Citrus Sinensis ID: 046610

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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-
Protein Sequence
MVEPDGSGEISTGHQRLSYGRQRSNIPSQQRTCGRTSKTTMLDDSISTKRTQLISDFEVTQAISEIQNSLIEGNNLHDNLSSANHLPTTPDIRNYPTSWASDKGWEAADDSEDETVYLPNTNEDDEELQRSWFRRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKCTKRLSKLKWGTKWITAKFLHKWKQNPHQQLHVLGNEIAATYGIKCPIWKLKAIDTTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTAYAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGIDEAVEEFLPYAVYRQCCFSLY
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccEEEEEEEccccEEEEEEEccccccEEEEEEEccccEEEEEEEcccccccccccccccccHHHHHHHcccccccccccHHHHHHHHHHHcccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHccccEEEEEcccccccccccEEEEEEEEHHHHHHHHHcccEEEEEEcEEEccccccEEEEEEEEcccccEEEEEEEEEcccccccHHHHHHHHHccccccccccEEEEccccccHHHHHHHHcccccEEccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccHHcccccccccccccccccHHcccccccccccccccccEEEccEccccccccHHHHHHHHHHHHHHHcccEEEEEccccEEEEEEccccccEEEEEEEcccccEEEEEEEccccccccccccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHcccEEcHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHccccEEEEEEcccccccccHHHHHEEEHHHHHHHHHHccccEEEEEccEEccccccEEEEEEEEcccccEEEEEEEEEEcccccHHHHHHHHHHHHccccccccEEEEEcccHHHHHHHHHHccccccHHHHHHcc
Coil and Loop (DISEMBL)
mvepdgsgeistghqrlsygrqrsnipsqqrtcgrtskttmlddsistkRTQLISDFEVTQAISEIQNSLIegnnlhdnlssanhlpttpdirnyptswasdkgweaaddsedetvylpntneddeELQRSWFRRALEVQAIRDGIklckmdntstciscecsdlscdWKITTMKEHATKMFIISYITPVHKCTKRLSKLKWGTKWITAKFLhkwkqnphqqLHVLGNEIaatygikcpiwklkaidTTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIEtstkqqssdeIFDCMFVFLYDTAYAFKTRCRMLLTvdgweidgpykSVMLIAVCrdrndvvlpvAFCEVQEENLDSWAFFLKNVNDGlrlergkglcilgdgdngIDEAVEEFLPYAVYRQCCFSLY
Flexible Loop (DISEMBL)
mvepdgsgeistghqrlsygrqrsnipsqqrtcgrtskttmlddsistKRTQLISDFEVTQAISEIQNSLIEGNNLHDNLSSANHLPTTPDIRNYPTSWASDKGWEAADDSEDETVYLPntneddeelqRSWFRRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKCTKRLSKLKWGTKWITAKFLHKWKQNPHQQLHVLGNEIAATYGIKCPIWKLKAIDTTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTAYAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGIDEAVEEFLPYAVYRQCCFSLY
Low Complexity Region (SEG)
MVEPDGSGEISTGHQRLSYGRQRSNIPSQQRTCGRTSKTTMLDDSISTKRTQLISDFEVTQAISEIQNSLIEGNNLHDNLSSANHLPTTPDIRNYPTSWASDKGWEAADDSEDETVYLPNTNEDDEELQRSWFRRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKCTKRLSKLKWGTKWITAKFLHKWKQNPHQQLHVLGNEIAATYGIKCPIWKLKAIDTTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTAYAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGIDEAVEEFLPYAVYRQCCFSLY
Disordered region (IsUnstruct)
****************************************************LISDFEVTQAISEIQNSLI**********************************************************RSWFRRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKCTKRLSKLKWGTKWITAKFLHKWKQNPHQQLHVLGNEIAATYGIKCPIWKLKAIDTTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTAYAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGIDEAVEEFLPYAVYRQCCFSL*
Disordered Region (DISOPRED)
****************************************************LISDFEVTQAISEIQNSLIEG*******************************WEAADDSEDETVYLPNTNEDDEELQRSWFRRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKCTKRLSKLKWGTKWITAKFLHKWKQNPHQQLHVLGNEIAATYGIKCPIWKLKAIDTTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTAYAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGIDEAVEEFLPYAVYRQCCFSLY
Disordered Region (DISEMBL)
***************RLSYGRQ*******************LDDSISTKRTQLISDFEVTQAISEIQNSLIEGNNLHDNLSSANHLPTTPDIRNYPTSWASDKGWEAADDSEDETVYLPNTNEDDEELQRSWFRRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKCTKRLSKLKWGTKWITAKFLHKWKQNPHQQLHVLGNEIAATYGIKCPIWKLKAIDTTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTAYAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGIDEAVEEFLPYAVYRQCCFSLY
Disordered Region (DISPRO)
********************R*RS*********************************************************************NYPT*W**DKGWEAADDSEDETVYLPNTNEDDEELQRSWFRRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKCTKRLSKLKWGTKWITAKFLHKWKQNPHQQLHVLGNEIAATYGIKCPIWKLKAIDTTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTAYAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGIDEAVEEFLPYAVYRQCCFSLY
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVEPDGSGEISTGHQRLSYGRQRSNIPSQQRTCGRTSKTTMLDDSISTKRTQLISDFEVTQAISEIQNSLIEGNNLHDNLSSANHLPTTPDIRNYPTSWASDKGWEAADDSEDETVYLPNTNEDDEELQRSWFRRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKCTKRLSKLKWGTKWITAKFLHKWKQNPHQQLHVLGNEIAATYGIKCPIWKLKAIDTTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTAYAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGIDEAVEEFLPYAVYRQCCFSLY
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

No hits with e-value below 0.001 by BLAST

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	411
10177186	757	mutator-like transposase-like protein [A	0.613	0.332	0.280	1e-20
18087533	749	AT3g06940/F17A9_9 [Arabidopsis thaliana]	0.647	0.355	0.270	2e-19
6729001	609	putative mudrA protein [Arabidopsis thal	0.647	0.436	0.263	2e-19
50511365	1006	putative polyprotein [Oryza sativa Japon	0.722	0.295	0.241	2e-19
147865779	1147	hypothetical protein VITISV_020810 [Viti	0.642	0.230	0.247	2e-18
356576716	750	PREDICTED: uncharacterized protein LOC10	0.656	0.36	0.278	2e-18
225432189	746	PREDICTED: uncharacterized protein LOC10	0.642	0.353	0.247	2e-18
6175165	757	Mutator-like transposase [Arabidopsis th	0.644	0.350	0.277	2e-18
356505949	758	PREDICTED: uncharacterized protein LOC10	0.656	0.356	0.274	3e-18
53370698	1030	transposon protein, putative, mutator su	0.722	0.288	0.231	4e-18

>gi|10177186|dbj|BAB10320.1| mutator-like transposase-like protein [Arabidopsis thaliana] gi|22531088|gb|AAM97048.1| unknown protein [Arabidopsis thaliana] gi|23197938|gb|AAN15496.1| unknown protein [Arabidopsis thaliana]

 Score =  107 bits (267), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 75/267 (28%), Positives = 123/267 (46%), Gaps = 15/267 (5%)

Query: 133 FRRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHK 192
           FR AL   +I  G       N S  +S +C    C W+IT  +   T++  I  +   H 
Sbjct: 196 FRDALHKYSIAHGFTYKYKKNDSHRVSVKCKAQGCPWRITASRLSTTQLICIKKMNTRHT 255

Query: 193 CTKRLSKLKWGTK--WITAKFLHKWKQNPHQQLHVLGNEIAATYGIK---CPIWKLKAID 247
           C + + K  +     W+ +    K K  P  +   +  +I   YGI+      W+ K I 
Sbjct: 256 CERAVVKAGYRASRGWVGSIIKEKLKAFPDYKPKDIAEDIKREYGIQLNYSQAWRAKEI- 314

Query: 248 TTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTA 307
             AR  L   + + Y+QL  + +++   N  +I I    TK+ SS   F  +F+  Y + 
Sbjct: 315 --AREQLQGSYKKAYSQLPSFCKKIRETNPGSIAIF--MTKEDSS---FHRLFISFYASI 367

Query: 308 YAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKN 367
             F+  CR LL +D  +++  Y+ VML+A   D  D + PVAF  V  E  D+W +FL++
Sbjct: 368 SGFRQGCRPLLFLDTADLNSKYQGVMLVATAPDAEDGIFPVAFAVVDAETEDNWVWFLEH 427

Query: 368 VNDGLRLERGKGLCILGDGDNGIDEAV 394
           +   L L   + +  + D  NG+  A+
Sbjct: 428 LK--LALADPRTITFVADFQNGLKTAL 452

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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 =  103 bits (257), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 76/281 (27%), Positives = 121/281 (43%), Gaps = 15/281 (5%)

Query: 133 FRRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHK 192
           FR AL   ++  G       N S  +S +C    C W+IT  +   T++  I  + P H 
Sbjct: 192 FRDALHKYSVAHGFAYKYKKNDSHRVSVKCKAQGCPWRITASRLSTTQLICIKKMNPRHT 251

Query: 193 CTKRLSKLKWGTK--WITAKFLHKWKQNPHQQLHVLGNEIAATYGIK---CPIWKLKAID 247
           C + + K  +     W+      K K  P  +   +  +I   YGI+      W+ K I 
Sbjct: 252 CERAVIKPGYRATRGWVRTILKEKLKAFPDYKPKDIAEDIKKEYGIQLNYSQAWRAKEI- 310

Query: 248 TTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTA 307
             AR  L   + E Y+QL    E+++  N  +I      TK+ SS   F  +F+  Y + 
Sbjct: 311 --AREQLQGSYKEAYSQLPLICEKIKETNPGSIATF--MTKEDSS---FHRLFISFYASI 363

Query: 308 YAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKN 367
             FK   R LL +D   ++  Y+ VML+A   D  D + PVAF  V  E  ++W +FL+ 
Sbjct: 364 SGFKQGSRPLLFLDNAILNSKYQGVMLVATASDAEDGIFPVAFAIVDSETEENWLWFLEQ 423

Query: 368 VNDGLRLERGKGLCILGDGDNGIDEAVEEFLPYAVYRQCCF 408
           +   L   R   +  + D  NG+  A+ +      +   C 
Sbjct: 424 LKTALSESR--IITFVADFQNGLKNAIAQVFEKDAHHAYCL 462

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 =  103 bits (256), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 74/281 (26%), Positives = 118/281 (41%), Gaps = 15/281 (5%)

Query: 133 FRRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHK 192
           FR AL   ++  G       N S  +S +C    C W+IT  +   T++  I  + P H 
Sbjct: 52  FRDALHKYSVAHGFAYKYKKNDSHRVSVKCKAQGCPWRITASRLSTTQLICIKKMNPRHT 111

Query: 193 CTKRLSKLKWGTK--WITAKFLHKWKQNPHQQLHVLGNEIAATYGIK---CPIWKLKAID 247
           C + + K  +     W+      K K  P  +   +  +I   YGI+      W+ K I 
Sbjct: 112 CERAVIKPGYRATRGWVRTILKEKLKAFPDYKPKDIAEDIKKEYGIQLNYSQAWRAKEI- 170

Query: 248 TTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTA 307
             AR  L   + E Y+QL    E+++  N  +I    T       D  F  +F+  Y + 
Sbjct: 171 --AREQLQGSYKEAYSQLPLICEKIKETNPGSIATFMTK-----EDSSFHRLFISFYASI 223

Query: 308 YAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKN 367
             FK   R LL +D   ++  Y+ VML+A   D  D + PVAF  V  E  ++W +FL+ 
Sbjct: 224 SGFKQGSRPLLFLDNAILNSKYQGVMLVATASDAEDGIFPVAFAIVDSETEENWLWFLEQ 283

Query: 368 VNDGLRLERGKGLCILGDGDNGIDEAVEEFLPYAVYRQCCF 408
           +   L   R   +  + D  NG+  A+ +      +   C 
Sbjct: 284 LKTALSESR--IITFVADFQNGLKNAIAQVFEKDAHHAYCL 322

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|50511365|gb|AAT77288.1| putative polyprotein [Oryza sativa Japonica Group]

 Score =  103 bits (256), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 74/307 (24%), Positives = 131/307 (42%), Gaps = 10/307 (3%)

Query: 108 ADDSEDETVYLPNTNEDDEELQRSWF---RRALEVQAIRDGIKLCKMDNTSTCISCECSD 164
           A DS+DE V L   +  +E+L    F   R+A+   ++R+ +++    N    I   C +
Sbjct: 282 AADSDDEGVRLKFKSFAEEDLNNPNFKKLRQAITEYSVRNRVEIKMPRNDRRRIRAHCEE 341

Query: 165 LSCDWKITTMKEHATKMFIISYITPVHKCTKRLSKLKWGTKWITAKFLHKWKQNPHQQLH 224
             C W + T ++   K F++      H C K     +  +KW+  K++  ++ +    L 
Sbjct: 342 -GCPWNLYTSEDSRAKAFVVKTYDERHTCQKEWILKRCTSKWLAGKYIEAFRADEKMSLT 400

Query: 225 VLGNEIAATYGIKCPIWKLKAIDTTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIE 284
                +   + +     KL      A   +  D  E Y  L  Y +E+   N      ++
Sbjct: 401 SFAKTVQLQWNLTPSRSKLARARRIAMKTIHGDEVEQYKLLWDYGKELRRSNPGTSFFLK 460

Query: 285 TSTKQQSSDEIFDCMFVFLYDTAYAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDV 344
                     +F   ++ +      F   CR L+ +DG  I   Y   +L AV  D ND 
Sbjct: 461 LD------GSLFSQCYMSMDACKRGFLNGCRPLICLDGCHIKTKYGGQLLTAVGMDPNDC 514

Query: 345 VLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGIDEAVEEFLPYAVYR 404
           + P+AF  V+ E+L +W +FL+ + + L +E      I+ D   G+  AV++  P + +R
Sbjct: 515 IYPIAFAVVEVESLATWKWFLETLKNDLGIENTYPWTIMTDKQKGLIPAVQQVFPESEHR 574

Query: 405 QCCFSLY 411
            C   LY
Sbjct: 575 FCVRHLY 581

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  100 bits (248), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 69/279 (24%), Positives = 119/279 (42%), Gaps = 15/279 (5%)

Query: 133 FRRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHK 192
           FR AL   +I  G       N S  ++ +C    C W+I   +   T++  I  +   H 
Sbjct: 210 FREALHKYSIAHGFAYKYKKNDSHRVTVKCKSQGCPWRIYASRLSTTQLICIKKMHTTHT 269

Query: 193 CTKRLSKLKWGTK--WITAKFLHKWKQNPHQQLHVLGNEIAATYGIK---CPIWKLKAID 247
           C   + K  +     W+      K K +P+ +   + ++I   YGI+      W+ K I 
Sbjct: 270 CEGAIVKAGYRATRGWVGTIIKEKLKVSPNYKPKDIADDIKREYGIQLNYSQAWRAKEI- 328

Query: 248 TTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTA 307
             AR  L   + E Y+QL  + E+++  N  +    ET       D  F  +F+  +   
Sbjct: 329 --AREQLQGSYKEAYSQLPFFCEKIKETNPGSFATFETK-----EDSSFHRLFISFHAAI 381

Query: 308 YAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKN 367
             F+  CR LL +D   ++  Y+ ++L A   D +D V PVAF  V  E  D+W++FL  
Sbjct: 382 SGFQQGCRPLLFLDSTPLNSKYQGMLLTATAADGDDGVFPVAFAVVDAETDDNWSWFLLE 441

Query: 368 VNDGLRLERGKGLCILGDGDNGIDEAVEEFLPYAVYRQC 406
           +   +   R   +  + D   G+ +++ E      +  C
Sbjct: 442 LKSAVSTAR--PITFVADFQKGLKKSLAEIFDNGYHSYC 478

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356576716|ref|XP_003556476.1| PREDICTED: uncharacterized protein LOC100811471 isoform 1 [Glycine max] gi|356576718|ref|XP_003556477.1| PREDICTED: uncharacterized protein LOC100811471 isoform 2 [Glycine max]

 Score =  100 bits (248), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 79/284 (27%), Positives = 121/284 (42%), Gaps = 14/284 (4%)

Query: 134 RRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKC 193
           RRAL   AI    ++  + +  T  + +C+   C W+I   K      F I  I   H C
Sbjct: 189 RRALRDTAIALHFEMQTIKSDKTRFTAKCASEGCPWRIHAAKLPGVPTFTIRTIHENHTC 248

Query: 194 --TKRLSKLKWGTKWITAKFLHKWKQNPHQQLHVLGNEIAATYGIKCP---IWKLKAIDT 248
                L   +   +W+      + K+NP+ +   +  EI   +GI       W+ K    
Sbjct: 249 GGISHLGHQQASVQWVANSVEQRLKENPNCKPKEILEEIHRVHGITLSYKQAWRGKE-RI 307

Query: 249 TARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTAY 308
            A M    +  EGY  L QY E+++  N  +I     S     +D  F  +F+    + Y
Sbjct: 308 MAAMRGSFE--EGYRLLPQYCEQVKRTNPGSI----ASVYGNPADGCFQRLFISFQASIY 361

Query: 309 AFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNV 368
            F   CR LL +D   +   Y   +L+A   D +  + P+AF  V EEN D+W +FL  +
Sbjct: 362 GFLNPCRPLLGLDRTYLKSKYLGTLLLATGFDGDGALFPLAFGVVDEENDDNWMWFLSEL 421

Query: 369 NDGLRL--ERGKGLCILGDGDNGIDEAVEEFLPYAVYRQCCFSL 410
           ++ L +  E    L IL D   GI + VE   P A +  C   L
Sbjct: 422 HNLLEIHTENMPRLTILSDRQKGIVDGVEANFPTAFHGFCMRHL 465

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 = 99.8 bits (247), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 69/279 (24%), Positives = 119/279 (42%), Gaps = 15/279 (5%)

Query: 133 FRRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHK 192
           FR AL   +I  G       N S  ++ +C    C W+I   +   T++  I  +   H 
Sbjct: 192 FREALHKYSIAHGFAYKYKKNDSHRVTVKCKSQGCPWRIYASRLSTTQLICIKKMHTTHT 251

Query: 193 CTKRLSKLKWGTK--WITAKFLHKWKQNPHQQLHVLGNEIAATYGIK---CPIWKLKAID 247
           C   + K  +     W+      K K +P+ +   + ++I   YGI+      W+ K I 
Sbjct: 252 CEGAIVKAGYRATRGWVGTIIKEKLKVSPNYKPKDIADDIKREYGIQLNYSQAWRAKEI- 310

Query: 248 TTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTA 307
             AR  L   + E Y+QL  + E+++  N  +    ET       D  F  +F+  +   
Sbjct: 311 --AREQLQGSYKEAYSQLPFFCEKIKETNPGSFATFETK-----EDSSFHRLFISFHAAI 363

Query: 308 YAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKN 367
             F+  CR LL +D   ++  Y+ ++L A   D +D V PVAF  V  E  D+W++FL  
Sbjct: 364 SGFQQGCRPLLFLDSTPLNSKYQGMLLTATAADGDDGVFPVAFAVVDAETDDNWSWFLLE 423

Query: 368 VNDGLRLERGKGLCILGDGDNGIDEAVEEFLPYAVYRQC 406
           +   +   R   +  + D   G+ +++ E      +  C
Sbjct: 424 LKSAVSTAR--PITFVADFQKGLKKSLAEIFDNGYHSYC 460

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|6175165|gb|AAF04891.1|AC011437_6 Mutator-like transposase [Arabidopsis thaliana] gi|18389286|gb|AAL67086.1| putative Mutator transposase [Arabidopsis thaliana] gi|20465953|gb|AAM20162.1| putative mutator transposase [Arabidopsis thaliana]

 Score = 99.8 bits (247), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 78/281 (27%), Positives = 121/281 (43%), Gaps = 16/281 (5%)

Query: 134 RRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKC 193
           RRAL   AI    ++  + +  T  + +CS   C W++   K      F I  I   H C
Sbjct: 195 RRALRDMAIALHFEMQTIKSDKTRFTAKCSSDGCPWRVHAAKLPGVPTFTIRTIHESHSC 254

Query: 194 --TKRLSKLKWGTKWITAKFLHKWKQNPHQQLHVLGNEIAATYGIKCP---IWKLKA-ID 247
                L   +   +W+ +    + ++NP+ +   +  EI   +GI       W+ K  I 
Sbjct: 255 GGINHLGHQQASVQWVASSVEQRLRENPNCKPKEILEEIHRVHGITLSYKQAWRGKERIM 314

Query: 248 TTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTA 307
            T R        EGY  L QY E+++  N  +I     S     +D  F  +F+    + 
Sbjct: 315 ATMRGSFE----EGYRLLPQYCEQVKRTNPGSI----ASVYGSPADNCFQRLFISFQASI 366

Query: 308 YAFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKN 367
           Y F   CR LL +D   +   Y   +L+A   D +  + P+AF  V EEN ++W +FL  
Sbjct: 367 YGFLNACRPLLGLDRTYLKSKYLGTLLLATGFDGDGALFPLAFGIVDEENDENWMWFLCE 426

Query: 368 VNDGLR--LERGKGLCILGDGDNGIDEAVEEFLPYAVYRQC 406
           +++ L    E    L IL D   GI E VE+  P A +  C
Sbjct: 427 LHNLLETNTENMPRLTILSDRQKGIVEGVEQNFPTAFHGFC 467

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356505949|ref|XP_003521751.1| PREDICTED: uncharacterized protein LOC100795835 [Glycine max]

 Score = 99.4 bits (246), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 78/284 (27%), Positives = 119/284 (41%), Gaps = 14/284 (4%)

Query: 134 RRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKC 193
           RRAL   AI    ++  + +  T  + +C    C W+I   K      F I  +   H C
Sbjct: 191 RRALRDTAIALHFEMQTIKSDKTRFTAKCRSEGCPWRIHAAKLPGVPTFTIRTVHESHTC 250

Query: 194 --TKRLSKLKWGTKWITAKFLHKWKQNPHQQLHVLGNEIAATYGIKCP---IWKLKAIDT 248
                L   +   +W+      + K+NP  +   +  EI   +GI       W+ K    
Sbjct: 251 GGISHLGHQQASVQWVATSVEQRLKENPDCKPKEILEEIHRVHGITLSYKQAWRGKE-RI 309

Query: 249 TARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTAY 308
            A M    +  EGY  L QY E+++  N  +I     S     +D  F  +F+    + Y
Sbjct: 310 MAAMRGSFE--EGYRLLPQYCEQVKRTNPGSI----ASVYANPTDNCFRRLFISFQASIY 363

Query: 309 AFKTRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNV 368
            F   CR LL +D   +   Y   +L+A   D +  + P+AF  V EEN D+W +FL  +
Sbjct: 364 GFLNACRPLLELDRIYLKSKYLGTLLLATGFDGDGALFPLAFGVVDEENDDNWMWFLSEL 423

Query: 369 NDGLRL--ERGKGLCILGDGDNGIDEAVEEFLPYAVYRQCCFSL 410
           ++ L +  E    L IL D   GI + VE   P A +  C   L
Sbjct: 424 HNLLEINTENMPRLTILSDRQKGIVDGVEANFPTAFHGFCMRHL 467

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|53370698|gb|AAU89193.1| transposon protein, putative, mutator sub-class [Oryza sativa Japonica Group]

 Score = 99.0 bits (245), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 73/316 (23%), Positives = 132/316 (41%), Gaps = 19/316 (6%)

Query: 108 ADDSEDETVYLPNTNEDDEELQRSWF------------RRALEVQAIRDGIKLCKMDNTS 155
           A DS+DE V L   +  +E+L    F            R+A+   ++R+ +++    N  
Sbjct: 297 AADSDDEGVRLKFKSFAEEDLNNPNFKVGLVFPSVEKLRQAITEYSVRNRVEIKMPRNDR 356

Query: 156 TCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKCTKRLSKLKWGTKWITAKFLHKW 215
             I   C++  C W +   ++   K F++      H C K     +  +KW+  K++  +
Sbjct: 357 RRIRAHCAE-GCPWNLYASEDSRAKAFVVKTCDERHTCQKEWILKRCTSKWLAGKYIEAF 415

Query: 216 KQNPHQQLHVLGNEIAATYGIKCPIWKLKAIDTTARMWLGLDHGEGYAQLLQYREEMEMI 275
           + +    L      +   + +     KL      A   +  D  E Y  L  Y +E+   
Sbjct: 416 RADEKMSLTSFAKTVQLQWNLTLSRSKLARARRIAMKTIHGDEVEQYKLLWDYGKELRRS 475

Query: 276 NSHNIIIIETSTKQQSSDEIFDCMFVFLYDTAYAFKTRCRMLLTVDGWEIDGPYKSVMLI 335
           N  +   ++          +F   ++ +      F   CR L+ +DG  I   Y   +L 
Sbjct: 476 NPGSSFFLKLD------GSLFSQCYMSMDACKRGFLNGCRPLICLDGCHIKTKYGGQLLT 529

Query: 336 AVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGIDEAVE 395
           AV  D ND + P+AF  V+ E+L +W +FL+ + + L +E      I+ D   G+  AV+
Sbjct: 530 AVGMDPNDCIYPIAFAVVEVESLATWKWFLETLKNDLGIENTYPWTIMTDKQKGLIPAVQ 589

Query: 396 EFLPYAVYRQCCFSLY 411
           +  P + +R C   LY
Sbjct: 590 QVFPESEHRFCVRHLY 605

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

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	411
TAIR|locus:2197122	785	AT1G49920 "AT1G49920" [Arabido	0.330	0.173	0.251	4.4e-06

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

 Score = 137 (53.3 bits), Expect = 4.4e-06, Sum P(2) = 4.4e-06
 Identities = 37/147 (25%), Positives = 71/147 (48%)

Query:   272 MEMINSHNIIIIETSTKQQSSDE---IFDCMFVFLYDTAYAFKTRCRMLLTVDGWEIDGP 328
             M +++S N ++++      + D     F  +F     +   F+  CR L+ VD   + G 
Sbjct:   334 MSVLHSSNGLLVDWQYDSLTHDPEHASFRGLFWAFSQSIQGFQ-HCRPLIVVDTKNLGGK 392

Query:   329 YKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDN 388
             YK  ++IA   D  +   P+AF   +E ++DSW +FL  + +  ++ + +G+C++   D 
Sbjct:   393 YKMKLMIASAFDATNQYFPLAFAVTKEVSVDSWRWFLTRIRE--KVTQRQGICLISSPDP 450

Query:   389 GIDEAVEE-----FLPYAVYRQCCFSL 410
              I   + E       P+A +R C + L
Sbjct:   451 DILAVINEPGSQWKEPWAYHRFCLYHL 477

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: AT5G48965 transposable element gene; Mutator-like transposase family, has a 3.7e-47 P-value blast match to GB-AAA21566 mudrA of transposon="MuDR" (MuDr-element) (Zea mays) (861 aa) (Arabidopsis thaliana)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	411
pfam10551	88	pfam10551, MULE, MULE transposase domain	2e-11

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

 Score = 59.3 bits (144), Expect = 2e-11
 Identities = 25/77 (32%), Positives = 40/77 (51%), Gaps = 2/77 (2%)

Query: 330 KSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNG 389
            +    AV  D +    P+AF  V +E+ +SW +FL+ +   L       L I+ DGD G
Sbjct: 5   TNKYKGAVGVDHHGQGFPLAFALVSDESEESWTWFLEGLKKALGGR--PPLTIISDGDKG 62

Query: 390 IDEAVEEFLPYAVYRQC 406
           + +A++E  P A +R C
Sbjct: 63  LKKAIKEVFPNARHRLC 79

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	411
PLN03097	846	FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provis	100.0
PF10551	93	MULE: MULE transposase domain; InterPro: IPR018289	99.84
PF03108	67	DBD_Tnp_Mut: MuDR family transposase; InterPro: IP	99.48
PF00872	381	Transposase_mut: Transposase, Mutator family; Inte	99.28
COG3328	379	Transposase and inactivated derivatives [DNA repli	98.98
PF08731	111	AFT: Transcription factor AFT; InterPro: IPR014842	98.71
PF03101	91	FAR1: FAR1 DNA-binding domain; InterPro: IPR004330	98.38
PF03106	60	WRKY: WRKY DNA -binding domain; InterPro: IPR00365	94.61
PF01610	249	DDE_Tnp_ISL3: Transposase; InterPro: IPR002560 Aut	92.52
PF13610	140	DDE_Tnp_IS240: DDE domain	90.89
smart00774	59	WRKY DNA binding domain. The WRKY domain is a DNA	89.6
PF04500	62	FLYWCH: FLYWCH zinc finger domain; InterPro: IPR00	84.54
PF04684	496	BAF1_ABF1: BAF1 / ABF1 chromatin reorganising fact	83.42
PF06782	470	UPF0236: Uncharacterised protein family (UPF0236);	80.89
PF00665	120	rve: Integrase core domain; InterPro: IPR001584 In	80.48

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

Probab=100.00  E-value=2.7e-37  Score=333.60  Aligned_cols=254  Identities=11%  Similarity=0.123  Sum_probs=202.7

Q ss_pred             CChhhhcHHHHHHHHHHHHHHcCeeEEEeeCCCe-------EEEEEecC-------------------------------
Q 046610          123 EDDEELQRSWFRRALEVQAIRDGIKLCKMDNTST-------CISCECSD-------------------------------  164 (411)
Q Consensus       123 ~d~~~~s~ee~r~av~~yAi~~~f~~~v~rS~~~-------r~~~~C~~-------------------------------  164 (411)
                      .+-+|.+.++++++++.||...||.+++.++.+.       ..+++|.+                               
T Consensus        76 vGMeF~S~eeA~~FYn~YA~~~GFsVRi~~srrsk~~~~ii~r~fvCsreG~~~~~~~~~~~~~~~~~k~~~~~~~~rR~  155 (846)
T PLN03097         76 SGMEFESHGEAYSFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSFNRPRARQTKQDPENGTGRRS  155 (846)
T ss_pred             CCCeECCHHHHHHHHHHHHhhcCceEEeeceeccCCCCcEEEEEEEEcCCCCCcccccccccccccccccCccccccccc
Confidence            3456889999999999999999999988654321       22456653                               


Q ss_pred             ---CCCceEEEEEEccCcceEEEeeecCCCCCcccccccchhhhHHHHHHhhhhhcCCCCCHHHHHHHHHHHhcc--cCC
Q 046610          165 ---LSCDWKITTMKEHATKMFIISYITPVHKCTKRLSKLKWGTKWITAKFLHKWKQNPHQQLHVLGNEIAATYGI--KCP  239 (411)
Q Consensus       165 ---~~CpwrV~as~~~~~~~w~I~~~~~~HnC~~r~~t~~~ia~~i~~kf~~~l~~np~~~p~~I~~~v~k~~gi--~is  239 (411)
                         +|||++|.+.+. ..|.|.|+.+..+|||++.....  +...                .+.+...+.+..+.  .+.
T Consensus       156 ~tRtGC~A~m~Vk~~-~~gkW~V~~fv~eHNH~L~p~~~--~~~~----------------~r~~~~~~~~~~~~~~~v~  216 (846)
T PLN03097        156 CAKTDCKASMHVKRR-PDGKWVIHSFVKEHNHELLPAQA--VSEQ----------------TRKMYAAMARQFAEYKNVV  216 (846)
T ss_pred             ccCCCCceEEEEEEc-CCCeEEEEEEecCCCCCCCCccc--cchh----------------hhhhHHHHHhhhhcccccc
Confidence               479999999874 45789999999999999932111  1100                01111111111110  000


Q ss_pred             --------cchhhhhhHHHHHhcccCcchhHHHHHHHHHHHHhhCCccEEEEEeCCCCCCCccceeeeeEeehhhHHHHH
Q 046610          240 --------IWKLKAIDTTARMWLGLDHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEIFDCMFVFLYDTAYAFK  311 (411)
Q Consensus       240 --------~~raK~~a~~~l~~i~gd~~esy~~L~~yl~~l~~~NPgs~v~i~t~~~~~~~~~~F~~lf~~~~~si~~f~  311 (411)
                              ..+.++.    ++.    ..++...|..|+++++..||+++|.++.|     ++++++++||+++.|+.+|.
T Consensus       217 ~~~~d~~~~~~~~r~----~~~----~~gD~~~ll~yf~~~q~~nP~Ffy~~qlD-----e~~~l~niFWaD~~sr~~Y~  283 (846)
T PLN03097        217 GLKNDSKSSFDKGRN----LGL----EAGDTKILLDFFTQMQNMNSNFFYAVDLG-----EDQRLKNLFWVDAKSRHDYG  283 (846)
T ss_pred             ccchhhcchhhHHHh----hhc----ccchHHHHHHHHHHHHhhCCCceEEEEEc-----cCCCeeeEEeccHHHHHHHH
Confidence                    1111110    111    13467789999999999999999999999     89999999999999999999


Q ss_pred             hcCceeeeeeceeeccCCCCceEEEEEecCCCCEEEeeeeeecccchhhHHHHHHHHHhhcCCCCCCcEEEEccCchHHH
Q 046610          312 TRCRMLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGID  391 (411)
Q Consensus       312 ~~cr~vl~iD~t~~~~~y~g~ll~avg~d~~~~~~~lAfalv~~E~~e~w~WfL~~l~~~l~~~~~~~~~iisDr~~gL~  391 (411)
                      + |++||.+|+||++|+|++||..++|+|++++++++|+||+..|+.++|.|+|+.++++|++.  +|.+||||++.+|.
T Consensus       284 ~-FGDvV~fDTTY~tN~y~~Pfa~FvGvNhH~qtvlfGcaLl~dEt~eSf~WLf~tfl~aM~gk--~P~tIiTDqd~am~  360 (846)
T PLN03097        284 N-FSDVVSFDTTYVRNKYKMPLALFVGVNQHYQFMLLGCALISDESAATYSWLMQTWLRAMGGQ--APKVIITDQDKAMK  360 (846)
T ss_pred             h-cCCEEEEeceeeccccCcEEEEEEEecCCCCeEEEEEEEcccCchhhHHHHHHHHHHHhCCC--CCceEEecCCHHHH
Confidence            8 99999999999999999999999999999999999999999999999999999999999987  46999999999999


Q ss_pred             HHHHHhCCcccccccccccC
Q 046610          392 EAVEEFLPYAVYRQCCFSLY  411 (411)
Q Consensus       392 ~Ai~~vfP~a~h~~C~~Hi~  411 (411)
                      +||.+|||++.|++|.|||+
T Consensus       361 ~AI~~VfP~t~Hr~C~wHI~  380 (846)
T PLN03097        361 SVISEVFPNAHHCFFLWHIL  380 (846)
T ss_pred             HHHHHHCCCceehhhHHHHH
Confidence            99999999999999999985

>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=99.84  E-value=4.6e-21  Score=155.71  Aligned_cols=86  Identities=29%  Similarity=0.453  Sum_probs=81.5

Q ss_pred             ceeeccCCCCceEE---EEEecCCCCEEEeeeeeecccchhhHHHHHHHHHhhcCCCCCCcEEEEccCchHHHHHHHHhC
Q 046610          322 GWEIDGPYKSVMLI---AVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGIDEAVEEFL  398 (411)
Q Consensus       322 ~t~~~~~y~g~ll~---avg~d~~~~~~~lAfalv~~E~~e~w~WfL~~l~~~l~~~~~~~~~iisDr~~gL~~Ai~~vf  398 (411)
                      |||++|+| |+++.   ++|+|++++.+|+||+++++|+.++|.|||+.+++.++..   |.+||+|++.|+.+||+++|
T Consensus         1 ~T~~tn~~-~~l~~~~~~~~~d~~~~~~~v~~~l~~~e~~~~~~~~l~~~~~~~~~~---p~~ii~D~~~~~~~Ai~~vf   76 (93)
T PF10551_consen    1 GTYKTNKY-GPLLYLMIAVGIDGNGRGFPVAFALVSSESEESYEWFLEKLKEAMPQK---PKVIISDFDKALINAIKEVF   76 (93)
T ss_pred             Cccccccc-cccceeceEEEEcCCCCEEEEEEEEEcCCChhhhHHHHHHhhhccccC---ceeeeccccHHHHHHHHHHC
Confidence            79999999 98886   9999999999999999999999999999999999988763   58999999999999999999


Q ss_pred             CcccccccccccC
Q 046610          399 PYAVYRQCCFSLY  411 (411)
Q Consensus       399 P~a~h~~C~~Hi~  411 (411)
                      |++.|++|.||++
T Consensus        77 P~~~~~~C~~H~~   89 (93)
T PF10551_consen   77 PDARHQLCLFHIL   89 (93)
T ss_pred             CCceEehhHHHHH
Confidence            9999999999974

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

>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=99.48  E-value=1.3e-13  Score=105.41  Aligned_cols=62  Identities=19%  Similarity=0.418  Sum_probs=59.1

Q ss_pred             CChhhhcHHHHHHHHHHHHHHcCeeEEEeeCCCeEEEEEecCCCCceEEEEEEccCcceEEE
Q 046610          123 EDDEELQRSWFRRALEVQAIRDGIKLCKMDNTSTCISCECSDLSCDWKITTMKEHATKMFII  184 (411)
Q Consensus       123 ~d~~~~s~ee~r~av~~yAi~~~f~~~v~rS~~~r~~~~C~~~~CpwrV~as~~~~~~~w~I  184 (411)
                      .+..|.+++||+.||..|||++++++++.+|++.|++++|...+|||+|+|++.+.++.|+|
T Consensus         6 ~G~~F~~~~e~k~av~~yai~~~~~~~v~ksd~~r~~~~C~~~~C~Wrv~as~~~~~~~~~I   67 (67)
T PF03108_consen    6 VGQTFPSKEEFKEAVREYAIKNGFEFKVKKSDKKRYRAKCKDKGCPWRVRASKRKRSDTFQI   67 (67)
T ss_pred             cCCEECCHHHHHHHHHHHHHhcCcEEEEeccCCEEEEEEEcCCCCCEEEEEEEcCCCCEEEC
Confidence            46679999999999999999999999999999999999999999999999999999999986

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

>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=99.28  E-value=5e-13  Score=135.71  Aligned_cols=93  Identities=26%  Similarity=0.433  Sum_probs=84.9

Q ss_pred             ceeeeeeceeeccCCC-----CceEEEEEecCCCCEEEeeeeeecccchhhHHHHHHHHHh-hcCCCCCCcEEEEccCch
Q 046610          315 RMLLTVDGWEIDGPYK-----SVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVND-GLRLERGKGLCILGDGDN  388 (411)
Q Consensus       315 r~vl~iD~t~~~~~y~-----g~ll~avg~d~~~~~~~lAfalv~~E~~e~w~WfL~~l~~-~l~~~~~~~~~iisDr~~  388 (411)
                      .|+|.|||+|++.+.+     ..+++|+|+|.+|+..+||+.+.+.|+.++|.-||+.|++ ++..    |..||+|+++
T Consensus       162 y~~l~iD~~~~kvr~~~~~~~~~~~v~iGi~~dG~r~vLg~~~~~~Es~~~W~~~l~~L~~RGl~~----~~lvv~Dg~~  237 (381)
T PF00872_consen  162 YPYLWIDGTYFKVREDGRVVKKAVYVAIGIDEDGRREVLGFWVGDRESAASWREFLQDLKERGLKD----ILLVVSDGHK  237 (381)
T ss_pred             ccceeeeeeecccccccccccchhhhhhhhhcccccceeeeecccCCccCEeeecchhhhhccccc----cceeeccccc
Confidence            4789999999987744     4689999999999999999999999999999999999998 5653    4789999999


Q ss_pred             HHHHHHHHhCCcccccccccccC
Q 046610          389 GIDEAVEEFLPYAVYRQCCFSLY  411 (411)
Q Consensus       389 gL~~Ai~~vfP~a~h~~C~~Hi~  411 (411)
                      ||.+||.++||+|.+|.|.+|++
T Consensus       238 gl~~ai~~~fp~a~~QrC~vH~~  260 (381)
T PF00872_consen  238 GLKEAIREVFPGAKWQRCVVHLM  260 (381)
T ss_pred             cccccccccccchhhhhheechh
Confidence            99999999999999999999985

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

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

Probab=98.98  E-value=2.1e-09  Score=108.28  Aligned_cols=93  Identities=20%  Similarity=0.268  Sum_probs=83.8

Q ss_pred             CceeeeeeceeeccC--CCCceEEEEEecCCCCEEEeeeeeecccchhhHHHHHHHHHh-hcCCCCCCcEEEEccCchHH
Q 046610          314 CRMLLTVDGWEIDGP--YKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVND-GLRLERGKGLCILGDGDNGI  390 (411)
Q Consensus       314 cr~vl~iD~t~~~~~--y~g~ll~avg~d~~~~~~~lAfalv~~E~~e~w~WfL~~l~~-~l~~~~~~~~~iisDr~~gL  390 (411)
                      ..+++.+||+|++.+  -+..+++|+|++.+|+...+++.+...|+ ..|.-||..|+. ++.+    ...+++|.++||
T Consensus       144 ~~~~v~~D~~~~k~r~v~~~~~~ia~Gv~~eG~reilg~~~~~~e~-~~w~~~l~~l~~rgl~~----v~l~v~Dg~~gl  218 (379)
T COG3328         144 DYPYVYLDAKYVKVRSVRNKAVYIAIGVTEEGRREILGIWVGVRES-KFWLSFLLDLKNRGLSD----VLLVVVDGLKGL  218 (379)
T ss_pred             CceEEEEecceeehhhhhhheeeeeeccCcccchhhhceeeecccc-hhHHHHHHHHHhccccc----eeEEecchhhhh
Confidence            678999999999988  45679999999999999999999999999 999988888888 4664    367788999999


Q ss_pred             HHHHHHhCCcccccccccccC
Q 046610          391 DEAVEEFLPYAVYRQCCFSLY  411 (411)
Q Consensus       391 ~~Ai~~vfP~a~h~~C~~Hi~  411 (411)
                      .+||.++||.+.++.|+.|++
T Consensus       219 ~~aI~~v~p~a~~Q~C~vH~~  239 (379)
T COG3328         219 PEAISAVFPQAAVQRCIVHLV  239 (379)
T ss_pred             HHHHHHhccHhhhhhhhhHHH
Confidence            999999999999999999974

>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=98.71  E-value=7.6e-08  Score=79.51  Aligned_cols=69  Identities=13%  Similarity=0.195  Sum_probs=64.2

Q ss_pred             hhcHHHHHHHHHHHHHHcCeeEEEeeCCCeEEEEEecC------------------------------------------
Q 046610          127 ELQRSWFRRALEVQAIRDGIKLCKMDNTSTCISCECSD------------------------------------------  164 (411)
Q Consensus       127 ~~s~ee~r~av~~yAi~~~f~~~v~rS~~~r~~~~C~~------------------------------------------  164 (411)
                      |-+++|++.+|+.++..+|+++.+.||+...+.++|..                                          
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            45789999999999999999999999999999999982                                          


Q ss_pred             CCCceEEEEEEccCcceEEEeeecCCCCCcc
Q 046610          165 LSCDWKITTMKEHATKMFIISYITPVHKCTK  195 (411)
Q Consensus       165 ~~CpwrV~as~~~~~~~w~I~~~~~~HnC~~  195 (411)
                      ..|||+|+|+.....+.|.|..+++.|+|++
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            5899999999999999999999999999974

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

>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=98.38  E-value=7.8e-07  Score=71.73  Aligned_cols=59  Identities=15%  Similarity=0.246  Sum_probs=52.0

Q ss_pred             HHHHHHHHcCeeEEEeeCCC-------eEEEEEecC----------------------CCCceEEEEEEccCcceEEEee
Q 046610          136 ALEVQAIRDGIKLCKMDNTS-------TCISCECSD----------------------LSCDWKITTMKEHATKMFIISY  186 (411)
Q Consensus       136 av~~yAi~~~f~~~v~rS~~-------~r~~~~C~~----------------------~~CpwrV~as~~~~~~~w~I~~  186 (411)
                      +++.||...||.++..+|.+       .++.++|.+                      ++|||+|.+.+.+ .+.|.|+.
T Consensus         2 fy~~yA~~~GF~vr~~~s~~~~~~~~~~~~~~~C~r~G~~~~~~~~~~~~~r~~~s~ktgC~a~i~v~~~~-~~~w~v~~   80 (91)
T PF03101_consen    2 FYNSYARRHGFSVRKSSSRKSKKNGEIKRVTFVCSRGGKYKSKKKNEEKRRRNRPSKKTGCKARINVKRRK-DGKWRVTS   80 (91)
T ss_pred             HHHHhcCcCCeEEEEeeeEeCCCCceEEEEEEEECCcccccccccccccccccccccccCCCEEEEEEEcc-CCEEEEEE
Confidence            57899999999999987654       378889984                      7999999999987 88999999


Q ss_pred             ecCCCCCcc
Q 046610          187 ITPVHKCTK  195 (411)
Q Consensus       187 ~~~~HnC~~  195 (411)
                      +..+|||++
T Consensus        81 ~~~~HNH~L   89 (91)
T PF03101_consen   81 FVLEHNHPL   89 (91)
T ss_pred             CcCCcCCCC
Confidence            999999986

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.

>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=94.61  E-value=0.11  Score=38.82  Aligned_cols=42  Identities=12%  Similarity=0.141  Sum_probs=33.6

Q ss_pred             CCCeEEEEEecCCCCceEEEEEEccCcceEEEeeecCCCCCc
Q 046610          153 NTSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKCT  194 (411)
Q Consensus       153 S~~~r~~~~C~~~~CpwrV~as~~~~~~~w~I~~~~~~HnC~  194 (411)
                      |.-.|.-++|+..+||.+-.+.+....+...++++.++|||+
T Consensus        18 ~~~pRsYYrCt~~~C~akK~Vqr~~~d~~~~~vtY~G~H~h~   59 (60)
T PF03106_consen   18 SPYPRSYYRCTHPGCPAKKQVQRSADDPNIVIVTYEGEHNHP   59 (60)
T ss_dssp             TTCEEEEEEEECTTEEEEEEEEEETTCCCEEEEEEES--SS-
T ss_pred             CceeeEeeeccccChhheeeEEEecCCCCEEEEEEeeeeCCC
Confidence            334677799999999999999998777788899999999996

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.

>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=92.52  E-value=0.27  Score=46.60  Aligned_cols=86  Identities=15%  Similarity=0.184  Sum_probs=61.3

Q ss_pred             eeeeceeeccCCCCceEEEEEecC--CCCEEEeeeeeecccchhhHHHHHHHH-HhhcCCCCCCcEEEEccCchHHHHHH
Q 046610          318 LTVDGWEIDGPYKSVMLIAVCRDR--NDVVLPVAFCEVQEENLDSWAFFLKNV-NDGLRLERGKGLCILGDGDNGIDEAV  394 (411)
Q Consensus       318 l~iD~t~~~~~y~g~ll~avg~d~--~~~~~~lAfalv~~E~~e~w~WfL~~l-~~~l~~~~~~~~~iisDr~~gL~~Ai  394 (411)
                      |+||=+.....+..  +..+-.|.  ++...   ++++++-+.+...=||..+ -.....   .+.+|++|...+-.+||
T Consensus         1 lgiDE~~~~~g~~~--y~t~~~d~~~~~~~i---l~i~~~r~~~~l~~~~~~~~~~~~~~---~v~~V~~Dm~~~y~~~~   72 (249)
T PF01610_consen    1 LGIDEFAFRKGHRS--YVTVVVDLDTDTGRI---LDILPGRDKETLKDFFRSLYPEEERK---NVKVVSMDMSPPYRSAI   72 (249)
T ss_pred             CeEeeeeeecCCcc--eeEEEEECccCCceE---EEEcCCccHHHHHHHHHHhCcccccc---ceEEEEcCCCccccccc
Confidence            57787766543332  33444444  33322   3588899999988777776 333222   35789999999999999


Q ss_pred             HHhCCcccccccccccC
Q 046610          395 EEFLPYAVYRQCCFSLY  411 (411)
Q Consensus       395 ~~vfP~a~h~~C~~Hi~  411 (411)
                      .+.||+|.+..-.+|++
T Consensus        73 ~~~~P~A~iv~DrFHvv   89 (249)
T PF01610_consen   73 REYFPNAQIVADRFHVV   89 (249)
T ss_pred             cccccccccccccchhh
Confidence            99999999999999985

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

>PF13610 DDE_Tnp_IS240: DDE domain

Probab=90.89  E-value=0.12  Score=44.95  Aligned_cols=79  Identities=19%  Similarity=0.044  Sum_probs=65.1

Q ss_pred             eeeeeeceeeccCCCCceEEEEEecCCCCEEEeeeeeecccchhhHHHHHHHHHhhcCCCCCCcEEEEccCchHHHHHHH
Q 046610          316 MLLTVDGWEIDGPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGIDEAVE  395 (411)
Q Consensus       316 ~vl~iD~t~~~~~y~g~ll~avg~d~~~~~~~lAfalv~~E~~e~w~WfL~~l~~~l~~~~~~~~~iisDr~~gL~~Ai~  395 (411)
                      ..+.+|-||.+.+=. ..+..-.+|.+++  +|.|-|-+.-+...=..||..+.+....   .|..|++|+.++...|+.
T Consensus         2 ~~w~~DEt~iki~G~-~~yl~~aiD~~~~--~l~~~ls~~Rd~~aA~~Fl~~~l~~~~~---~p~~ivtDk~~aY~~A~~   75 (140)
T PF13610_consen    2 DSWHVDETYIKIKGK-WHYLWRAIDAEGN--ILDFYLSKRRDTAAAKRFLKRALKRHRG---EPRVIVTDKLPAYPAAIK   75 (140)
T ss_pred             CEEEEeeEEEEECCE-EEEEEEeeccccc--chhhhhhhhcccccceeeccccceeecc---ccceeecccCCccchhhh
Confidence            467899999875422 3455677899998  8899999999999989999988887652   468999999999999999


Q ss_pred             HhCCc
Q 046610          396 EFLPY  400 (411)
Q Consensus       396 ~vfP~  400 (411)
                      ++.|.
T Consensus        76 ~l~~~   80 (140)
T PF13610_consen   76 ELNPE   80 (140)
T ss_pred             hcccc
Confidence            99986

>smart00774 WRKY DNA binding domain

Probab=89.60  E-value=0.56  Score=34.80  Aligned_cols=40  Identities=10%  Similarity=0.059  Sum_probs=32.0

Q ss_pred             CCeEEEEEecC-CCCceEEEEEEccCcceEEEeeecCCCCC
Q 046610          154 TSTCISCECSD-LSCDWKITTMKEHATKMFIISYITPVHKC  193 (411)
Q Consensus       154 ~~~r~~~~C~~-~~CpwrV~as~~~~~~~w~I~~~~~~HnC  193 (411)
                      ...|.-++|.. .+||.+=.+.+....+.-.++++.++|||
T Consensus        19 ~~pRsYYrCt~~~~C~a~K~Vq~~~~d~~~~~vtY~g~H~h   59 (59)
T smart00774       19 PFPRSYYRCTYSQGCPAKKQVQRSDDDPSVVEVTYEGEHTH   59 (59)
T ss_pred             cCcceEEeccccCCCCCcccEEEECCCCCEEEEEEeeEeCC
Confidence            34566689998 89999888887765666778889999998

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.

>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=84.54  E-value=1.9  Score=31.21  Aligned_cols=46  Identities=15%  Similarity=0.125  Sum_probs=24.8

Q ss_pred             cCeeEEEeeCCCeEEEEEecCC---CCceEEEEEEccCcceEEEeeecCCCCC
Q 046610          144 DGIKLCKMDNTSTCISCECSDL---SCDWKITTMKEHATKMFIISYITPVHKC  193 (411)
Q Consensus       144 ~~f~~~v~rS~~~r~~~~C~~~---~CpwrV~as~~~~~~~w~I~~~~~~HnC  193 (411)
                      .|+.|...+.........|...   +|+.+|...  ..  .-.+.....+|||
T Consensus        14 ~Gy~y~~~~~~~~~~~WrC~~~~~~~C~a~~~~~--~~--~~~~~~~~~~HnH   62 (62)
T PF04500_consen   14 DGYRYYFNKRNDGKTYWRCSRRRSHGCRARLITD--AG--DGRVVRTNGEHNH   62 (62)
T ss_dssp             TTEEEEEEEE-SS-EEEEEGGGTTS----EEEEE------TTEEEE-S---SS
T ss_pred             CCeEEECcCCCCCcEEEEeCCCCCCCCeEEEEEE--CC--CCEEEECCCccCC
Confidence            5778877766677888999963   899999988  22  2335555688987

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.

>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=83.42  E-value=2.2  Score=44.06  Aligned_cols=54  Identities=7%  Similarity=0.083  Sum_probs=47.6

Q ss_pred             CChhhhcHHHHHHHHHHHHHHcCeeEEEeeCC-CeEEEEEecCCCCceEEEEEEc
Q 046610          123 EDDEELQRSWFRRALEVQAIRDGIKLCKMDNT-STCISCECSDLSCDWKITTMKE  176 (411)
Q Consensus       123 ~d~~~~s~ee~r~av~~yAi~~~f~~~v~rS~-~~r~~~~C~~~~CpwrV~as~~  176 (411)
                      +...|+..+.--.+|+.|-...+.++..+.|- .+.|++-|--..|||+|..+-.
T Consensus        24 ~~~~f~tl~~wy~v~ndyefq~rcpiilknsh~nkhftfachlk~c~fkillsy~   78 (496)
T PF04684_consen   24 QARKFPTLEAWYNVINDYEFQSRCPIILKNSHRNKHFTFACHLKNCPFKILLSYC   78 (496)
T ss_pred             cccCCCcHHHHHHHHhhhhhhhcCceeecccccccceEEEeeccCCCceeeeeec
Confidence            34568999999999999999999999999885 5789999999999999988753

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

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

Probab=80.89  E-value=5.8  Score=41.75  Aligned_cols=55  Identities=31%  Similarity=0.465  Sum_probs=45.5

Q ss_pred             ccchhhHHHHHHHHHhhcCCCCCCcEEEEccCchHHHHHHHHhCCccccccccccc
Q 046610          355 EENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGIDEAVEEFLPYAVYRQCCFSL  410 (411)
Q Consensus       355 ~E~~e~w~WfL~~l~~~l~~~~~~~~~iisDr~~gL~~Ai~~vfP~a~h~~C~~Hi  410 (411)
                      ..+.+-|.-+++.+.+.........+++.+|+...|.+++. .||++.|.+..+|+
T Consensus       235 ~~~~~~~~~v~~~i~~~Y~~~~~~~iiingDGa~WIk~~~~-~~~~~~~~LD~FHl  289 (470)
T PF06782_consen  235 ESAEEFWEEVLDYIYNHYDLDKTTKIIINGDGASWIKEGAE-FFPKAEYFLDRFHL  289 (470)
T ss_pred             cchHHHHHHHHHHHHHhcCcccceEEEEeCCCcHHHHHHHH-hhcCceEEecHHHH
Confidence            56678899999988886655433348899999999988876 89999999999997

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

Probab=80.48  E-value=11  Score=30.84  Aligned_cols=76  Identities=13%  Similarity=-0.023  Sum_probs=54.3

Q ss_pred             Cceeeeeeceeec-cCCCCceEEEEEecCCCCEEEeeeeeecccchhhHHHHHHHHHhhcCCCCCCcEEEEccCchHHHH
Q 046610          314 CRMLLTVDGWEID-GPYKSVMLIAVCRDRNDVVLPVAFCEVQEENLDSWAFFLKNVNDGLRLERGKGLCILGDGDNGIDE  392 (411)
Q Consensus       314 cr~vl~iD~t~~~-~~y~g~ll~avg~d~~~~~~~lAfalv~~E~~e~w~WfL~~l~~~l~~~~~~~~~iisDr~~gL~~  392 (411)
                      ....+.+|.+++. ...++.....+.+|..-+.. +++.+-..++.+.+.-+|.......+..  +|.+|++|+.+....
T Consensus         5 p~~~~~~D~~~~~~~~~~~~~~~~~~iD~~S~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~p~~i~tD~g~~f~~   81 (120)
T PF00665_consen    5 PGERWQIDFTPMPIPDKGGRVYLLVFIDDYSRFI-YAFPVSSKETAEAALRALKRAIEKRGGR--PPRVIRTDNGSEFTS   81 (120)
T ss_dssp             TTTEEEEEEEEETGGCTT-CEEEEEEEETTTTEE-EEEEESSSSHHHHHHHHHHHHHHHHS-S--E-SEEEEESCHHHHS
T ss_pred             CCCEEEEeeEEEecCCCCccEEEEEEEECCCCcE-EEEEeecccccccccccccccccccccc--cceeccccccccccc
Confidence            3457899999776 34566788888888876654 4677777778888888888766655543  158999999998873

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 ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	411
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05

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

 Score = 51.8 bits (123), Expect = 3e-07
 Identities = 54/397 (13%), Positives = 107/397 (26%), Gaps = 107/397 (26%)

Query: 33  CGRTSKTTMLDDSISTKRTQLISDFEV---TQAISEIQNSLIEG-NNLHDNLSSANHLPT 88
            G   KT +  D   + + Q   DF++            +++E    L   +        
Sbjct: 161 SG---KTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI-------- 209

Query: 89  TPDIRNYPTSWASDKGWEAADDSEDETVYLPNTNEDDEELQRSW----FRRALEVQAIRD 144
                        D  W +  D           +    EL+R      +   L V     
Sbjct: 210 -------------DPNWTSRSDHSSNIKL--RIHSIQAELRRLLKSKPYENCLLV----- 249

Query: 145 GIKLCKMDN--TSTCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKCTKRLSKLKW 202
                 + N   +        +LSC   +TT  +      +  +++        L     
Sbjct: 250 ------LLNVQNAKAW--NAFNLSCKILLTTRFKQ-----VTDFLSAATTTHISLDHHSM 296

Query: 203 G-----TKWITAKFLHKWKQN-PHQQLHVLGNEIAATYGIKCPIWKLKAIDTTARMWLGL 256
                  K +  K+L    Q+ P + L      ++        I +    D  A  W   
Sbjct: 297 TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSI-------IAESI-RDGLAT-W--- 344

Query: 257 DHGEGYAQLLQYREEMEMINSHNIIIIETSTKQQSSDEI---FDCMFVFLYDTAYAFKTR 313
              + +  +   +            IIE+S       E    FD + VF           
Sbjct: 345 ---DNWKHVNCDKLTT---------IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL 392

Query: 314 CRMLLTVDGWEIDGPYKSVMLIA--------VCRDRND--VVLPVAFCEVQEENLDSWAF 363
             +      W  D     VM++         V +   +  + +P  + E++ +  + +A 
Sbjct: 393 SLI------WF-DVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL 445

Query: 364 FLKNVNDGLRLERGKGLCILGDGDNGIDEAVEEFLPY 400
               V+        K           +D+     + +
Sbjct: 446 HRSIVD---HYNIPKTFDSDDLIPPYLDQYFYSHIGH 479

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

 Score = 46.0 bits (108), Expect = 2e-05
 Identities = 60/428 (14%), Positives = 127/428 (29%), Gaps = 130/428 (30%)

Query: 44  DSISTKRTQLISDFEVTQAISEIQNSLIEGNNLHDNLSSANHLPTTPDIRNYPTSWA-SD 102
           D +S      + +F+  + + ++  S++    +   + S +              W    
Sbjct: 20  DILSVFEDAFVDNFDC-KDVQDMPKSILSKEEIDHIIMSKD-----AVSGTLRLFWTLLS 73

Query: 103 KGWEAADDSEDETVYLPNTNEDDEELQRSWFRRALEVQAIRDGIKLCKMDNTSTCISCEC 162
           K  E          ++    E+   +   +    ++ +         +  +  T +  E 
Sbjct: 74  KQEEMVQK------FV----EEVLRINYKFLMSPIKTE--------QRQPSMMTRMYIEQ 115

Query: 163 SDLSCDWKITTMKEHATKMFIISYITPVHKCTKRLSKLKWGTKWITAKFLH------KWK 216
            D     ++    +   K  + S + P  K  + L +L+   K +    +       K  
Sbjct: 116 RD-----RLYNDNQVFAKYNV-SRLQPYLKLRQALLELRPA-KNVL---IDGVLGSGKT- 164

Query: 217 QNPHQQLHVLGNEIAATYGIKC----PI-W-KLKAIDTTARMWLGLDHGEGYAQLLQYRE 270
                    +  ++  +Y ++C     I W  LK  ++   +   L       Q L Y+ 
Sbjct: 165 --------WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML-------QKLLYQI 209

Query: 271 EMEMI----NSHNIIIIETSTKQQSSDEIF-----DCMFVFLYD-----TAYAFKTRCRM 316
           +        +S NI +   S + +    +      +C+ V L +        AF   C++
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV-LLNVQNAKAWNAFNLSCKI 268

Query: 317 LLTVDGWEIDGPYKSVMLIAVCRDRN--DVVLPVAFCEVQEENL-------DSWAFFLKN 367
           LLT                   R +   D +       +  ++        +  +  LK 
Sbjct: 269 LLTT------------------RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY 310

Query: 368 VN---DGLRLERGKG----LCILG----DGDNGID-----------EAVE---EFLPYAV 402
           ++     L  E        L I+     DG    D             +E     L  A 
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAE 370

Query: 403 YRQCCFSL 410
           YR+    L
Sbjct: 371 YRKMFDRL 378

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	411
2ayd_A	76	WRKY transcription factor 1; beta strands, zinc fi	93.31
1wj2_A	78	Probable WRKY transcription factor 4; DNA-binding	93.13

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

Probab=93.31  E-value=0.15  Score=38.62  Aligned_cols=40  Identities=15%  Similarity=0.186  Sum_probs=34.7

Q ss_pred             eEEEEEecCCCCceEEEEEEccCcceEEEeeecCCCCCcc
Q 046610          156 TCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKCTK  195 (411)
Q Consensus       156 ~r~~~~C~~~~CpwrV~as~~~~~~~w~I~~~~~~HnC~~  195 (411)
                      .|-.++|...+||.+-.+.+........++++.++|||..
T Consensus        34 PRsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~   73 (76)
T 2ayd_A           34 PRSYYRCSSPGCPVKKHVERSSHDTKLLITTYEGKHDHDM   73 (76)
T ss_dssp             CEEEEEECSTTCCCEEEEEECSSSTTEEEEEEESCCSSCC
T ss_pred             ceeEeEcCCCCCCceeeEEEECCCCCEEEEEEccCcCCCC
Confidence            5666899999999999999987777778889999999975

>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=93.13  E-value=0.17  Score=38.60  Aligned_cols=47  Identities=6%  Similarity=0.096  Sum_probs=36.9

Q ss_pred             EEeeCC-CeEEEEEecCCCCceEEEEEEccCcceEEEeeecCCCCCcc
Q 046610          149 CKMDNT-STCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKCTK  195 (411)
Q Consensus       149 ~v~rS~-~~r~~~~C~~~~CpwrV~as~~~~~~~w~I~~~~~~HnC~~  195 (411)
                      +..++. -.|-.++|...+||.+-.+.+........++++.++|||..
T Consensus        29 K~ikgs~~PRsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~   76 (78)
T 1wj2_A           29 KVVKGNPYPRSYYKCTTPGCGVRKHVERAATDPKAVVTTYEGKHNHDL   76 (78)
T ss_dssp             ECCTTCSSCEEEEEEECSSCEEEEEEEEETTTTSEEEEEEESCCSSCC
T ss_pred             cccCCCcCeeEEeecCcCCCCcEeeEEEEcCCCCEEEEEEeeEcCCCC
Confidence            333443 35666899999999999999876666677889999999975

---

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	411
d1wj2a_	71	WRKY DNA-binding protein 4 {Thale cress (Arabidops	94.9

>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=94.90  E-value=0.023  Score=40.77  Aligned_cols=41  Identities=7%  Similarity=0.122  Sum_probs=35.3

Q ss_pred             CeEEEEEecCCCCceEEEEEEccCcceEEEeeecCCCCCcc
Q 046610          155 STCISCECSDLSCDWKITTMKEHATKMFIISYITPVHKCTK  195 (411)
Q Consensus       155 ~~r~~~~C~~~~CpwrV~as~~~~~~~w~I~~~~~~HnC~~  195 (411)
                      ..|..++|+..+|+++=.+.+....+.-.++++.++|||..
T Consensus        29 ~pRsYYrCt~~~C~a~K~Vqr~~~d~~~~~vtY~G~H~h~~   69 (71)
T d1wj2a_          29 YPRSYYKCTTPGCGVRKHVERAATDPKAVVTTYEGKHNHDL   69 (71)
T ss_dssp             SCEEEEEEECSSCEEEEEEEEETTTTSEEEEEEESCCSSCC
T ss_pred             CceEEEEccccCCCCcceEEEEcCCCCEEEEEEeeEeCCCC
Confidence            35777999999999999999887667778888999999975