEcCCcceEEEEeccCccccccc
Q 007314           77 HRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGA  117 (608)
Q Consensus        77 ~r~~~~C~~~gC~~~v~~~~~~~~~~~~V~~~~~~H~c~~~  117 (608)
                      -|-.++|+..||+++-.+.+..+.....++.+.++|||..+
T Consensus        34 PRsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~p   74 (76)
T 2ayd_A           34 PRSYYRCSSPGCPVKKHVERSSHDTKLLITTYEGKHDHDMP   74 (76)
T ss_dssp             CEEEEEECSTTCCCEEEEEECSSSTTEEEEEEESCCSSCCC
T ss_pred             ceeEeEcCCCCCCceeeEEEECCCCCEEEEEEccCcCCCCC
Confidence            37779999999999999999877777889999999999864

>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*

Probab=93.77  E-value=0.12  Score=38.71  Aligned_cols=41  Identities=24%  Similarity=0.364  Sum_probs=35.2

Q ss_pred             eEEEEEEeccCCCeEEEEEEcCCcceEEEEeccCccccccc
Q 007314           77 HRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGA  117 (608)
Q Consensus        77 ~r~~~~C~~~gC~~~v~~~~~~~~~~~~V~~~~~~H~c~~~  117 (608)
                      -|-.++|+..||+++-.+.+..+.....++.+.++|||..+
T Consensus        37 PRsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~p   77 (78)
T 1wj2_A           37 PRSYYKCTTPGCGVRKHVERAATDPKAVVTTYEGKHNHDLP   77 (78)
T ss_dssp             CEEEEEEECSSCEEEEEEEEETTTTSEEEEEEESCCSSCCC
T ss_pred             eeEEeecCcCCCCcEeeEEEEcCCCCEEEEEEeeEcCCCCC
Confidence            36779999999999999999776667788899999999864

>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

Probab=93.63  E-value=0.033  Score=36.03  Aligned_cols=19  Identities=42%  Similarity=0.772  Sum_probs=17.5

Q ss_pred             eeecCCcCCCCcCccCCCC
Q 007314          589 SLQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       589 ~~~C~~C~~~gHn~~tC~~  607 (608)
                      ...|-.|++.||-.+.||.
T Consensus        10 ~~~C~~Cgk~GH~ardCP~   28 (40)
T 1a6b_B           10 RDQCAYCKEKGHWAKDCPK   28 (40)
T ss_dssp             SSSCSSSCCTTCCTTSCSS
T ss_pred             CCeeeECCCCCcchhhCcC
Confidence            4789999999999999996

>1dsq_A Nucleic acid binding protein P14; CCHC type zinc finger, virus/viral protein; NMR {Mouse mammary tumor virus} SCOP: g.40.1.1

Probab=93.48  E-value=0.034  Score=32.33  Aligned_cols=18  Identities=39%  Similarity=0.853  Sum_probs=16.6

Q ss_pred             eecCCcCCCCcCccCCCC
Q 007314          590 LQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       590 ~~C~~C~~~gHn~~tC~~  607 (608)
                      ..|-+|++.||..+.||.
T Consensus         3 ~~Cf~CG~~GH~ardC~~   20 (26)
T 1dsq_A            3 PVCFSCGKTGHIKRDCKE   20 (26)
T ss_dssp             CBCTTTCCBSSCTTTTTC
T ss_pred             CeeEeCCCCCcccccCCC
Confidence            579999999999999985

>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

Probab=92.26  E-value=0.073  Score=37.32  Aligned_cols=20  Identities=40%  Similarity=0.728  Sum_probs=17.9

Q ss_pred             ceeecCCcCCCCcCccCCCC
Q 007314          588 RSLQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       588 r~~~C~~C~~~gHn~~tC~~  607 (608)
                      ...+|-.||+.||..+.||.
T Consensus        22 ~~~~C~~Cge~GH~ardCp~   41 (56)
T 1u6p_A           22 DRDQCAYCKEKGHWAKDCPK   41 (56)
T ss_dssp             CTTBCSSSCCBSSCGGGCTT
T ss_pred             CCCcceeCCCCCcccccCcC
Confidence            34689999999999999996

>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

Probab=90.29  E-value=0.14  Score=34.91  Aligned_cols=19  Identities=32%  Similarity=0.683  Sum_probs=14.1

Q ss_pred             eeecCCcCCCCcCccCCCC
Q 007314          589 SLQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       589 ~~~C~~C~~~gHn~~tC~~  607 (608)
                      ...|-.|++.||-.+.||.
T Consensus        27 ~~~C~~Cg~~GH~~~~C~~   45 (49)
T 2ec7_A           27 RQGCWKCGKTGHVMAKCPE   45 (49)
T ss_dssp             CCSCSSSCCSSCCGGGCCS
T ss_pred             CCeeCcCCCcCCccCCCcC
Confidence            4567778888888888775

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

Probab=88.75  E-value=0.18  Score=32.48  Aligned_cols=18  Identities=22%  Similarity=0.503  Sum_probs=16.5

Q ss_pred             eecCCcCCCCcCccCCCC
Q 007314          590 LQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       590 ~~C~~C~~~gHn~~tC~~  607 (608)
                      ..|-+|++.||-.+.||+
T Consensus        22 ~~C~~Cg~~GH~~~~C~~   39 (39)
T 2a51_A           22 EGCWNCGSKEHRFAQCPK   39 (39)
T ss_dssp             SSCTTTCCSSSCTTTSCC
T ss_pred             CccccCCCCCCccCcCcC
Confidence            579999999999999985

>3hot_A Transposable element mariner, complete CDS; protein-DNA complex, synaptic complex, transposase, inverted DNA, DNA binding protein-DNA complex; HET: 5IU; 3.25A {Drosophila mauritiana} PDB: 3hos_A*

Probab=88.28  E-value=6.5  Score=38.87  Aligned_cols=58  Identities=10%  Similarity=0.214  Sum_probs=39.5

Q ss_pred             ccceeEEEEEEecCCCCeEEEEEEEee---cCCcccHHHHHHHHHHhc----CC----CCcEEEEecCcccH
Q 007314          246 KYQGTLLTATSADGDDGIFPVAFAVVD---AETEDNWHWFLQELKSAV----ST----SQQITFIADFQNGL  306 (608)
Q Consensus       246 ~y~~~l~~~~g~d~~~~~~~~a~a~~~---~E~~~~~~w~l~~l~~~~----~~----~~~~~iitD~~~~l  306 (608)
                      .+++.+++..+.+..|   .+++.+++   .-+.+.|..+|+.+...+    +.    ..+.+|+.|....-
T Consensus       186 ~~~~~~~v~~~~~~~g---~~~~~~~~~~~~~~~~~y~~~L~~~~~~~~~~~p~~~~~~~~~~~~~Dna~~h  254 (345)
T 3hot_A          186 RFGKKTMLCVWWDQSG---VIYYELLKPGETVNAARYQQQLINLNRALQRKRPEYQKRQHRVIFLHDNAPSH  254 (345)
T ss_dssp             TTCCEEEEEEEEESSS---EEEEEEECSSCCCCHHHHHHHHHHHHHHHHHHSTTCC---CCCEEECCCCTTT
T ss_pred             CcCCcEEEEEEEcccC---ceeeEecCCCCcccHHHHHHHHHHHHHHHHHhchhhhcCCCceEEEECCCCcc
Confidence            4556777777777777   57777776   567788888887765543    22    34678999997643

>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}

Probab=86.73  E-value=0.29  Score=31.04  Aligned_cols=15  Identities=53%  Similarity=1.116  Sum_probs=7.8

Q ss_pred             cCCcCCCCcCccCCC
Q 007314          592 CSKCKGLGHNKKTCK  606 (608)
Q Consensus       592 C~~C~~~gHn~~tC~  606 (608)
                      |-+|++.||-.+.||
T Consensus        22 C~~Cg~~GH~a~~C~   36 (37)
T 2bl6_A           22 CFKCKQPGHFSKQCR   36 (37)
T ss_dssp             CSSCCCTTGGGGTTC
T ss_pred             EccCCCcCCccCcCc
Confidence            444555555555554

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

Probab=86.68  E-value=0.27  Score=34.23  Aligned_cols=20  Identities=30%  Similarity=0.705  Sum_probs=17.6

Q ss_pred             ceeecCCcCCCCcCccCCCC
Q 007314          588 RSLQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       588 r~~~C~~C~~~gHn~~tC~~  607 (608)
                      +.+.|-+|++.||-.+.||.
T Consensus         6 ~~~~C~kCGk~GH~~k~Cp~   25 (55)
T 2ysa_A            6 SGYTCFRCGKPGHYIKNCPT   25 (55)
T ss_dssp             SSCCCTTTCCTTSCGGGCSG
T ss_pred             CCCccccCCCcCcccccCCC
Confidence            34789999999999999993

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

Probab=85.87  E-value=0.34  Score=31.14  Aligned_cols=17  Identities=29%  Similarity=0.909  Sum_probs=15.8

Q ss_pred             ecCCcCCCCcCccCCCC
Q 007314          591 QCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       591 ~C~~C~~~gHn~~tC~~  607 (608)
                      +|-+|++.||..+.||.
T Consensus         2 ~C~~Cg~~GH~a~~C~~   18 (39)
T 2a51_A            2 TCFNCGKPGHTARMCRQ   18 (39)
T ss_dssp             BCTTTCCBSSCTTTCCS
T ss_pred             eeeccCCCCcccccCCC
Confidence            69999999999999985

>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}

Probab=84.37  E-value=0.42  Score=30.29  Aligned_cols=17  Identities=29%  Similarity=0.806  Sum_probs=15.6

Q ss_pred             ecCCcCCCCcCccCCCC
Q 007314          591 QCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       591 ~C~~C~~~gHn~~tC~~  607 (608)
                      +|-+|++.||..+.||.
T Consensus         2 ~C~~Cg~~GH~~~~C~~   18 (37)
T 2bl6_A            2 TCYNCGKPGHLSSQCRA   18 (37)
T ss_dssp             CBSSSCCSSCCTTTSSC
T ss_pred             cccccCCCCcchhhCcC
Confidence            69999999999999984

>2rpr_A Flywch-type zinc finger-containing protein 1; flywch domain, alternative splicing, DNA-binding, metal- binding, nucleus, metal binding protein; NMR {Homo sapiens}

Probab=84.36  E-value=1.3  Score=34.30  Aligned_cols=46  Identities=24%  Similarity=0.374  Sum_probs=34.0

Q ss_pred             cCceEEEEeeCCeEEEEEEec---cCCCeEEEEEEcCCcceEEEEeccCccccccc
Q 007314           65 HGFAYRYKKNDSHRVTVKCKC---QGCPWRIYASRLSTTQLVCIKKMNSKHTCEGA  117 (608)
Q Consensus        65 ~gf~~~~~~s~~~r~~~~C~~---~gC~~~v~~~~~~~~~~~~V~~~~~~H~c~~~  117 (608)
                      .||.|...+....+..+.|..   .+|++++....  .  .  +. ....|||++.
T Consensus        26 ~Gy~Y~~~~~~~~~~yWrC~~~~~~kCrARi~T~~--~--~--~~-~~~~HnH~p~   74 (87)
T 2rpr_A           26 ESFLYRKEKAAGEKVYWMCRDQARLGCRSRAITQG--H--R--IM-VMRSHCHQPD   74 (87)
T ss_dssp             TTEEEEEEEECSSCEEEEEGGGTTSCCCCEEEEET--T--E--EE-ECSCCSSCCC
T ss_pred             CCEEEEeeecCCCcEEEEecCCCCCCCCEEEEEcC--C--C--EE-CCCCcCCCCc
Confidence            578888877777778899986   58999988764  2  2  22 4567999765

>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A

Probab=83.09  E-value=0.45  Score=33.24  Aligned_cols=20  Identities=40%  Similarity=0.816  Sum_probs=14.8

Q ss_pred             ceeecCCcCCCCcCccCCCC
Q 007314          588 RSLQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       588 r~~~C~~C~~~gHn~~tC~~  607 (608)
                      +...|-.|++.||-.+.||.
T Consensus        32 ~~~~C~~Cg~~GH~~~~C~~   51 (55)
T 1a1t_A           32 RKKGCWKCGKEGHQMKDCTE   51 (55)
T ss_dssp             SCCBCTTTCCBSSCGGGCSS
T ss_pred             CCCEeCCCCCcCCccCCCcC
Confidence            34678888888888888875

>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

Probab=80.80  E-value=0.63  Score=31.59  Aligned_cols=21  Identities=24%  Similarity=0.855  Sum_probs=18.2

Q ss_pred             cceeecCCcCCCCcCccCCCC
Q 007314          587 KRSLQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       587 kr~~~C~~C~~~gHn~~tC~~  607 (608)
                      ++...|-+|++.||..+.||.
T Consensus         4 ~r~~~C~~Cg~~GH~a~~C~~   24 (49)
T 2ec7_A            4 RKVIRCWNCGKEGHSARQCRA   24 (49)
T ss_dssp             CCCCBCTTTCCBTCCTTTCCC
T ss_pred             CCcCeeeecCCCCcChhhCcC
Confidence            355789999999999999984

---

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	Length	Definition	Probability
Query	608
d1nc8a_	29	HIV nucleocapsid {Human immunodeficiency virus typ	96.13
d1wj2a_	71	WRKY DNA-binding protein 4 {Thale cress (Arabidops	95.32
d1dsqa_	26	Nucleic acid binding protein p14 {Mouse mammary tu	92.62
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	90.99
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	89.5
d1a6bb_	40	Zinc finger protein ncp10 {Moloney murine leukemia	88.61
d1cxqa_	147	Retroviral integrase, catalytic domain {Rous sarco	81.07

>d1nc8a_ g.40.1.1 (A:) HIV nucleocapsid {Human immunodeficiency virus type 2 [TaxId: 11709]}

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: HIV nucleocapsid
species: Human immunodeficiency virus type 2 [TaxId: 11709]

Probab=96.13  E-value=0.001  Score=36.69  Aligned_cols=22  Identities=23%  Similarity=0.788  Sum_probs=19.0

Q ss_pred             ccceeecCCcCCCCcCccCCCC
Q 007314          586 IKRSLQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       586 ~kr~~~C~~C~~~gHn~~tC~~  607 (608)
                      .+++.+|-+||+.||..+.|..
T Consensus         3 qr~~ikCfNCGkeGH~ar~CrA   24 (29)
T d1nc8a_           3 QRKVIRCWNCGKEGHSARQCRA   24 (29)
T ss_dssp             CCCCCBCTTTSCBSSCGGGCCS
T ss_pred             CcceeEeecCCccchhhhhccC
Confidence            3567899999999999999963

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

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=95.32  E-value=0.018  Score=40.53  Aligned_cols=41  Identities=24%  Similarity=0.364  Sum_probs=35.9

Q ss_pred             eEEEEEEeccCCCeEEEEEEcCCcceEEEEeccCccccccc
Q 007314           77 HRVTVKCKCQGCPWRIYASRLSTTQLVCIKKMNSKHTCEGA  117 (608)
Q Consensus        77 ~r~~~~C~~~gC~~~v~~~~~~~~~~~~V~~~~~~H~c~~~  117 (608)
                      -|..++|+..||+++=.+-+..+.....++.+.++|||+.+
T Consensus        30 pRsYYrCt~~~C~a~K~Vqr~~~d~~~~~vtY~G~H~h~~P   70 (71)
T d1wj2a_          30 PRSYYKCTTPGCGVRKHVERAATDPKAVVTTYEGKHNHDLP   70 (71)
T ss_dssp             CEEEEEEECSSCEEEEEEEEETTTTSEEEEEEESCCSSCCC
T ss_pred             ceEEEEccccCCCCcceEEEEcCCCCEEEEEEeeEeCCCCC
Confidence            47789999999999999999877777889999999999764

>d1dsqa_ g.40.1.1 (A:) Nucleic acid binding protein p14 {Mouse mammary tumor virus [TaxId: 11757]}

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: Nucleic acid binding protein p14
species: Mouse mammary tumor virus [TaxId: 11757]

Probab=92.62  E-value=0.028  Score=29.33  Aligned_cols=17  Identities=41%  Similarity=0.948  Sum_probs=15.6

Q ss_pred             ecCCcCCCCcCccCCCC
Q 007314          591 QCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       591 ~C~~C~~~gHn~~tC~~  607 (608)
                      -|-.||+.||-++.|+.
T Consensus         4 vcfscgktghikkdck~   20 (26)
T d1dsqa_           4 VCFSCGKTGHIKRDCKE   20 (26)
T ss_dssp             BCTTTCCBSSCTTTTTC
T ss_pred             EEEecCCcccchhhhhh
Confidence            58999999999999985

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

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: HIV nucleocapsid
species: Human immunodeficiency virus type 1, different isolates [TaxId: 11676]

Probab=90.99  E-value=0.044  Score=34.46  Aligned_cols=16  Identities=31%  Similarity=0.991  Sum_probs=8.4

Q ss_pred             ecCCcCCCCcCccCCC
Q 007314          591 QCSKCKGLGHNKKTCK  606 (608)
Q Consensus       591 ~C~~C~~~gHn~~tC~  606 (608)
                      +|.+|++.||..+.||
T Consensus         3 ~C~~Cg~~GH~~~~Cp   18 (42)
T d2exfa1           3 KCFNCGKEGHTARNCR   18 (42)
T ss_dssp             CCTTTCCSSSCTTTCS
T ss_pred             ccccCCCcCcCcccCc
Confidence            4555555555555554

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

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: HIV nucleocapsid
species: Human immunodeficiency virus type 1, different isolates [TaxId: 11676]

Probab=89.50  E-value=0.075  Score=33.32  Aligned_cols=18  Identities=39%  Similarity=0.818  Sum_probs=16.6

Q ss_pred             eecCCcCCCCcCccCCCC
Q 007314          590 LQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       590 ~~C~~C~~~gHn~~tC~~  607 (608)
                      ..|-+|++.||-.+.||.
T Consensus        23 ~~C~~Cg~~GH~~~~Cp~   40 (42)
T d2exfa1          23 KGCWKCGKEGHQMKDCTE   40 (42)
T ss_dssp             SSCSSSCCSSSCTTTCCS
T ss_pred             CccccCCCCCeecccCCC
Confidence            469999999999999996

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

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: Zinc finger protein ncp10
species: Moloney murine leukemia virus, MoMLV [TaxId: 11801]

Probab=88.61  E-value=0.097  Score=31.04  Aligned_cols=18  Identities=44%  Similarity=0.818  Sum_probs=17.0

Q ss_pred             eecCCcCCCCcCccCCCC
Q 007314          590 LQCSKCKGLGHNKKTCKD  607 (608)
Q Consensus       590 ~~C~~C~~~gHn~~tC~~  607 (608)
                      -.|-+|++.||=.+.||+
T Consensus        11 DQCAyCke~GHW~~dCPk   28 (40)
T d1a6bb_          11 DQCAYCKEKGHWAKDCPK   28 (40)
T ss_dssp             SSCSSSCCTTCCTTSCSS
T ss_pred             hhhHHHhhcCchhhhCcc
Confidence            589999999999999996

>d1cxqa_ c.55.3.2 (A:) Retroviral integrase, catalytic domain {Rous sarcoma virus RSV [TaxId: 11886]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: Retroviral integrase, catalytic domain
domain: Retroviral integrase, catalytic domain
species: Rous sarcoma virus RSV [TaxId: 11886]

Probab=81.07  E-value=4  Score=32.65  Aligned_cols=69  Identities=10%  Similarity=-0.088  Sum_probs=40.8

Q ss_pred             ccEEEeecccccCccceeEEEEEEecCCCCeEEEEEEEeecCCcccHHHHHHHHHHhcCCCCcEEEEecCcccH
Q 007314          233 RPLLFLDTTPLNSKYQGTLLTATSADGDDGIFPVAFAVVDAETEDNWHWFLQELKSAVSTSQQITFIADFQNGL  306 (608)
Q Consensus       233 ~~vi~~D~T~~~~~y~~~l~~~~g~d~~~~~~~~a~a~~~~E~~~~~~w~l~~l~~~~~~~~~~~iitD~~~~l  306 (608)
                      ..++.+|-|+..... +..+..+.+|..-+ ++.++. ..+++...-..+|..+....|  .|..|.||..+..
T Consensus         7 ~~~w~~D~~~~~~~~-~~~~l~v~vD~~Sr-~i~~~~-~~~~t~~~~~~~l~~~~~~~g--~p~~i~sDnG~~F   75 (147)
T d1cxqa_           7 LQIWQTDFTLEPRMA-PRSWLAVTVDTASS-AIVVTQ-HGRVTSVAAQHHWATAIAVLG--RPKAIKTDNGSCF   75 (147)
T ss_dssp             CCEEEEEEEECGGGT-TSCEEEEEEETTTC-CEEEEE-ESSCCHHHHHHHHHHHHHHHC--CCSEEECCSCHHH
T ss_pred             CCEEEEEEEEecCCC-CeEEEEEEEecccc-eecccc-cCccchHHHHHHHHHHHHHhC--CCeEEEecccccc
Confidence            347888888765332 32334455665554 344443 556666555555555545544  5889999997754