Citrus Sinensis ID: 042031

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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-----
Protein Sequence
MADHALTVPNDSLSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNPQYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSIASVFATGQKIVSIGSLFLIVHQYMGVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQFPPQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMGMRWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLYGLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKEPGEGAEGGVAKLDITIRPPKTRRPPGRPKKKVLRVENFKRPKRIVQCGRCHLLGHSQKKCTMPI
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccEEccHHHHHHHHHHHHHHHcEEEEEEEEccEEEEEEEEcccccEEEEEEEcccccEEEEEEEccccccccccccccccccHHHHHHHHccEEEccccccHHHHHHHHHHHccEEccccccHHHHHHHHHHHccccccccccHHHHHHHHHHHcccccEEEEEcccEEEEEccEEEEEEEEEEEccccccccEEEEEEEEcccccHHHHHHHHEEEEEEEcccccccEEEEccccccHHHHccccccccccHHHHHHHHcccccccccHHHHHHHHHHHHHcHHHHHHHHHHHHccccccHHHHcccccccEEEEEccccEEEEEEcccHHHcccccccccccHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHccEEEEEEEcccEEEEEEEEcEEEEEEEccEEEEccccccccccHHHHHHHHHHccccccccccccccHHHHHHHHcccEEccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEcccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccEEEcEEcccHHHHHHHHHHHHHHcccEEEEEEccccEEEEEEccccccEEEEEEEcccccEEEEEEEccccccccccccccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHcccEEcHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHccccEEEEEccccEEEEEcccHEEEEEEEEccccccEEEEEEEEEEccccHHHHHHHHHHHHHHcccccccccEEEEEcccHHHHHHHHHHcccccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccHHHHHHHHHHHHHHcHHHHHHHHHccHHHHHHHHcccccccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccEEEEEcccEEEEEEEcccEEEEEEcccEEcccccccccccHHHHHHHHHHccccHHHHHHHcccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccEccccccccccEEEEEccccccccccccccccc
Coil and Loop (DISEMBL)
madhaltvpndslslaeptlsigqefpdvetCRRTLKDIAIALHFDLRIVKSDRSRFIAKcskegcpwrvhvakcpgvptfsirtlhgehtcegvqNLHHQQASVGWVARSVEArirdnpqykpkeILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIrktnpgsiasvFATGQKIVSIGSLFLIVHQYMgvdaedalFPLAIAIVDVESDENWMWFMSELRKLLgvntdnmprltILSERQRGIVEAVethfpsafhcFCLRYVSenfrdtfkntklVNIFWNAVYALTTVEFEAKISEMVEISQDvipwfqqfppqLWAIAYFEGVRYGHFTLGVTELLYNWAlechelpvVQMMEYIRHQLTSWFNDRREMGMRWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCscrrwqlyglpCAHAAAALLSCgqnvhlfaepcftVASYRETYSQMINaipdksrwkepgegaeggvaklditirppktrrppgrpkkkvlrvenfkrpkrivqcgrchllghsqkkctmpi
Flexible Loop (DISEMBL)
madhaltvpndslslaeptlsigqefpdVETCRRTLKDIAIALhfdlrivksDRSRFIAKcskegcpwrvhvAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIrdnpqykpkeilqdIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSIASVFATGQKIVSIGSLFLIVHQYMGVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQFPPQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMGMRWTSILVPSTERQIMEAIADARCYQVLRANEIEfeivstertnivdIRSRVCSCRRWQLYGLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAipdksrwkepgegaeggvaklditirppktrrppgrpkkkvlrvenfkrpkrivqcgrchllghsqkkctmpi
Low Complexity Region (SEG)
MADHALTVPNDSLSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNPQYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSIASVFATGQKIVSIGSLFLIVHQYMGVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQFPPQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMGMRWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLYGLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKEPGEGAEGGVAKLDITIrppktrrppgrpkkkVLRVENFKRPKRIVQCGRCHLLGHSQKKCTMPI
Disordered region (IsUnstruct)
*********************IGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNPQYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSIASVFATGQKIVSIGSLFLIVHQYMGVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQFPPQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMGMRWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLYGLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAI************************************************************************
Disordered Region (DISOPRED)
***HALTVPNDSLSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNPQYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSIASVFATGQKIVSIGSLFLIVHQYMGVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQFPPQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMGMRWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLYGLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKEPGEGAEGGVAKLDI**********************************RCHLLGHSQ*KCTMP*
Disordered Region (DISEMBL)
********PNDSLSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNPQYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSIASVFATGQKIVSIGSLFLIVHQYMGVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQFPPQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMGMRWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLYGLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKEPGEGAEGGVAKLDITIRPPKTRRPPGRPKKKVLRVENFKRPKRIVQCGRCHLLGHSQKKCTMPI
Disordered Region (DISPRO)
*****LTVPNDSLSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNPQYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSIASVFATGQKIVSIGSLFLIVHQYMGVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQFPPQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMGMRWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLYGLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKEPGE****GVAKLDITIRPPK**********K*********PKRIVQCGRCHLL*HSQKKC****
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)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MADHALTVPNDSLSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNPQYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSIASVFATGQKIVSIGSLFLIVHQYMGVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQFPPQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMGMRWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLYGLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKEPGEGAEGGVAKLDITIRPPKTRRPPGRPKKKVLRVENFKRPKRIVQCGRCHLLGHSQKKCTMPI
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	565
449442265	594	PREDICTED: uncharacterized protein LOC10	1.0	0.951	0.826	0.0
224128726	594	predicted protein [Populus trichocarpa]	0.998	0.949	0.831	0.0
224146182	594	predicted protein [Populus trichocarpa]	1.0	0.951	0.838	0.0
225431049	602	PREDICTED: uncharacterized protein LOC10	0.996	0.935	0.818	0.0
356573177	599	PREDICTED: uncharacterized protein LOC10	1.0	0.943	0.797	0.0
147854673	587	hypothetical protein VITISV_031021 [Viti	0.964	0.928	0.839	0.0
356504141	599	PREDICTED: uncharacterized protein LOC10	1.0	0.943	0.796	0.0
9759134	597	mutator-like transposase-like protein [A	0.996	0.943	0.752	0.0
262411008	594	P10Sh148J07 [Saccharum hybrid cultivar R	0.996	0.947	0.649	0.0
262411019	594	P30Sh95F04 [Saccharum hybrid cultivar R5	0.996	0.947	0.647	0.0

>gi|449442265|ref|XP_004138902.1| PREDICTED: uncharacterized protein LOC101220272 [Cucumis sativus] gi|449506289|ref|XP_004162705.1| PREDICTED: uncharacterized protein LOC101228133 [Cucumis sativus]

 Score = 1030 bits (2664), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 491/594 (82%), Positives = 532/594 (89%), Gaps = 29/594 (4%)

Query: 1   MADHALTVPNDSLSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAK 60
           MADH+L V   +LSL + TL IGQEFPDVETCRR LKDIAIA+HFD+RIVKSDRSRFIAK
Sbjct: 1   MADHSLIVSETALSLVDHTLVIGQEFPDVETCRRMLKDIAIAMHFDIRIVKSDRSRFIAK 60

Query: 61  CSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNP 120
           CSKEGCPWRVHVAKCPGVPTF++RTLHGEHTCEGV+NLHHQQASVGWVARSV A++RDNP
Sbjct: 61  CSKEGCPWRVHVAKCPGVPTFTVRTLHGEHTCEGVRNLHHQQASVGWVARSVAAQVRDNP 120

Query: 121 QYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGS 180
           QYKPKEIL+DIRDQHGVAVSYMQAWRGKERSMAALHGT+EEGYRLLPAYCEQI KTNPGS
Sbjct: 121 QYKPKEILRDIRDQHGVAVSYMQAWRGKERSMAALHGTFEEGYRLLPAYCEQISKTNPGS 180

Query: 181 IASVFATGQK-------IVSIGSLFLIVH---------------QYMG-------VDAED 211
           IASVFATGQ+       I    S++  ++               +Y+G       VDA+D
Sbjct: 181 IASVFATGQENCFQRLFISYRASIYGFINACRPLLELDRAHLKGKYLGALLCAAVVDADD 240

Query: 212 ALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSA 271
           +LFPLAIA+VDVESDENWMWFMSELRKLLGVNTD+MPRLTILSERQRGIVEAVETHFPSA
Sbjct: 241 SLFPLAIAVVDVESDENWMWFMSELRKLLGVNTDSMPRLTILSERQRGIVEAVETHFPSA 300

Query: 272 FHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQFP 331
           FH FCLRYVSENFRDTFKNTKLVNIFWNAVYALT  EF++KI+EMVEISQ+VI WFQ FP
Sbjct: 301 FHGFCLRYVSENFRDTFKNTKLVNIFWNAVYALTAAEFDSKIAEMVEISQEVITWFQHFP 360

Query: 332 PQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMGM 391
           PQLWA+AYFEGVRYGHFTLGVTELLYNWALECHELP+VQMME+IR+++ SWFN+RREMGM
Sbjct: 361 PQLWAVAYFEGVRYGHFTLGVTELLYNWALECHELPIVQMMEHIRNEMASWFNERREMGM 420

Query: 392 RWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLY 451
           RWTSILVPS E++I EAIADARCYQVLRANE+EFEIVSTERTNIV+I SRVCSCRRWQLY
Sbjct: 421 RWTSILVPSAEKRIAEAIADARCYQVLRANEVEFEIVSTERTNIVEIHSRVCSCRRWQLY 480

Query: 452 GLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKEPGEGAEGGVA 511
           GLPCAHAAAAL+SCGQN HLFAEPCFTV SYRETYSQMI  I DKS WKEPGEGAEGGVA
Sbjct: 481 GLPCAHAAAALMSCGQNAHLFAEPCFTVTSYRETYSQMIYPILDKSLWKEPGEGAEGGVA 540

Query: 512 KLDITIRPPKTRRPPGRPKKKVLRVENFKRPKRIVQCGRCHLLGHSQKKCTMPI 565
           K+DITIRPPK RRPPGRPKKKVLRVEN KRPKRIVQCGRCHLLGHSQKKCTMP+
Sbjct: 541 KVDITIRPPKIRRPPGRPKKKVLRVENLKRPKRIVQCGRCHLLGHSQKKCTMPM 594

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224128726|ref|XP_002328951.1| predicted protein [Populus trichocarpa] gi|222839185|gb|EEE77536.1| predicted protein [Populus trichocarpa]

 Score = 1030 bits (2662), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 493/593 (83%), Positives = 532/593 (89%), Gaps = 29/593 (4%)

Query: 1   MADHALTVPNDSLSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAK 60
           MAD AL VP+ SL+L+E  L+IGQEFP+VETCRRTLKDIAIALHFDLRIVKSDRSRFIAK
Sbjct: 1   MADRALIVPDASLALSEHALAIGQEFPNVETCRRTLKDIAIALHFDLRIVKSDRSRFIAK 60

Query: 61  CSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNP 120
           CSK GCPWRVHVAKCPGVPTFSIRTLHGEHTCEGV NLHHQQASVGWVARSVEARIRDNP
Sbjct: 61  CSKVGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVHNLHHQQASVGWVARSVEARIRDNP 120

Query: 121 QYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGS 180
           Q+KPKEILQDIRD+HGVAVSYMQAWRGKERSMAALHGT+EEG+RLLPAYCEQIRK NPGS
Sbjct: 121 QFKPKEILQDIRDRHGVAVSYMQAWRGKERSMAALHGTFEEGFRLLPAYCEQIRKNNPGS 180

Query: 181 IASVFATGQK-------IVSIGSLFLIVH---------------QYMG-------VDAED 211
           IASVFATGQ        I    S++  ++               +Y+G       VDA D
Sbjct: 181 IASVFATGQDNCFQRLFISYRASIYGFINACRPLLELDRAHLKGKYLGTLLCAAAVDAND 240

Query: 212 ALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSA 271
           ALFPLAIAIVDVE+DENWMWFMSELRKLLGVNTDNMPRLTILSER +GIVEAVETHFPSA
Sbjct: 241 ALFPLAIAIVDVENDENWMWFMSELRKLLGVNTDNMPRLTILSERHKGIVEAVETHFPSA 300

Query: 272 FHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQFP 331
           FH FCLRYVSENFRDTFKNTKLVNIFWNAVYALT  EFE+KI+EMVEISQDVIPWFQ F 
Sbjct: 301 FHGFCLRYVSENFRDTFKNTKLVNIFWNAVYALTAAEFESKIAEMVEISQDVIPWFQDFS 360

Query: 332 PQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMGM 391
           PQLWA+AYFEG+R+GHFTLGVTELLYNWALECHELPVVQMME+IR QLTSWFN+RRE+GM
Sbjct: 361 PQLWAVAYFEGMRFGHFTLGVTELLYNWALECHELPVVQMMEHIRLQLTSWFNNRREIGM 420

Query: 392 RWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLY 451
            WTSILVPS E++++EAIADA CYQVLRANE+EFEIVSTERTNIVDI SRVCSCRRWQL 
Sbjct: 421 SWTSILVPSAEKRVLEAIADAPCYQVLRANEVEFEIVSTERTNIVDISSRVCSCRRWQLN 480

Query: 452 GLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKEPGEGAEGGVA 511
           GLPCAHAAAAL+SCGQN H+FAEPCFTVASYRETYS+MIN IPDKS+W+E GEG EGGVA
Sbjct: 481 GLPCAHAAAALISCGQNAHVFAEPCFTVASYRETYSEMINPIPDKSQWRELGEGTEGGVA 540

Query: 512 KLDITIRPPKTRRPPGRPKKKVLRVENFKRPKRIVQCGRCHLLGHSQKKCTMP 564
           ++DI+IRPPKTRRPPGRPKKKVLRVENFKRPKR+VQCGRCHLLGHSQKKCTMP
Sbjct: 541 RVDISIRPPKTRRPPGRPKKKVLRVENFKRPKRVVQCGRCHLLGHSQKKCTMP 593

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224146182|ref|XP_002325911.1| predicted protein [Populus trichocarpa] gi|222862786|gb|EEF00293.1| predicted protein [Populus trichocarpa]

 Score = 1009 bits (2608), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 498/594 (83%), Positives = 535/594 (90%), Gaps = 29/594 (4%)

Query: 1   MADHALTVPNDSLSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAK 60
           MAD ALTVP+  L+L+E  L+IGQEFP+VETCRRTLKDIAIALHFDLRIVKSDRSRFIAK
Sbjct: 1   MADLALTVPDAPLALSEHALAIGQEFPNVETCRRTLKDIAIALHFDLRIVKSDRSRFIAK 60

Query: 61  CSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNP 120
           CSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNP
Sbjct: 61  CSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNP 120

Query: 121 QYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGS 180
           +YKPKEIL+DIRDQHGVAVSYMQAWRGKERSMAALHGT+EEG+RLLPAYCEQIRKTNPGS
Sbjct: 121 RYKPKEILEDIRDQHGVAVSYMQAWRGKERSMAALHGTFEEGFRLLPAYCEQIRKTNPGS 180

Query: 181 IASVFATGQK-------IVSIGSLFLIVH---------------QYMGV-------DAED 211
           IASVFATGQ+       I    S++  V+               +Y+G        DA+D
Sbjct: 181 IASVFATGQENCFQRLFISYRASIYGFVNACRPLLELDRAHLKGKYLGTILCAAAVDADD 240

Query: 212 ALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSA 271
           ALFPLAIA VDVE+DENWMWFMSELRKLLGVNTDNMPRLTILSER +GIVEAVETHFPSA
Sbjct: 241 ALFPLAIATVDVETDENWMWFMSELRKLLGVNTDNMPRLTILSERHKGIVEAVETHFPSA 300

Query: 272 FHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQFP 331
           FH FCLRYVSENFRDTFKNTKLVNIFWNAVYALT VEFE+KI+EMV ISQDVIPWFQ F 
Sbjct: 301 FHGFCLRYVSENFRDTFKNTKLVNIFWNAVYALTAVEFESKITEMVGISQDVIPWFQHFS 360

Query: 332 PQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMGM 391
           PQLWA+AYFEG+RYGHF LGVTELLYNWALECHELP+VQMME+IRHQLTSWF++RR++GM
Sbjct: 361 PQLWAVAYFEGMRYGHFMLGVTELLYNWALECHELPIVQMMEHIRHQLTSWFSNRRDIGM 420

Query: 392 RWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLY 451
            WTSILVPS E++I+EAIADA CYQVLRANE+EFEIVSTERTNIVDIRSRVCSCRRWQLY
Sbjct: 421 SWTSILVPSAEKRILEAIADAHCYQVLRANEVEFEIVSTERTNIVDIRSRVCSCRRWQLY 480

Query: 452 GLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKEPGEGAEGGVA 511
           GLPCAHAAAAL+SCGQN HLFAEPCFTVASYRETYS+MIN IPDKS W+E GEG EGG A
Sbjct: 481 GLPCAHAAAALISCGQNAHLFAEPCFTVASYRETYSEMINPIPDKSLWRELGEGTEGGGA 540

Query: 512 KLDITIRPPKTRRPPGRPKKKVLRVENFKRPKRIVQCGRCHLLGHSQKKCTMPI 565
           K+DITIRPPKTRRPPGRPKKKVLRVENFKRPKR+VQCGRCHLLGHSQKKCT PI
Sbjct: 541 KVDITIRPPKTRRPPGRPKKKVLRVENFKRPKRVVQCGRCHLLGHSQKKCTKPI 594

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225431049|ref|XP_002274082.1| PREDICTED: uncharacterized protein LOC100261536 [Vitis vinifera]

 Score =  991 bits (2563), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 491/600 (81%), Positives = 529/600 (88%), Gaps = 37/600 (6%)

Query: 1   MADHALTVPNDSL--------SLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKS 52
           MADHAL V + SL        +  + +L IGQEFPDVETCRRTLKDIAIALHFDLRIVKS
Sbjct: 1   MADHALVVSDASLDHSLVVSDASVDHSLVIGQEFPDVETCRRTLKDIAIALHFDLRIVKS 60

Query: 53  DRSRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSV 112
           DRSRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHG HTCEGV+N HHQQAS+GWVARSV
Sbjct: 61  DRSRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGVHTCEGVRNCHHQQASIGWVARSV 120

Query: 113 EARIRDNPQYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQ 172
           E R+RDNPQYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGT+EEGYRLLP YCEQ
Sbjct: 121 EQRVRDNPQYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTFEEGYRLLPGYCEQ 180

Query: 173 IRKTNPGSIASVFATGQK-------IVSIGSLFLIVH---------------QYMGV--- 207
           IRKTNPGSIASVFATGQ+       I    S++  ++               +Y+G    
Sbjct: 181 IRKTNPGSIASVFATGQENCFQRLFISFRASIYGFINACRPLLELDKAHLKGKYLGTLLC 240

Query: 208 ----DAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEA 263
               DA+DALFPLAIAIVD ESDENWMWFMSELRKLLGVNTDNMPRLTILSERQ GIVEA
Sbjct: 241 AAAVDADDALFPLAIAIVDTESDENWMWFMSELRKLLGVNTDNMPRLTILSERQSGIVEA 300

Query: 264 VETHFPSAFHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDV 323
           VETHFPSA H FCLR++SENFRDTFKNTKLVNIFWNAVYALT VEFE+KI+EM+EISQDV
Sbjct: 301 VETHFPSASHGFCLRFISENFRDTFKNTKLVNIFWNAVYALTAVEFESKITEMIEISQDV 360

Query: 324 IPWFQQFPPQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWF 383
           IPWF+ FPPQLWA+AYF+GVRYGHF+LGVTELLY WALECHELP+VQMME+IR QLTSWF
Sbjct: 361 IPWFKGFPPQLWAVAYFDGVRYGHFSLGVTELLYKWALECHELPIVQMMEHIRLQLTSWF 420

Query: 384 NDRREMGMRWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVC 443
           ++RR MGMRWTSILVPS E++I+EAIADA CYQVLRANEIEFEIVSTERTNIVDIRSRVC
Sbjct: 421 DERRNMGMRWTSILVPSAEKRILEAIADAHCYQVLRANEIEFEIVSTERTNIVDIRSRVC 480

Query: 444 SCRRWQLYGLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKEPG 503
           SCRRWQLYGLPCAHAAAAL+SCGQN HLFAEPCFTVASYR+TYSQMIN +PDK  WKEPG
Sbjct: 481 SCRRWQLYGLPCAHAAAALISCGQNAHLFAEPCFTVASYRDTYSQMINPVPDKRHWKEPG 540

Query: 504 EGAEGGVAKLDITIRPPKTRRPPGRPKKKVLRVENFKRPKRIVQCGRCHLLGHSQKKCTM 563
           EGAEGG AK+DITIRPPKTRRPPGRPKKKVLRVENFKRPKR+VQCGRCH+LGHSQKKCTM
Sbjct: 541 EGAEGGGAKVDITIRPPKTRRPPGRPKKKVLRVENFKRPKRVVQCGRCHMLGHSQKKCTM 600

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356573177|ref|XP_003554740.1| PREDICTED: uncharacterized protein LOC100778655 [Glycine max]

 Score =  984 bits (2543), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 478/599 (79%), Positives = 525/599 (87%), Gaps = 34/599 (5%)

Query: 1   MADHALTVPNDS----LSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSR 56
           MA+H+L + N++    +++AE  L IGQEFPDVETCRRT+KDIAIA+HFDLRIVKSDRSR
Sbjct: 1   MANHSLVLDNNTSVSTVTVAEQPLVIGQEFPDVETCRRTMKDIAIAMHFDLRIVKSDRSR 60

Query: 57  FIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARI 116
           FIAKCSKEGCPWRVHVAKCPGVPTF++RTLHGEHTCEGVQNLHHQQASVGWVARSVEARI
Sbjct: 61  FIAKCSKEGCPWRVHVAKCPGVPTFTVRTLHGEHTCEGVQNLHHQQASVGWVARSVEARI 120

Query: 117 RDNPQYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKT 176
           RDNPQYKP+EILQDIRDQHG+AVSYMQAWRGKERSMAALHGT+EEGYRLLPAYCEQIRKT
Sbjct: 121 RDNPQYKPREILQDIRDQHGIAVSYMQAWRGKERSMAALHGTFEEGYRLLPAYCEQIRKT 180

Query: 177 NPGSIASVFATGQK-------IVSIGSLFLIVH---------------QYMGV------- 207
           NPGSIASV ATGQ+       I    S++  ++               +Y+G        
Sbjct: 181 NPGSIASVVATGQENYFQRLFISYRASIYGFINACRPLLELDRAHLKGKYLGTLLCAAAV 240

Query: 208 DAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETH 267
           DA+DALFPLAIA+VD ESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRG+VEAVETH
Sbjct: 241 DADDALFPLAIAVVDAESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGLVEAVETH 300

Query: 268 FPSAFHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWF 327
           FP+A H FCLRYVSENFRDTFKNTKLVNIFWNAVYALT  EFE+KI+EM+EISQDVI WF
Sbjct: 301 FPTASHGFCLRYVSENFRDTFKNTKLVNIFWNAVYALTAAEFESKITEMMEISQDVISWF 360

Query: 328 QQFPPQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRR 387
           QQFPP LWA+AYF+ VRYGHFTLGVTELLYNWALECHELPVVQMME+IR Q+ SWFNDR+
Sbjct: 361 QQFPPYLWAVAYFDSVRYGHFTLGVTELLYNWALECHELPVVQMMEHIRQQMVSWFNDRQ 420

Query: 388 EMGMRWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRR 447
           +MGM WTSILVPS E++IMEAIADA CYQVLRANE+EFEIVSTERTNIVDIRSR CSCRR
Sbjct: 421 DMGMTWTSILVPSAEKRIMEAIADAHCYQVLRANEVEFEIVSTERTNIVDIRSRECSCRR 480

Query: 448 WQLYGLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKEP-GEGA 506
           WQLYGLPCAHAAAAL+SCG N H+FAEPCFTV SYR TYSQMIN IPDKS+W++      
Sbjct: 481 WQLYGLPCAHAAAALISCGHNAHMFAEPCFTVQSYRMTYSQMINPIPDKSQWRDQGEGAE 540

Query: 507 EGGVAKLDITIRPPKTRRPPGRPKKKVLRVENFKRPKRIVQCGRCHLLGHSQKKCTMPI 565
            GG A++DI IRPPKTRRPPGRPKKKVLRVENFKRPKR+VQCGRCH+LGHSQKKCTMPI
Sbjct: 541 GGGGARVDIIIRPPKTRRPPGRPKKKVLRVENFKRPKRVVQCGRCHMLGHSQKKCTMPI 599

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147854673|emb|CAN80243.1| hypothetical protein VITISV_031021 [Vitis vinifera]

 Score =  981 bits (2536), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 482/574 (83%), Positives = 517/574 (90%), Gaps = 29/574 (5%)

Query: 19  TLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKCSKEGCPWRVHVAKCPGV 78
           +L IGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKCSKEGCPWRVHVAKCPGV
Sbjct: 12  SLVIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKCSKEGCPWRVHVAKCPGV 71

Query: 79  PTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNPQYKPKEILQDIRDQHGVA 138
           PTFSIRTLHG HTCEGV+N HHQQAS+GWVARSVE R+RDNPQYKPKEILQDIRDQHGVA
Sbjct: 72  PTFSIRTLHGVHTCEGVRNCHHQQASIGWVARSVEQRVRDNPQYKPKEILQDIRDQHGVA 131

Query: 139 VSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSIASVFATGQK-------I 191
           VSYMQAWRGKERSMAALHGT+EEGYRLLP YCEQIRKTNPGSIASVFATGQ+       I
Sbjct: 132 VSYMQAWRGKERSMAALHGTFEEGYRLLPGYCEQIRKTNPGSIASVFATGQENCFQRLFI 191

Query: 192 VSIGSLFLIVH---------------QYMGV-------DAEDALFPLAIAIVDVESDENW 229
               S++  ++               +Y+G        DA+DALFPLAIAIVD ESDENW
Sbjct: 192 SFRASIYGFINACRPLLELDKAHLKGKYLGTLLCAAAVDADDALFPLAIAIVDTESDENW 251

Query: 230 MWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHCFCLRYVSENFRDTFK 289
           MWFMSELRKLLGVNTDNMPRLTILSERQ GIVEAVETHFPSA H FCLR++SENFRDTFK
Sbjct: 252 MWFMSELRKLLGVNTDNMPRLTILSERQSGIVEAVETHFPSASHGFCLRFISENFRDTFK 311

Query: 290 NTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQFPPQLWAIAYFEGVRYGHFT 349
           NTKLVNIFWNAVYALT VEFE+KI+EM+EISQDVIPWF+ FPPQLWA+AYF+GVRYGHF+
Sbjct: 312 NTKLVNIFWNAVYALTAVEFESKITEMIEISQDVIPWFKGFPPQLWAVAYFDGVRYGHFS 371

Query: 350 LGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMGMRWTSILVPSTERQIMEAI 409
           LGVTELLY WALECHELP+VQMME+IR QLTSWF++RR MGMRWTSILVPS E++I+EAI
Sbjct: 372 LGVTELLYKWALECHELPIVQMMEHIRLQLTSWFDERRNMGMRWTSILVPSAEKRILEAI 431

Query: 410 ADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLYGLPCAHAAAALLSCGQNV 469
           ADA CYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLYGLPCAHAAAAL+SCGQN 
Sbjct: 432 ADAHCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLYGLPCAHAAAALISCGQNA 491

Query: 470 HLFAEPCFTVASYRETYSQMINAIPDKSRWKEPGEGAEGGVAKLDITIRPPKTRRPPGRP 529
           HLFAEPCFTVASYR+TYSQMIN +PDK  WKEPGEGAEGG AK+DITIRPPKTRRPPGRP
Sbjct: 492 HLFAEPCFTVASYRDTYSQMINPVPDKRHWKEPGEGAEGGGAKVDITIRPPKTRRPPGRP 551

Query: 530 KKKVLRVENFKRPKRIVQCGRCHLLGHSQKKCTM 563
           KKKVLRVENFKRPKR+VQCGRCH+LGHSQKKCTM
Sbjct: 552 KKKVLRVENFKRPKRVVQCGRCHMLGHSQKKCTM 585

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356504141|ref|XP_003520857.1| PREDICTED: uncharacterized protein LOC100808214 [Glycine max]

 Score =  975 bits (2521), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 477/599 (79%), Positives = 523/599 (87%), Gaps = 34/599 (5%)

Query: 1   MADHALTVPNDS----LSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSR 56
           MA+H+L + N++    +++AE  L IGQEF DVETCRRTLKDIAIA+HFDLRIVKSDRSR
Sbjct: 1   MANHSLVLDNNTSVSTVTVAEQPLVIGQEFADVETCRRTLKDIAIAMHFDLRIVKSDRSR 60

Query: 57  FIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARI 116
           FIAKCSKEGCPWRVHVAKCPGVPTF++RTLHGEHTCEGVQNLHHQQASVGWVARSVEARI
Sbjct: 61  FIAKCSKEGCPWRVHVAKCPGVPTFTVRTLHGEHTCEGVQNLHHQQASVGWVARSVEARI 120

Query: 117 RDNPQYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKT 176
           RDNPQYKP+EILQDIRDQHGVAVSYMQAWRGKERSMAALHGT+EEGYRLLPAYCEQIRKT
Sbjct: 121 RDNPQYKPREILQDIRDQHGVAVSYMQAWRGKERSMAALHGTFEEGYRLLPAYCEQIRKT 180

Query: 177 NPGSIASVFATGQK-------IVSIGSLFLIVH---------------QYMGV------- 207
           NPGSIASV ATGQ+       I    S++  ++               +Y+G        
Sbjct: 181 NPGSIASVVATGQENCFQRLFISYRASIYGFINACRPLLELDRAHLKGKYLGTLLCAAAV 240

Query: 208 DAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETH 267
           DA+DALFPLAIA+VD ESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRG+VEAVETH
Sbjct: 241 DADDALFPLAIAVVDSESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGLVEAVETH 300

Query: 268 FPSAFHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWF 327
           FP+A H FCLR VSENFRDTFKNTKLVNIFWNAVYALT  EFE+KI+EM+EISQDVI WF
Sbjct: 301 FPTASHGFCLRSVSENFRDTFKNTKLVNIFWNAVYALTAAEFESKITEMMEISQDVISWF 360

Query: 328 QQFPPQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRR 387
           QQFPP LWA+AYF+GVRYGHFTLGVTELLYNWALECHELPVVQMME+IR Q+ SWFNDR+
Sbjct: 361 QQFPPYLWAVAYFDGVRYGHFTLGVTELLYNWALECHELPVVQMMEHIRQQMVSWFNDRQ 420

Query: 388 EMGMRWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRR 447
           +MGMRWTSILVPS E++I+EAIADA CYQVLRANE+EFEIVSTERTNIVDIRSR CSCRR
Sbjct: 421 DMGMRWTSILVPSAEKRILEAIADAHCYQVLRANEVEFEIVSTERTNIVDIRSRECSCRR 480

Query: 448 WQLYGLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKE-PGEGA 506
           WQLYGLPCAHAAAAL+SCG N H+FAEPCFTV SYR TYSQMIN IPDKS+W++      
Sbjct: 481 WQLYGLPCAHAAAALISCGHNAHMFAEPCFTVQSYRMTYSQMINPIPDKSQWRDLGEGAE 540

Query: 507 EGGVAKLDITIRPPKTRRPPGRPKKKVLRVENFKRPKRIVQCGRCHLLGHSQKKCTMPI 565
            GG A+ DI I PPKTRRPPGRPKKKV+RVENFKRPKR+VQCGRCH+LGHSQKKCTMPI
Sbjct: 541 GGGGARFDIIICPPKTRRPPGRPKKKVIRVENFKRPKRVVQCGRCHMLGHSQKKCTMPI 599

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9759134|dbj|BAB09619.1| mutator-like transposase-like protein [Arabidopsis thaliana] gi|16648945|gb|AAL24324.1| mutator-like transposase-like protein [Arabidopsis thaliana] gi|20259876|gb|AAM13285.1| mutator-like transposase-like protein [Arabidopsis thaliana]

 Score =  922 bits (2382), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 448/595 (75%), Positives = 506/595 (85%), Gaps = 32/595 (5%)

Query: 1   MADHAL-TVPNDSLSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIA 59
           MAD AL T+ +D +   E  L++G+EFPDVETCRRTLKD+AIALHFDLRIVKSDRSRFIA
Sbjct: 5   MADGALITLDSDDILATEHVLAVGKEFPDVETCRRTLKDLAIALHFDLRIVKSDRSRFIA 64

Query: 60  KCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDN 119
           KCSKEGCPWR+H AKCPGV TF++RTL+ EHTCEGV++LHHQQASVGWVARSVEARIRDN
Sbjct: 65  KCSKEGCPWRIHAAKCPGVQTFTVRTLNSEHTCEGVRDLHHQQASVGWVARSVEARIRDN 124

Query: 120 PQYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPG 179
           PQYKPKEILQDIRD+HGVAVSYMQAWRGKERSMAALHGTYEEGYR LPAYCEQI+  NPG
Sbjct: 125 PQYKPKEILQDIRDEHGVAVSYMQAWRGKERSMAALHGTYEEGYRFLPAYCEQIKLVNPG 184

Query: 180 SIASVFATG-----QKI-----VSIGSLFL------------IVHQYMG-------VDAE 210
           S ASV A G     Q++       I   F             +  +Y+G       VDA+
Sbjct: 185 SFASVSALGPENCFQRLFIAYRACISGFFSSCRPLLELDRAHLKGKYLGAILCAAAVDAD 244

Query: 211 DALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPS 270
           D LFPLAIAIVD ESDENW WF+SELRKLLG+NTD+MP+LTILSERQ  +VEAVETHFP+
Sbjct: 245 DGLFPLAIAIVDNESDENWSWFLSELRKLLGMNTDSMPKLTILSERQSAVVEAVETHFPT 304

Query: 271 AFHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQF 330
           AFH FCLRYVSENFRDTFKNTKLVNIFW+AVYALT  EFE K +EM+EISQDV+ WF+ +
Sbjct: 305 AFHGFCLRYVSENFRDTFKNTKLVNIFWSAVYALTPAEFETKSNEMIEISQDVVQWFELY 364

Query: 331 PPQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMG 390
            P LWA+AYF+GVRYGHF LG+TE+LYNWALECHELP++QMME+IRHQ++SWF++RRE+ 
Sbjct: 365 LPHLWAVAYFQGVRYGHFGLGITEVLYNWALECHELPIIQMMEHIRHQISSWFDNRRELS 424

Query: 391 MRWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQL 450
           M W SILVPS ER+I EA+ADARCYQVLRANE+EFEIVSTERTNIVDIR+R CSCRRWQ+
Sbjct: 425 MGWNSILVPSAERRITEAVADARCYQVLRANEVEFEIVSTERTNIVDIRTRDCSCRRWQI 484

Query: 451 YGLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKEPGEGAEGGV 510
           YGLPCAHAAAAL+SCG+NVHLFAEPCFTV+SY++TYSQMI  IPD+S WK+ GE A GGV
Sbjct: 485 YGLPCAHAAAALISCGRNVHLFAEPCFTVSSYQQTYSQMIGEIPDRSLWKDEGEEAGGGV 544

Query: 511 AKLDITIRPPKTRRPPGRPKKKVLRVENFKRPKRIVQCGRCHLLGHSQKKCTMPI 565
             L   IRPPKTRRPPGRPKKKV+RVEN KRPKRIVQCGRCHLLGHSQKKCT PI
Sbjct: 545 ESL--RIRPPKTRRPPGRPKKKVVRVENLKRPKRIVQCGRCHLLGHSQKKCTQPI 597

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|262411008|gb|ACY66867.1| P10Sh148J07 [Saccharum hybrid cultivar R570]

 Score =  829 bits (2141), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 385/593 (64%), Positives = 475/593 (80%), Gaps = 30/593 (5%)

Query: 2   ADHALTVPNDSLSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKC 61
            D  L     +L     TL IGQEF DV+TCR+ +KD+AIALH++LR+VKSDRSRFIAKC
Sbjct: 3   GDQILVQSEQNLIPVAQTLVIGQEFADVDTCRKAIKDMAIALHYELRVVKSDRSRFIAKC 62

Query: 62  SKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNPQ 121
           SK+GCPWRVH+AKCPGVPTF++RTLHGEH CEGV NLHHQQA+VGWVARSVEAR+RDNPQ
Sbjct: 63  SKDGCPWRVHIAKCPGVPTFTVRTLHGEHKCEGVLNLHHQQATVGWVARSVEARLRDNPQ 122

Query: 122 YKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSI 181
            KPKEILQDIR+QHGVAVSYMQAWRGKERSMAA++GT E+GYRLLPAYCEQI KTNPGS+
Sbjct: 123 IKPKEILQDIREQHGVAVSYMQAWRGKERSMAAVNGTLEDGYRLLPAYCEQIVKTNPGSV 182

Query: 182 ASVFATG------QKIVSI-GSLFLIVH---------------QYMG-------VDAEDA 212
           A+    G      +  VS   S++  ++               +Y+G       +DA+  
Sbjct: 183 ATYRGIGPGNAFQRLFVSFRASIYGFLNGCRPLLEIDKADLKGKYLGTLLCASAIDADHM 242

Query: 213 LFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAF 272
           LFPLA  +VD ESD+NW WF+SELRK+LGVNTD MP LTILSER+R +VEAV ++FP+AF
Sbjct: 243 LFPLAFGVVDSESDDNWNWFISELRKMLGVNTDKMPVLTILSERKRQVVEAVGSNFPTAF 302

Query: 273 HCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQFPP 332
           H FCLRYVSENFRD FKNTKL+N+FW+AVYALT  EF+AK++EM+++ QDV+PW Q+FPP
Sbjct: 303 HGFCLRYVSENFRDEFKNTKLLNLFWSAVYALTASEFDAKVNEMMQV-QDVMPWLQRFPP 361

Query: 333 QLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMGMR 392
            LWA++YF+G+RYGHF+LG+TE+LYN +L+CHELP+VQ +E+IRHQLT WF +R+ +   
Sbjct: 362 NLWAVSYFQGIRYGHFSLGITEILYNLSLDCHELPIVQTIEHIRHQLTCWFAERQNLAQS 421

Query: 393 WTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLYG 452
           + S+LVPS E+ I EAI D++CYQVLRAN++EFEIVS ERTNIVD ++R CSCRRWQ+YG
Sbjct: 422 YNSVLVPSAEKLISEAIHDSQCYQVLRANKVEFEIVSLERTNIVDTQARSCSCRRWQIYG 481

Query: 453 LPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKEPGEGAEGGVAK 512
           +PCAHAAAALLSCG++  L+A  CF+V  YRETYSQ I  IPD+S W     G +G V+K
Sbjct: 482 IPCAHAAAALLSCGEDPRLYAHDCFSVMKYRETYSQPIYPIPDRSHWNNSSPGLQGVVSK 541

Query: 513 LDITIRPPKTRRPPGRPKKKVLRVENFKRPKRIVQCGRCHLLGHSQKKCTMPI 565
            D+ + PP  RRPPGRPK K+L++E+ KRPKRIVQCGRCHLLGHSQKKC++ I
Sbjct: 542 ADVILSPPNIRRPPGRPKMKILKIESMKRPKRIVQCGRCHLLGHSQKKCSLRI 594

Source: Saccharum hybrid cultivar R570

Species: Saccharum hybrid cultivar

Genus: Saccharum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|262411019|gb|ACY66875.1| P30Sh95F04 [Saccharum hybrid cultivar R570]

 Score =  829 bits (2141), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 384/593 (64%), Positives = 477/593 (80%), Gaps = 30/593 (5%)

Query: 2   ADHALTVPNDSLSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKC 61
            D  L     +L     TL IGQEF DV+TCRR +KD+AIALH++LR+VKSDRSRFIAKC
Sbjct: 3   GDQILVQSEQNLIPGVQTLVIGQEFADVDTCRRAIKDMAIALHYELRVVKSDRSRFIAKC 62

Query: 62  SKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNPQ 121
           SKEGCPWRVH+AKCPGVPTF++RTLHGEH CEGV NLHHQQA+VGWVARSVEAR+RDNPQ
Sbjct: 63  SKEGCPWRVHIAKCPGVPTFTVRTLHGEHKCEGVLNLHHQQATVGWVARSVEARLRDNPQ 122

Query: 122 YKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSI 181
            KPKEILQDIR+QHGVAVSYMQAWRGKERSMAA++GT E+GYRLLPAYCEQI KTNPGS+
Sbjct: 123 IKPKEILQDIREQHGVAVSYMQAWRGKERSMAAVNGTLEDGYRLLPAYCEQIVKTNPGSV 182

Query: 182 ASVFATG------QKIVSI-GSLFLIVH---------------QYMG-------VDAEDA 212
           A+    G      +  VS   S++  ++               +Y+G       +DA+  
Sbjct: 183 ATYRGIGPGNAFQRLFVSFRASIYGFLNGCRPLLEIDKADLKGKYLGTLLCASAIDADHM 242

Query: 213 LFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAF 272
           +FPLA  IVD ESD+NW WF+SELRK+LGVNTD MP LTILSER+R +VEAV ++FP+AF
Sbjct: 243 MFPLAFGIVDSESDDNWNWFISELRKMLGVNTDKMPVLTILSERKRQVVEAVGSNFPTAF 302

Query: 273 HCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEISQDVIPWFQQFPP 332
           H FCLRYVSENFRD FKNTKL+N+FW+AVY+LT  EF+A+++EM+++ QDV+PW Q+FPP
Sbjct: 303 HGFCLRYVSENFRDEFKNTKLLNLFWSAVYSLTASEFDARVNEMMQV-QDVMPWLQRFPP 361

Query: 333 QLWAIAYFEGVRYGHFTLGVTELLYNWALECHELPVVQMMEYIRHQLTSWFNDRREMGMR 392
            LWA++YF+G+RYGHF+LG+TE+LYN +L+CHELP+VQ +E+IRHQLT WF +R+ +   
Sbjct: 362 NLWAVSYFQGIRYGHFSLGITEILYNLSLDCHELPIVQTIEHIRHQLTCWFAERQNLAQS 421

Query: 393 WTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTERTNIVDIRSRVCSCRRWQLYG 452
           + S+LVPS E+ I+EAI D++CYQVLRAN++EFEIVS+ERTNIVD ++R CSCRRWQ+YG
Sbjct: 422 YNSVLVPSAEKLILEAIHDSQCYQVLRANKVEFEIVSSERTNIVDTQARSCSCRRWQIYG 481

Query: 453 LPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMINAIPDKSRWKEPGEGAEGGVAK 512
           +PCAHAAAALLSCG++  L+A  CF+V  YRETYSQ I  IPD++ W     G +G V+K
Sbjct: 482 IPCAHAAAALLSCGEDPRLYAHDCFSVMKYRETYSQPIYPIPDRTHWNNSSPGLQGVVSK 541

Query: 513 LDITIRPPKTRRPPGRPKKKVLRVENFKRPKRIVQCGRCHLLGHSQKKCTMPI 565
            D+ + PP  RRPPGRPK K+L++E+ KRPKRIVQCGRCHLLGHSQKKC++ I
Sbjct: 542 ADVILSPPNIRRPPGRPKMKILKIESMKRPKRIVQCGRCHLLGHSQKKCSLRI 594

Source: Saccharum hybrid cultivar R570

Species: Saccharum hybrid cultivar

Genus: Saccharum

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	565
TAIR|locus:2014230	719	AT1G64260 "AT1G64260" [Arabido	0.506	0.397	0.277	1.7e-26
TAIR|locus:2197122	785	AT1G49920 "AT1G49920" [Arabido	0.258	0.185	0.282	3.6e-18
TAIR|locus:1006230722	750	AT1G64255 [Arabidopsis thalian	0.515	0.388	0.241	1.3e-17

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

 Score = 296 (109.3 bits), Expect = 1.7e-26, Sum P(2) = 1.7e-26
 Identities = 87/313 (27%), Positives = 148/313 (47%)

Query:   206 GVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVE 265
             GVDA +  FPLA A+    S ++W WF +++R+ +    D    L ++S   R IV  V 
Sbjct:   399 GVDAANKFFPLAFAVTKEVSTDSWRWFFTKIREKVTQRKD----LCLISSPLRDIVAVVN 454

Query:   266 T-----HFPSAFHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEIS 320
                     P A H FCL ++   F   F++  L ++   A       EF++ ++++ E +
Sbjct:   455 EPGSLWQEPWAHHKFCLNHLRSQFLGVFRDYNLESLVEQAGSTNQKEEFDSYMNDIKEKN 514

Query:   321 QDVIPWFQQFPPQLWAIAYFEGVRYGHFTLGVTELLYNWALECHELP--VVQMMEYIR-- 376
              +   W  Q P   WA+A+  G+RYG   +   E L+  A+ C   P   V M   +   
Sbjct:   515 PEAWKWLDQIPRHKWALAHDSGLRYGIIEID-REALF--AV-CRGFPYCTVAMTGGVMLM 570

Query:   377 -HQLTSWFNDRREMGMRWTSIL--VPSTER---QIMEAIADARCYQVLRANEIEFEIV-S 429
               +L S F+  + +   ++S+   V  TE    ++ E + D+  Y + +     F++  S
Sbjct:   571 FDELRSSFD--KSLSSIYSSLNRGVVYTEPFMDKLEEFMTDSIPYVITQLERDSFKVSES 628

Query:   430 TERTN-IVDIRSRVCSCRRWQLYGLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQ 488
             +E+   IV +    C+CR++Q Y  PC HA A       N   + + C+TV  Y +TY+ 
Sbjct:   629 SEKEEWIVQLNVSTCTCRKFQSYKFPCLHALAVFEKLKINPLQYVDECYTVEQYCKTYAA 688

Query:   489 MINAIPDKSRWKE 501
               + +PD + W E
Sbjct:   689 TFSPVPDVAAWPE 701

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 = 147 (56.8 bits), Expect = 3.6e-18, Sum P(3) = 3.6e-18
 Identities = 44/156 (28%), Positives = 72/156 (46%)

Query:   208 DAEDALFPLAIAIVDVESDENWMWFMSELRKLL----GVNTDNMPRLTILSERQRGIVEA 263
             DA +  FPLA A+    S ++W WF++ +R+ +    G+   + P   IL+       + 
Sbjct:   404 DATNQYFPLAFAVTKEVSVDSWRWFLTRIREKVTQRQGICLISSPDPDILAVINEPGSQW 463

Query:   264 VETHFPSAFHCFCLRYVSENFRDTFKNTKLVNIFW--NAVYALTTVEFEAKISEMVEISQ 321
              E   P A+H FCL ++                F    A  +    EF++ + E+ E + 
Sbjct:   464 KE---PWAYHRFCLYHLCSKLCSVSPGFDYNMHFLVDEAGSSSQKEEFDSYMKEIKERNP 520

Query:   322 DVIPWFQQFPPQLWAIAYFEGVRYGHFTLGVTELLY 357
             +   W  QFPP  WA+A+ +G RYG   +  TE L+
Sbjct:   521 EAWKWLDQFPPHQWALAHDDGRRYGIMRID-TEALF 555

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 = 222 (83.2 bits), Expect = 1.3e-17, Sum P(2) = 1.3e-17
 Identities = 75/310 (24%), Positives = 127/310 (40%)

Query:   206 GVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAV- 264
             GVDA +  FPLA A+    S + W WF++ +R+           L ++S     I+  V 
Sbjct:   406 GVDAANKYFPLAFAVTKEVSTDIWRWFLTGIRE----KVTQRKGLCLISSPHPDIIAVVN 461

Query:   265 ----ETHFPSAFHCFCLRYVSENFRDTFKNTKLVNIFWNAVYALTTVEFEAKISEMVEIS 320
                 +   P A+H F L +    F   F +  L      A       EF + ++++ E +
Sbjct:   462 ESGSQWQEPWAYHRFSLNHFYSQFSRVFPSFCLGARIRRAGSTSQKDEFVSYMNDIKEKN 521

Query:   321 QDVIPWFQQFPPQLWAIAYFEGVRYGHFTLGVTEL--LYNWALEC--HELP--VVQMMEY 374
              +   W  QFP   WA+A+  G RYG   +    L  + N A E   H +   V+ + + 
Sbjct:   522 PEARKWLDQFPQNRWALAHDNGRRYGIMEINTKALFAVCN-AFEQAGHVVTGSVLLLFDE 580

Query:   375 IRHQLTSWFNDRREM---GMRWTSILVPSTERQIMEAIADARCYQVLRANEIEFEIVSTE 431
             +R +    F+  R     G  +T  ++   E      +  +     L  N  +      +
Sbjct:   581 LRSKFDKSFSCSRSSLNCGDVYTEPVMDKLEEFRTTFVTYSYIVTPLDNNAFQVATALDK 640

Query:   432 RTNIVDIRSRVCSCRRWQLYGLPCAHAAAALLSCGQNVHLFAEPCFTVASYRETYSQMIN 491
                IV +    C+C  +Q Y  PC HA A       N   + + C+T+   + TY+ + +
Sbjct:   641 GECIVQLSDCSCTCGDFQRYKFPCLHALAVCKKLKFNPLQYVDDCYTLERLKRTYATIFS 700

Query:   492 AIPDKSRWKE 501
              +P+ S W E
Sbjct:   701 HVPEMSAWPE 710

GO:0005634 "nucleus" evidence=ISM

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

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	565
pfam03108	67	pfam03108, DBD_Tnp_Mut, MuDR family transposase	5e-20
pfam10551	88	pfam10551, MULE, MULE transposase domain	1e-18
smart00575	28	smart00575, ZnF_PMZ, plant mutator transposase zin	9e-08
pfam04434	38	pfam04434, SWIM, SWIM zinc finger	1e-06
PLN03097	846	PLN03097, FHY3, Protein FAR-RED ELONGATED HYPOCOTY	5e-04

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

 Score = 83.8 bits (208), Expect = 5e-20
 Identities = 27/67 (40%), Positives = 39/67 (58%)

Query: 17 EPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKCSKEGCPWRVHVAKCP 76
           P L +GQ F   E  ++ ++  AI   F+ ++ KSD++R+ AKC  EGCPWRV  +K  
Sbjct: 1  GPELEVGQVFKSKEEFKKAVRKYAIKNRFEFKVKKSDKTRYRAKCKDEGCPWRVRASKLK 60

Query: 77 GVPTFSI 83
             TF I
Sbjct: 61 DSDTFQI 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|220806 pfam10551, MULE, MULE transposase domain

 Score = 80.5 bits (199), Expect = 1e-18
 Identities = 33/81 (40%), Positives = 50/81 (61%), Gaps = 4/81 (4%)

Query: 205 MGVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAV 264
           +GVD     FPLA A+V  ES+E+W WF+  L+K LG      P LTI+S+  +G+ +A+
Sbjct: 12  VGVDHHGQGFPLAFALVSDESEESWTWFLEGLKKALG----GRPPLTIISDGDKGLKKAI 67

Query: 265 ETHFPSAFHCFCLRYVSENFR 285
           +  FP+A H  CL ++  N +
Sbjct: 68  KEVFPNARHRLCLWHILRNLK 88

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

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

 Score = 47.9 bits (115), Expect = 9e-08
 Identities = 14/26 (53%), Positives = 19/26 (73%)

Query: 443 CSCRRWQLYGLPCAHAAAALLSCGQN 468
           CSCR++QL G+PC HA AA +  G +
Sbjct: 3   CSCRKFQLSGIPCRHALAAAIHIGLS 28

Length = 28

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

 Score = 44.8 bits (106), Expect = 1e-06
 Identities = 15/24 (62%), Positives = 18/24 (75%)

Query: 443 CSCRRWQLYGLPCAHAAAALLSCG 466
           CSC  +QLYG+PC HA A LL+ G
Sbjct: 15  CSCPAFQLYGIPCKHALAVLLALG 38

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

 Score = 42.7 bits (100), Expect = 5e-04
 Identities = 67/313 (21%), Positives = 116/313 (37%), Gaps = 61/313 (19%)

Query: 204 YMGVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEA 263
           ++GV+       L  A++  ES   + W M    + +G      P++ I++++ + +   
Sbjct: 307 FVGVNQHYQFMLLGCALISDESAATYSWLMQTWLRAMGGQA---PKV-IITDQDKAMKSV 362

Query: 264 VETHFPSAFHCFCLRY----VSENFRDTFK-NTKLVNIFWNAVY-ALTTVEFEA---KIS 314
           +   FP+A HCF L +    VSEN     K +   +  F   +Y + T  EF     KI 
Sbjct: 363 ISEVFPNAHHCFFLWHILGKVSENLGQVIKQHENFMAKFEKCIYRSWTEEEFGKRWWKIL 422

Query: 315 EMVEISQDVIPWFQQF--PPQLWAIAYFEGVRYGHFTLGVTELLYNWALEC------HEL 366
           +  E+ +D   W Q      + W   Y        F  G++ +  + ++        H+ 
Sbjct: 423 DRFELKED--EWMQSLYEDRKQWVPTYMRDA----FLAGMSTVQRSESINAFFDKYVHKK 476

Query: 367 PVVQMMEYIRHQLTSWFNDR-------------REMGMRWTSILVPSTERQIMEAIADAR 413
             VQ  E+++ Q  +   DR             ++  ++  S L  S       A+    
Sbjct: 477 TTVQ--EFVK-QYETILQDRYEEEAKADSDTWNKQPALKSPSPLEKSVSGVYTHAVFKKF 533

Query: 414 CYQVLRA------NEIEFEIVSTERTN--------IV---DIRSRV-CSCRRWQLYGLPC 455
             +VL A       E + E   T R           V     +  V C CR ++  G  C
Sbjct: 534 QVEVLGAVACHPKMESQDETSITFRVQDFEKNQDFTVTWNQTKLEVSCICRLFEYKGYLC 593

Query: 456 AHAAAALLSCGQN 468
            HA   L  C  +
Sbjct: 594 RHALVVLQMCQLS 606

Length = 846

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	565
PLN03097	846	FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provis	100.0
PF10551	93	MULE: MULE transposase domain; InterPro: IPR018289	99.76
PF00872	381	Transposase_mut: Transposase, Mutator family; Inte	99.72
PF03108	67	DBD_Tnp_Mut: MuDR family transposase; InterPro: IP	99.7
COG3328	379	Transposase and inactivated derivatives [DNA repli	99.25
smart00575	28	ZnF_PMZ plant mutator transposase zinc finger.	98.99
PF08731	111	AFT: Transcription factor AFT; InterPro: IPR014842	98.89
PF03101	91	FAR1: FAR1 DNA-binding domain; InterPro: IPR004330	98.73
PF04434	40	SWIM: SWIM zinc finger; InterPro: IPR007527 Zinc f	98.32
PF00098	18	zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi	96.41
PF15288	40	zf-CCHC_6: Zinc knuckle	96.2
PF13696	32	zf-CCHC_2: Zinc knuckle	94.53
PF03106	60	WRKY: WRKY DNA -binding domain; InterPro: IPR00365	94.14
PF06782	470	UPF0236: Uncharacterised protein family (UPF0236);	94.05
PF04684	496	BAF1_ABF1: BAF1 / ABF1 chromatin reorganising fact	93.25
COG3316	215	Transposase and inactivated derivatives [DNA repli	92.89
PF01610	249	DDE_Tnp_ISL3: Transposase; InterPro: IPR002560 Aut	91.31
PF13610	140	DDE_Tnp_IS240: DDE domain	90.87
smart00774	59	WRKY DNA binding domain. The WRKY domain is a DNA	90.71
PF04500	62	FLYWCH: FLYWCH zinc finger domain; InterPro: IPR00	90.5
smart00343	26	ZnF_C2HC zinc finger.	87.08
PF14392	49	zf-CCHC_4: Zinc knuckle	86.99
PF13565	77	HTH_32: Homeodomain-like domain	86.49
PF03050	271	DDE_Tnp_IS66: Transposase IS66 family ; InterPro:	83.13
COG5179	968	TAF1 Transcription initiation factor TFIID, subuni	81.98

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

Probab=100.00  E-value=8.7e-69  Score=580.40  Aligned_cols=444  Identities=16%  Similarity=0.260  Sum_probs=344.0

Q ss_pred             CCCCccccCeeCCHHHHHHHHHHHHHhccceEEEEeecCe-------EEEEEeec-------------------------
Q 042031           16 AEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRS-------RFIAKCSK-------------------------   63 (565)
Q Consensus        16 ~~~~l~~G~~F~s~~e~~~a~~~ya~~~gf~~~~~kS~~~-------r~~~~C~~-------------------------   63 (565)
                      ....|.+||+|+|.|||++||+.||.+.||++|+.+|.++       ..+++|++                         
T Consensus        70 ~~~~P~vGMeF~S~eeA~~FYn~YA~~~GFsVRi~~srrsk~~~~ii~r~fvCsreG~~~~~~~~~~~~~~~~~k~~~~~  149 (846)
T PLN03097         70 TNLEPLSGMEFESHGEAYSFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSFNRPRARQTKQDPEN  149 (846)
T ss_pred             CCccCcCCCeECCHHHHHHHHHHHHhhcCceEEeeceeccCCCCcEEEEEEEEcCCCCCcccccccccccccccccCccc
Confidence            4456899999999999999999999999999998755432       23567764                         


Q ss_pred             ---------CCCccEEEEEEcCCCCceEEeeeccceeeeCcccccccccchhhHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 042031           64 ---------EGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGVQNLHHQQASVGWVARSVEARIRDNPQYKPKEILQDIRDQ  134 (565)
Q Consensus        64 ---------~~C~~~v~~~~~~~~~~~~V~~~~~~H~c~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~i~~~~~~~  134 (565)
                               +||+++|.+.+ ..+|.|+|+.+..+|||+..+.......+...+. .+...+....++.           
T Consensus       150 ~~~rR~~tRtGC~A~m~Vk~-~~~gkW~V~~fv~eHNH~L~p~~~~~~~~r~~~~-~~~~~~~~~~~v~-----------  216 (846)
T PLN03097        150 GTGRRSCAKTDCKASMHVKR-RPDGKWVIHSFVKEHNHELLPAQAVSEQTRKMYA-AMARQFAEYKNVV-----------  216 (846)
T ss_pred             ccccccccCCCCceEEEEEE-cCCCeEEEEEEecCCCCCCCCccccchhhhhhHH-HHHhhhhcccccc-----------
Confidence                     37999999987 4568999999999999976543221110111111 0100010000000           


Q ss_pred             cCccc-CHHHHHHHHHHHHHHhhCChHHhhccHHHHHHHHhhcCCCcEEEEEEcCCcc---------cchhhhhc-----
Q 042031          135 HGVAV-SYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSIASVFATGQKI---------VSIGSLFL-----  199 (565)
Q Consensus       135 ~g~~~-s~~~~~r~~~~~~~~~~g~~~~~~~~l~~~~~~l~~~np~~~~~v~~~~~~~---------~~i~~f~~-----  199 (565)
                       +... .....-+.|++  +...    .+.+.|++||++++.+||+|+|+|++|++++         .|+..|.+     
T Consensus       217 -~~~~d~~~~~~~~r~~--~~~~----gD~~~ll~yf~~~q~~nP~Ffy~~qlDe~~~l~niFWaD~~sr~~Y~~FGDvV  289 (846)
T PLN03097        217 -GLKNDSKSSFDKGRNL--GLEA----GDTKILLDFFTQMQNMNSNFFYAVDLGEDQRLKNLFWVDAKSRHDYGNFSDVV  289 (846)
T ss_pred             -ccchhhcchhhHHHhh--hccc----chHHHHHHHHHHHHhhCCCceEEEEEccCCCeeeEEeccHHHHHHHHhcCCEE
Confidence             0000 00011111221  1112    3457899999999999999999999999886         44444432     


Q ss_pred             -ccccc------------cccCCCCceeEeEEEEeeccccchHHHHHHHHHHHhCCCCCCCCcEEEEeCCcccHHHHHhh
Q 042031          200 -IVHQY------------MGVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVET  266 (565)
Q Consensus       200 -l~~~y------------~g~d~~~~~~~la~a~~~~E~~e~~~w~l~~l~~~~~~~~~~~~~~~iitD~~~~l~~Ai~~  266 (565)
                       +|++|            +|+|+|+|+++|||||+.+|+.|+|.|||++|+++|+    +.+|.+||||++.+|.+||++
T Consensus       290 ~fDTTY~tN~y~~Pfa~FvGvNhH~qtvlfGcaLl~dEt~eSf~WLf~tfl~aM~----gk~P~tIiTDqd~am~~AI~~  365 (846)
T PLN03097        290 SFDTTYVRNKYKMPLALFVGVNQHYQFMLLGCALISDESAATYSWLMQTWLRAMG----GQAPKVIITDQDKAMKSVISE  365 (846)
T ss_pred             EEeceeeccccCcEEEEEEEecCCCCeEEEEEEEcccCchhhHHHHHHHHHHHhC----CCCCceEEecCCHHHHHHHHH
Confidence             55555            9999999999999999999999999999999999999    899999999999999999999


Q ss_pred             hCCCCcchhhHHHHHHHHHhhcCc-----hhhHHHHHHHHH-hhcHHHHHHHHHHHHhc-ccchhhHhhhC--CCCCccc
Q 042031          267 HFPSAFHCFCLRYVSENFRDTFKN-----TKLVNIFWNAVY-ALTTVEFEAKISEMVEI-SQDVIPWFQQF--PPQLWAI  337 (565)
Q Consensus       267 vfP~~~h~~C~~Hi~~n~~~~~~~-----~~~~~~~~~~~~-~~t~~eF~~~~~~l~~~-~~~~~~~l~~~--~~~~W~~  337 (565)
                      |||++.|++|.|||++|+.++++.     +.|...|..|++ +.+++||+..|.+|... +++.++||+.+  .|++|++
T Consensus       366 VfP~t~Hr~C~wHI~~~~~e~L~~~~~~~~~f~~~f~~cv~~s~t~eEFE~~W~~mi~ky~L~~n~WL~~LY~~RekWap  445 (846)
T PLN03097        366 VFPNAHHCFFLWHILGKVSENLGQVIKQHENFMAKFEKCIYRSWTEEEFGKRWWKILDRFELKEDEWMQSLYEDRKQWVP  445 (846)
T ss_pred             HCCCceehhhHHHHHHHHHHHhhHHhhhhhHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhcccccHHHHHHHHhHhhhhH
Confidence            999999999999999999999853     589999999998 89999999999999876 89999999999  8999999


Q ss_pred             cccCCccc-cccccchhHHHHHHhhhC--CCCCHHHHHHHHHHHHHHHHHHHHHh-----------------hhhccCCC
Q 042031          338 AYFEGVRY-GHFTLGVTELLYNWALEC--HELPVVQMMEYIRHQLTSWFNDRREM-----------------GMRWTSIL  397 (565)
Q Consensus       338 a~~~~~~~-~~~ttn~~Es~n~~lk~~--~~~pi~~~~e~i~~~~~~~~~~r~~~-----------------~~~~~~~~  397 (565)
                      +|+++.++ |+.||+++||+|+.|++.  ...+|..|++.+...+..+..+..+.                 ..+....+
T Consensus       446 aY~k~~F~agm~sTqRSES~Ns~fk~yv~~~tsL~~Fv~qye~~l~~~~ekE~~aD~~s~~~~P~l~t~~piEkQAs~iY  525 (846)
T PLN03097        446 TYMRDAFLAGMSTVQRSESINAFFDKYVHKKTTVQEFVKQYETILQDRYEEEAKADSDTWNKQPALKSPSPLEKSVSGVY  525 (846)
T ss_pred             HHhcccccCCcccccccccHHHHHHHHhCcCCCHHHHHHHHHHHHHHHHHHHHHhhhhcccCCcccccccHHHHHHHHHh
Confidence            99966666 667999999999999974  55889999988877665544332211                 11235689


Q ss_pred             CchHHHHHHHHHHhccceEEEeeC----CeeEEEEe--cCceEEEEc----cCceeccCccccCCCCchhHHHHHHhcCC
Q 042031          398 VPSTERQIMEAIADARCYQVLRAN----EIEFEIVS--TERTNIVDI----RSRVCSCRRWQLYGLPCAHAAAALLSCGQ  467 (565)
Q Consensus       398 tp~~~~~~~~~~~~~~~~~v~~~~----~~~~~V~~--~~~~~~V~l----~~~~CsC~~~~~~GiPC~H~lav~~~~~~  467 (565)
                      ||.+|++||+++..+..|.+...+    ..+|.|..  ....|.|..    .+.+|+|++|+..||||+|||+||.+.++
T Consensus       526 T~~iF~kFQ~El~~~~~~~~~~~~~dg~~~~y~V~~~~~~~~~~V~~d~~~~~v~CsC~kFE~~GILCrHaLkVL~~~~v  605 (846)
T PLN03097        526 THAVFKKFQVEVLGAVACHPKMESQDETSITFRVQDFEKNQDFTVTWNQTKLEVSCICRLFEYKGYLCRHALVVLQMCQL  605 (846)
T ss_pred             HHHHHHHHHHHHHHhhheEEeeeccCCceEEEEEEEecCCCcEEEEEecCCCeEEeeccCeecCccchhhHHHHHhhcCc
Confidence            999999999999998888776542    24688876  345677743    36799999999999999999999999998


Q ss_pred             --CcccccccchhHHHHH
Q 042031          468 --NVHLFAEPCFTVASYR  483 (565)
Q Consensus       468 --~~~~~v~~~y~~~~~~  483 (565)
                        .|+.||.+|||+++-.
T Consensus       606 ~~IP~~YILkRWTKdAK~  623 (846)
T PLN03097        606 SAIPSQYILKRWTKDAKS  623 (846)
T ss_pred             ccCchhhhhhhchhhhhh
Confidence              4999999999988743

>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=99.76  E-value=8.7e-19  Score=143.39  Aligned_cols=76  Identities=30%  Similarity=0.649  Sum_probs=73.2

Q ss_pred             cccCCCCceeEeEEEEeeccccchHHHHHHHHHHHhCCCCCCCCcEEEEeCCcccHHHHHhhhCCCCcchhhHHHHHHHH
Q 042031          205 MGVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHCFCLRYVSENF  284 (565)
Q Consensus       205 ~g~d~~~~~~~la~a~~~~E~~e~~~w~l~~l~~~~~~~~~~~~~~~iitD~~~~l~~Ai~~vfP~~~h~~C~~Hi~~n~  284 (565)
                      +|+|++++.+|+||+++++|+.++|.|||+.+++.++    .. |.+||||++.|+.+||+++||++.|++|.||+.+|+
T Consensus        18 ~~~d~~~~~~~v~~~l~~~e~~~~~~~~l~~~~~~~~----~~-p~~ii~D~~~~~~~Ai~~vfP~~~~~~C~~H~~~n~   92 (93)
T PF10551_consen   18 VGIDGNGRGFPVAFALVSSESEESYEWFLEKLKEAMP----QK-PKVIISDFDKALINAIKEVFPDARHQLCLFHILRNI   92 (93)
T ss_pred             EEEcCCCCEEEEEEEEEcCCChhhhHHHHHHhhhccc----cC-ceeeeccccHHHHHHHHHHCCCceEehhHHHHHHhh
Confidence            7999999999999999999999999999999999998    45 999999999999999999999999999999999997


Q ss_pred             H
Q 042031          285 R  285 (565)
Q Consensus       285 ~  285 (565)
                      +
T Consensus        93 k   93 (93)
T PF10551_consen   93 K   93 (93)
T ss_pred             C
Confidence            4

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=99.72  E-value=3.2e-18  Score=175.69  Aligned_cols=224  Identities=18%  Similarity=0.187  Sum_probs=167.4

Q ss_pred             CCCCHHHHHHHHHHHcC-cccCHHHHHHHHHHHHHHhhCChHHhhccHHHHHHHHhhcCCCcEEEEEEcCCcc-cchhhh
Q 042031          120 PQYKPKEILQDIRDQHG-VAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSIASVFATGQKI-VSIGSL  197 (565)
Q Consensus       120 ~~~~~~~i~~~~~~~~g-~~~s~~~~~r~~~~~~~~~~g~~~~~~~~l~~~~~~l~~~np~~~~~v~~~~~~~-~~i~~f  197 (565)
                      .+++..+|.+.++..+| ..+|.+++.|..+...+.+           ..|..+-....|-.++  .+|+-.. .-.+|-
T Consensus       113 ~G~Str~i~~~l~~l~g~~~~S~s~vSri~~~~~~~~-----------~~w~~R~L~~~~y~~l--~iD~~~~kvr~~~~  179 (381)
T PF00872_consen  113 KGVSTRDIEEALEELYGEVAVSKSTVSRITKQLDEEV-----------EAWRNRPLESEPYPYL--WIDGTYFKVREDGR  179 (381)
T ss_pred             cccccccccchhhhhhcccccCchhhhhhhhhhhhhH-----------HHHhhhccccccccce--eeeeeecccccccc
Confidence            67889999999999999 7899999988776654432           2333333333322222  2221100 000000


Q ss_pred             hcccccc--cccCCCCceeEeEEEEeeccccchHHHHHHHHH-HHhCCCCCCCCcEEEEeCCcccHHHHHhhhCCCCcch
Q 042031          198 FLIVHQY--MGVDAEDALFPLAIAIVDVESDENWMWFMSELR-KLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHC  274 (565)
Q Consensus       198 ~~l~~~y--~g~d~~~~~~~la~a~~~~E~~e~~~w~l~~l~-~~~~~~~~~~~~~~iitD~~~~l~~Ai~~vfP~~~h~  274 (565)
                      ..-...|  +|+|.+|+..+||+.+.+.|+.++|.-||+.|+ +.+.      .|..|++|.++||.+||+++||++.++
T Consensus       180 ~~~~~~~v~iGi~~dG~r~vLg~~~~~~Es~~~W~~~l~~L~~RGl~------~~~lvv~Dg~~gl~~ai~~~fp~a~~Q  253 (381)
T PF00872_consen  180 VVKKAVYVAIGIDEDGRREVLGFWVGDRESAASWREFLQDLKERGLK------DILLVVSDGHKGLKEAIREVFPGAKWQ  253 (381)
T ss_pred             cccchhhhhhhhhcccccceeeeecccCCccCEeeecchhhhhcccc------ccceeeccccccccccccccccchhhh
Confidence            0001123  999999999999999999999999999999997 4544      588999999999999999999999999


Q ss_pred             hhHHHHHHHHHhhcCch---hhHHHHHHHHHhhcHHHHHHHHHHHHh----cccchhhHhhhCCCCCccccccCCccc-c
Q 042031          275 FCLRYVSENFRDTFKNT---KLVNIFWNAVYALTTVEFEAKISEMVE----ISQDVIPWFQQFPPQLWAIAYFEGVRY-G  346 (565)
Q Consensus       275 ~C~~Hi~~n~~~~~~~~---~~~~~~~~~~~~~t~~eF~~~~~~l~~----~~~~~~~~l~~~~~~~W~~a~~~~~~~-~  346 (565)
                      .|.+|+++|+.++++.+   .+...+..+..+.+.++....++++.+    .+|.+.++|++...+.|+..-++...+ -
T Consensus       254 rC~vH~~RNv~~~v~~k~~~~v~~~Lk~I~~a~~~e~a~~~l~~f~~~~~~kyp~~~~~l~~~~~~~~tf~~fP~~~~~~  333 (381)
T PF00872_consen  254 RCVVHLMRNVLRKVPKKDRKEVKADLKAIYQAPDKEEAREALEEFAEKWEKKYPKAAKSLEENWDELLTFLDFPPEHRRS  333 (381)
T ss_pred             hheechhhhhccccccccchhhhhhccccccccccchhhhhhhhcccccccccchhhhhhhhccccccceeeecchhccc
Confidence            99999999999998653   777788888778888888888888765    388899999887667676544444444 5


Q ss_pred             ccccchhHHHHHHhhh
Q 042031          347 HFTLGVTELLYNWALE  362 (565)
Q Consensus       347 ~~ttn~~Es~n~~lk~  362 (565)
                      +.|||..||+|+.|+.
T Consensus       334 i~TTN~iEsln~~irr  349 (381)
T PF00872_consen  334 IRTTNAIESLNKEIRR  349 (381)
T ss_pred             cchhhhccccccchhh
Confidence            5699999999999986

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=99.70  E-value=7.5e-17  Score=122.44  Aligned_cols=67  Identities=40%  Similarity=0.840  Sum_probs=65.1

Q ss_pred             CCCccccCeeCCHHHHHHHHHHHHHhccceEEEEeecCeEEEEEeecCCCccEEEEEEcCCCCceEE
Q 042031           17 EPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKCSKEGCPWRVHVAKCPGVPTFSI   83 (565)
Q Consensus        17 ~~~l~~G~~F~s~~e~~~a~~~ya~~~gf~~~~~kS~~~r~~~~C~~~~C~~~v~~~~~~~~~~~~V   83 (565)
                      ++.|.+||+|+|++|++.||..||++.+|++++.+|++.+++++|...+|||+|++++.++++.|+|
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            5789999999999999999999999999999999999999999999999999999999999999986

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=99.25  E-value=8.5e-11  Score=118.39  Aligned_cols=219  Identities=19%  Similarity=0.186  Sum_probs=152.2

Q ss_pred             CCCCCHHHHHHHHHHHcCcccCHHHHHHHHHHHHHHhhCChHHhhccHHHHHHHHhhcCCCcEEEEEEcCCcc-cchhhh
Q 042031          119 NPQYKPKEILQDIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSIASVFATGQKI-VSIGSL  197 (565)
Q Consensus       119 ~~~~~~~~i~~~~~~~~g~~~s~~~~~r~~~~~~~~~~g~~~~~~~~l~~~~~~l~~~np~~~~~v~~~~~~~-~~i~~f  197 (565)
                      ..++++.++...++..++..+|...+.+.....++               .+.+++..-++-+-.+.+|.... ..  ++
T Consensus        98 ~~gv~Tr~i~~~~~~~~~~~~s~~~iS~~~~~~~e---------------~v~~~~~r~l~~~~~v~~D~~~~k~r--~v  160 (379)
T COG3328          98 AKGVTTREIEALLEELYGHKVSPSVISVVTDRLDE---------------KVKAWQNRPLGDYPYVYLDAKYVKVR--SV  160 (379)
T ss_pred             HcCCcHHHHHHHHHHhhCcccCHHHhhhHHHHHHH---------------HHHHHHhccccCceEEEEecceeehh--hh
Confidence            36789999999999998888888777665544433               33444444443333333332211 00  00


Q ss_pred             hcccccc--cccCCCCceeEeEEEEeeccccchHHHHHHHHH-HHhCCCCCCCCcEEEEeCCcccHHHHHhhhCCCCcch
Q 042031          198 FLIVHQY--MGVDAEDALFPLAIAIVDVESDENWMWFMSELR-KLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHC  274 (565)
Q Consensus       198 ~~l~~~y--~g~d~~~~~~~la~a~~~~E~~e~~~w~l~~l~-~~~~~~~~~~~~~~iitD~~~~l~~Ai~~vfP~~~h~  274 (565)
                       .-...|  +|++.+|+-.++|+.+-+.|+ ..|.-||..|+ +.+.      ....+++|..+|+.+||.++||.+.++
T Consensus       161 -~~~~~~ia~Gv~~eG~reilg~~~~~~e~-~~w~~~l~~l~~rgl~------~v~l~v~Dg~~gl~~aI~~v~p~a~~Q  232 (379)
T COG3328         161 -RNKAVYIAIGVTEEGRREILGIWVGVRES-KFWLSFLLDLKNRGLS------DVLLVVVDGLKGLPEAISAVFPQAAVQ  232 (379)
T ss_pred             -hhheeeeeeccCcccchhhhceeeecccc-hhHHHHHHHHHhcccc------ceeEEecchhhhhHHHHHHhccHhhhh
Confidence             011112  999999999999999999999 99997777776 4455      346677899999999999999999999


Q ss_pred             hhHHHHHHHHHhhcCch---hhHHHHHHHHHhhcHHHHHHHHHHHHh----cccchhhHhhhCCCCCc-cccccCCcccc
Q 042031          275 FCLRYVSENFRDTFKNT---KLVNIFWNAVYALTTVEFEAKISEMVE----ISQDVIPWFQQFPPQLW-AIAYFEGVRYG  346 (565)
Q Consensus       275 ~C~~Hi~~n~~~~~~~~---~~~~~~~~~~~~~t~~eF~~~~~~l~~----~~~~~~~~l~~~~~~~W-~~a~~~~~~~~  346 (565)
                      .|..|+.+|+..+...+   .+...+..+..+.+.++-...|..+..    ..|....++.+..-+.| ..+|....+--
T Consensus       233 ~C~vH~~Rnll~~v~~k~~d~i~~~~~~I~~a~~~e~~~~~~~~~~~~w~~~yP~i~~~~~~~~~~~~~F~~fp~~~r~~  312 (379)
T COG3328         233 RCIVHLVRNLLDKVPRKDQDAVLSDLRSIYIAPDAEEALLALLAFSELWGKRYPAILKSWRNALEELLPFFAFPSEIRKI  312 (379)
T ss_pred             hhhhHHHhhhhhhhhhhhhHHHHhhhhhhhccCCcHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHhcccccCcHHHHhH
Confidence            99999999999988765   344445555556677766666666443    47787777777644444 33343333335


Q ss_pred             ccccchhHHHHHHhhh
Q 042031          347 HFTLGVTELLYNWALE  362 (565)
Q Consensus       347 ~~ttn~~Es~n~~lk~  362 (565)
                      +.|||..|++|+.++.
T Consensus       313 i~ttN~IE~~n~~ir~  328 (379)
T COG3328         313 IYTTNAIESLNKLIRR  328 (379)
T ss_pred             hhcchHHHHHHHHHHH
Confidence            6799999999997763

>smart00575 ZnF_PMZ plant mutator transposase zinc finger

Probab=98.99  E-value=2.1e-10  Score=69.73  Aligned_cols=28  Identities=50%  Similarity=1.068  Sum_probs=25.5

Q ss_pred             ceeccCccccCCCCchhHHHHHHhcCCC
Q 042031          441 RVCSCRRWQLYGLPCAHAAAALLSCGQN  468 (565)
Q Consensus       441 ~~CsC~~~~~~GiPC~H~lav~~~~~~~  468 (565)
                      .+|||++||..||||+|+|+|+...+++
T Consensus         1 ~~CsC~~~~~~gipC~H~i~v~~~~~~~   28 (28)
T smart00575        1 KTCSCRKFQLSGIPCRHALAAAIHIGLS   28 (28)
T ss_pred             CcccCCCcccCCccHHHHHHHHHHhCCC
Confidence            4799999999999999999999988763

>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=98.89  E-value=7e-09  Score=83.49  Aligned_cols=68  Identities=21%  Similarity=0.451  Sum_probs=64.5

Q ss_pred             eCCHHHHHHHHHHHHHhccceEEEEeecCeEEEEEeec------------------------------------------
Q 042031           26 FPDVETCRRTLKDIAIALHFDLRIVKSDRSRFIAKCSK------------------------------------------   63 (565)
Q Consensus        26 F~s~~e~~~a~~~ya~~~gf~~~~~kS~~~r~~~~C~~------------------------------------------   63 (565)
                      |.+++|++.+|+.++...||++.+.+|+...+.|.|..                                          
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            88999999999999999999999999999999999963                                          


Q ss_pred             CCCccEEEEEEcCCCCceEEeeeccceeee
Q 042031           64 EGCPWRVHVAKCPGVPTFSIRTLHGEHTCE   93 (565)
Q Consensus        64 ~~C~~~v~~~~~~~~~~~~V~~~~~~H~c~   93 (565)
                      ..|||+|+|+.....+.|.|+.+++.|||+
T Consensus        81 ~~CPFriRA~yS~k~k~W~lvvvnn~HnH~  110 (111)
T PF08731_consen   81 NTCPFRIRANYSKKNKKWTLVVVNNEHNHP  110 (111)
T ss_pred             cCCCeEEEEEEEecCCeEEEEEecCCcCCC
Confidence            379999999999999999999999999996

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=98.73  E-value=1.8e-08  Score=81.65  Aligned_cols=61  Identities=23%  Similarity=0.314  Sum_probs=53.3

Q ss_pred             HHHHHHHHhccceEEEEeecCe-------EEEEEeec----------------------CCCccEEEEEEcCCCCceEEe
Q 042031           34 RTLKDIAIALHFDLRIVKSDRS-------RFIAKCSK----------------------EGCPWRVHVAKCPGVPTFSIR   84 (565)
Q Consensus        34 ~a~~~ya~~~gf~~~~~kS~~~-------r~~~~C~~----------------------~~C~~~v~~~~~~~~~~~~V~   84 (565)
                      +||+.||..+||.+++.+|.+.       ++.++|++                      +||||+|.+.+.. ++.|.|.
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            4899999999999999876654       57889985                      5899999999877 8999999


Q ss_pred             eeccceeeeCc
Q 042031           85 TLHGEHTCEGV   95 (565)
Q Consensus        85 ~~~~~H~c~~~   95 (565)
                      .+..+|||+..
T Consensus        80 ~~~~~HNH~L~   90 (91)
T PF03101_consen   80 SFVLEHNHPLC   90 (91)
T ss_pred             ECcCCcCCCCC
Confidence            99999999753

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=98.32  E-value=4.9e-07  Score=60.61  Aligned_cols=30  Identities=43%  Similarity=0.802  Sum_probs=27.2

Q ss_pred             EEccCceeccCccccCCCCchhHHHHHHhc
Q 042031          436 VDIRSRVCSCRRWQLYGLPCAHAAAALLSC  465 (565)
Q Consensus       436 V~l~~~~CsC~~~~~~GiPC~H~lav~~~~  465 (565)
                      +++...+|+|..|+..|.||+|++|++...
T Consensus        10 ~~~~~~~CsC~~~~~~~~~CkHi~av~~~~   39 (40)
T PF04434_consen   10 VSIEQASCSCPYFQFRGGPCKHIVAVLLAL   39 (40)
T ss_pred             ccccccEeeCCCccccCCcchhHHHHHHhh
Confidence            567788999999999999999999998765

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=96.41  E-value=0.0018  Score=34.72  Aligned_cols=18  Identities=28%  Similarity=0.650  Sum_probs=16.3

Q ss_pred             EEcCccCCCCCCCCCCCC
Q 042031          546 VQCGRCHLLGHSQKKCTM  563 (565)
Q Consensus       546 ~~C~~C~~~gHn~~tC~~  563 (565)
                      ++|-+|++.||.++.||+
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 ....

>PF15288 zf-CCHC_6: Zinc knuckle

Probab=96.20  E-value=0.0021  Score=41.85  Aligned_cols=18  Identities=44%  Similarity=1.128  Sum_probs=15.9

Q ss_pred             EEcCccCCCCCCC--CCCCC
Q 042031          546 VQCGRCHLLGHSQ--KKCTM  563 (565)
Q Consensus       546 ~~C~~C~~~gHn~--~tC~~  563 (565)
                      ++|++||+.||.+  ++||+
T Consensus         2 ~kC~~CG~~GH~~t~k~CP~   21 (40)
T PF15288_consen    2 VKCKNCGAFGHMRTNKRCPM   21 (40)
T ss_pred             ccccccccccccccCccCCC
Confidence            6899999999998  77875

>PF13696 zf-CCHC_2: Zinc knuckle

Probab=94.53  E-value=0.019  Score=35.51  Aligned_cols=21  Identities=29%  Similarity=0.520  Sum_probs=18.9

Q ss_pred             ceEEcCccCCCCCCCCCCCCC
Q 042031          544 RIVQCGRCHLLGHSQKKCTMP  564 (565)
Q Consensus       544 ~~~~C~~C~~~gHn~~tC~~~  564 (565)
                      ..+.|.+|++.||..+.||+.
T Consensus         7 ~~Y~C~~C~~~GH~i~dCP~~   27 (32)
T PF13696_consen    7 PGYVCHRCGQKGHWIQDCPTN   27 (32)
T ss_pred             CCCEeecCCCCCccHhHCCCC
Confidence            458999999999999999974

>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=94.14  E-value=0.077  Score=38.71  Aligned_cols=39  Identities=31%  Similarity=0.606  Sum_probs=32.4

Q ss_pred             eEEEEEeecCCCccEEEEEEcCCCCceEEeeeccceeee
Q 042031           55 SRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCE   93 (565)
Q Consensus        55 ~r~~~~C~~~~C~~~v~~~~~~~~~~~~V~~~~~~H~c~   93 (565)
                      .|.-+.|+..+|+++-.+.+..+++...++++.++|||+
T Consensus        21 pRsYYrCt~~~C~akK~Vqr~~~d~~~~~vtY~G~H~h~   59 (60)
T PF03106_consen   21 PRSYYRCTHPGCPAKKQVQRSADDPNIVIVTYEGEHNHP   59 (60)
T ss_dssp             EEEEEEEECTTEEEEEEEEEETTCCCEEEEEEES--SS-
T ss_pred             eeEeeeccccChhheeeEEEecCCCCEEEEEEeeeeCCC
Confidence            456689999999999999988888899999999999996

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.

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

Probab=94.05  E-value=1.8  Score=46.20  Aligned_cols=130  Identities=15%  Similarity=0.192  Sum_probs=91.2

Q ss_pred             ccccchHHHHHHHHHHHhCCCCCCCCcEEEEeCCcccHHHHHhhhCCCCcchhhHHHHHHHHHhhcCc-hhhHHHHHHHH
Q 042031          223 VESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHCFCLRYVSENFRDTFKN-TKLVNIFWNAV  301 (565)
Q Consensus       223 ~E~~e~~~w~l~~l~~~~~~~~~~~~~~~iitD~~~~l~~Ai~~vfP~~~h~~C~~Hi~~n~~~~~~~-~~~~~~~~~~~  301 (565)
                      ..+.+-|.-+...+.+....  ....-+++.+|+.+.|.+++. .||.+.|.+..+|+.+.+.+.++. +.+...++.+.
T Consensus       235 ~~~~~~~~~v~~~i~~~Y~~--~~~~~iiingDGa~WIk~~~~-~~~~~~~~LD~FHl~k~i~~~~~~~~~~~~~~~~al  311 (470)
T PF06782_consen  235 ESAEEFWEEVLDYIYNHYDL--DKTTKIIINGDGASWIKEGAE-FFPKAEYFLDRFHLNKKIKQALSHDPELKEKIRKAL  311 (470)
T ss_pred             cchHHHHHHHHHHHHHhcCc--ccceEEEEeCCCcHHHHHHHH-hhcCceEEecHHHHHHHHHHHhhhChHHHHHHHHHH
Confidence            55678899888888877763  123357788999999988776 999999999999999999988863 46777777788


Q ss_pred             HhhcHHHHHHHHHHHHhc--cc-------chhhHhhhCCCCCccc--cccCCccccccccchhHHHHHHhh
Q 042031          302 YALTTVEFEAKISEMVEI--SQ-------DVIPWFQQFPPQLWAI--AYFEGVRYGHFTLGVTELLYNWAL  361 (565)
Q Consensus       302 ~~~t~~eF~~~~~~l~~~--~~-------~~~~~l~~~~~~~W~~--a~~~~~~~~~~ttn~~Es~n~~lk  361 (565)
                      +.....+++..++.+...  .+       +...||..    +|-.  .|...  -|.......|+.+..+.
T Consensus       312 ~~~d~~~l~~~L~~~~~~~~~~~~~~~i~~~~~Yl~~----n~~~i~~y~~~--~~~~g~g~ee~~~~~~s  376 (470)
T PF06782_consen  312 KKGDKKKLETVLDTAESCAKDEEERKKIRKLRKYLLN----NWDGIKPYRER--EGLRGIGAEESVSHVLS  376 (470)
T ss_pred             HhcCHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHH----CHHHhhhhhhc--cCCCccchhhhhhhHHH
Confidence            877888888888887754  22       23444444    4422  22210  23334455777777664

>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=93.25  E-value=0.19  Score=51.32  Aligned_cols=67  Identities=22%  Similarity=0.533  Sum_probs=56.5

Q ss_pred             CCcCCCCCCCccccCeeCCHHHHHHHHHHHHHhccceEEEEeecCe-EEEEEeecCCCccEEEEEEcC
Q 042031           10 NDSLSLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDRS-RFIAKCSKEGCPWRVHVAKCP   76 (565)
Q Consensus        10 ~~~~~~~~~~l~~G~~F~s~~e~~~a~~~ya~~~gf~~~~~kS~~~-r~~~~C~~~~C~~~v~~~~~~   76 (565)
                      +..|...++.-..+..|++.++-+.+++.|.++....|..+.|-+. .++|.|.-..|||+|.++..+
T Consensus        12 n~~l~~~~~~~~~~~~f~tl~~wy~v~ndyefq~rcpiilknsh~nkhftfachlk~c~fkillsy~g   79 (496)
T PF04684_consen   12 NKSLASGDPQSAQARKFPTLEAWYNVINDYEFQSRCPIILKNSHRNKHFTFACHLKNCPFKILLSYCG   79 (496)
T ss_pred             hhhhccCCcccccccCCCcHHHHHHHHhhhhhhhcCceeecccccccceEEEeeccCCCceeeeeecc
Confidence            3445455556666888999999999999999999999999988764 599999999999999998654

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=92.89  E-value=1.3  Score=41.16  Aligned_cols=116  Identities=12%  Similarity=0.149  Sum_probs=80.9

Q ss_pred             HHHHHcCcccCHHHHHHHHHHHHHHhhCChHHhhccHHHHHHHHhhcCCCcEEEEEEcCCcccchhhhhcccccc----c
Q 042031          130 DIRDQHGVAVSYMQAWRGKERSMAALHGTYEEGYRLLPAYCEQIRKTNPGSIASVFATGQKIVSIGSLFLIVHQY----M  205 (565)
Q Consensus       130 ~~~~~~g~~~s~~~~~r~~~~~~~~~~g~~~~~~~~l~~~~~~l~~~np~~~~~v~~~~~~~~~i~~f~~l~~~y----~  205 (565)
                      .+....|+.+++.++.|.=++.              -+.+...+...++.....+-+|+       .+..+.|++    .
T Consensus        33 e~l~~rgi~v~h~Ti~rwv~k~--------------~~~~~~~~~~r~~~~~~~w~vDE-------t~ikv~gkw~ylyr   91 (215)
T COG3316          33 EMLAERGIEVDHETIHRWVQKY--------------GPLLARRLKRRKRKAGDSWRVDE-------TYIKVNGKWHYLYR   91 (215)
T ss_pred             HHHHHcCcchhHHHHHHHHHHH--------------hHHHHHHhhhhccccccceeeee-------eEEeeccEeeehhh
Confidence            3445679999999988764432              13455566666665444444443       122256665    7


Q ss_pred             ccCCCCceeEeEEEEeeccccchHHHHHHHHHHHhCCCCCCCCcEEEEeCCcccHHHHHhhhCCCCcch
Q 042031          206 GVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHC  274 (565)
Q Consensus       206 g~d~~~~~~~la~a~~~~E~~e~~~w~l~~l~~~~~~~~~~~~~~~iitD~~~~l~~Ai~~vfP~~~h~  274 (565)
                      ++|.+|  .++.+-|...-+...=.-||..+++.-+      .|.+|+||+.+....|+.++-+.+.|+
T Consensus        92 Aid~~g--~~Ld~~L~~rRn~~aAk~Fl~kllk~~g------~p~v~vtDka~s~~~A~~~l~~~~ehr  152 (215)
T COG3316          92 AIDADG--LTLDVWLSKRRNALAAKAFLKKLLKKHG------EPRVFVTDKAPSYTAALRKLGSEVEHR  152 (215)
T ss_pred             hhccCC--CeEEEEEEcccCcHHHHHHHHHHHHhcC------CCceEEecCccchHHHHHhcCcchhee
Confidence            888884  4567777777777777777877776656      689999999999999999999977665

>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=91.31  E-value=0.16  Score=49.29  Aligned_cols=66  Identities=14%  Similarity=0.023  Sum_probs=54.5

Q ss_pred             EEEeeccccchHHHHHHHH-HHHhCCCCCCCCcEEEEeCCcccHHHHHhhhCCCCcchhhHHHHHHHHHhhc
Q 042031          218 IAIVDVESDENWMWFMSEL-RKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSAFHCFCLRYVSENFRDTF  288 (565)
Q Consensus       218 ~a~~~~E~~e~~~w~l~~l-~~~~~~~~~~~~~~~iitD~~~~l~~Ai~~vfP~~~h~~C~~Hi~~n~~~~~  288 (565)
                      ++++++-+.++..=||..+ -...     .....+|++|...+..+|+++.||+|.+..-.|||++++.+.+
T Consensus        30 l~i~~~r~~~~l~~~~~~~~~~~~-----~~~v~~V~~Dm~~~y~~~~~~~~P~A~iv~DrFHvvk~~~~al   96 (249)
T PF01610_consen   30 LDILPGRDKETLKDFFRSLYPEEE-----RKNVKVVSMDMSPPYRSAIREYFPNAQIVADRFHVVKLANRAL   96 (249)
T ss_pred             EEEcCCccHHHHHHHHHHhCcccc-----ccceEEEEcCCCccccccccccccccccccccchhhhhhhhcc
Confidence            3578888888888787766 3332     3467899999999999999999999999999999999886644

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=90.87  E-value=0.04  Score=48.29  Aligned_cols=60  Identities=15%  Similarity=0.128  Sum_probs=51.5

Q ss_pred             cccCCCCceeEeEEEEeeccccchHHHHHHHHHHHhCCCCCCCCcEEEEeCCcccHHHHHhhhCCCC
Q 042031          205 MGVDAEDALFPLAIAIVDVESDENWMWFMSELRKLLGVNTDNMPRLTILSERQRGIVEAVETHFPSA  271 (565)
Q Consensus       205 ~g~d~~~~~~~la~a~~~~E~~e~~~w~l~~l~~~~~~~~~~~~~~~iitD~~~~l~~Ai~~vfP~~  271 (565)
                      -.+|.+++  +|++-|-..-+.+.=..||..+++..+     ..|..|+||..++...|+++++|..
T Consensus        22 ~aiD~~~~--~l~~~ls~~Rd~~aA~~Fl~~~l~~~~-----~~p~~ivtDk~~aY~~A~~~l~~~~   81 (140)
T PF13610_consen   22 RAIDAEGN--ILDFYLSKRRDTAAAKRFLKRALKRHR-----GEPRVIVTDKLPAYPAAIKELNPEG   81 (140)
T ss_pred             Eeeccccc--chhhhhhhhcccccceeeccccceeec-----cccceeecccCCccchhhhhccccc
Confidence            88999998  888888888888888888888776653     3789999999999999999998864

>smart00774 WRKY DNA binding domain

Probab=90.71  E-value=0.35  Score=35.03  Aligned_cols=38  Identities=32%  Similarity=0.573  Sum_probs=32.0

Q ss_pred             eEEEEEeec-CCCccEEEEEEcCCCCceEEeeeccceee
Q 042031           55 SRFIAKCSK-EGCPWRVHVAKCPGVPTFSIRTLHGEHTC   92 (565)
Q Consensus        55 ~r~~~~C~~-~~C~~~v~~~~~~~~~~~~V~~~~~~H~c   92 (565)
                      .|.-++|+. .+|+++=.+.+..+++...++++.++|||
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            345579998 89999988887777788899999999997

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=90.50  E-value=0.45  Score=34.68  Aligned_cols=46  Identities=20%  Similarity=0.322  Sum_probs=24.9

Q ss_pred             ccceEEEEeecCeEEEEEeecC---CCccEEEEEEcCCCCceEEeeeccceee
Q 042031           43 LHFDLRIVKSDRSRFIAKCSKE---GCPWRVHVAKCPGVPTFSIRTLHGEHTC   92 (565)
Q Consensus        43 ~gf~~~~~kS~~~r~~~~C~~~---~C~~~v~~~~~~~~~~~~V~~~~~~H~c   92 (565)
                      .|+.|...+.........|...   +|+++|...    .+.-.|.....+|||
T Consensus        14 ~Gy~y~~~~~~~~~~~WrC~~~~~~~C~a~~~~~----~~~~~~~~~~~~HnH   62 (62)
T PF04500_consen   14 DGYRYYFNKRNDGKTYWRCSRRRSHGCRARLITD----AGDGRVVRTNGEHNH   62 (62)
T ss_dssp             TTEEEEEEEE-SS-EEEEEGGGTTS----EEEEE------TTEEEE-S---SS
T ss_pred             CCeEEECcCCCCCcEEEEeCCCCCCCCeEEEEEE----CCCCEEEECCCccCC
Confidence            3677777776677788999864   899999997    233455566688987

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.

>smart00343 ZnF_C2HC zinc finger

Probab=87.08  E-value=0.32  Score=28.74  Aligned_cols=17  Identities=29%  Similarity=0.755  Sum_probs=15.3

Q ss_pred             EcCccCCCCCCCCCCCC
Q 042031          547 QCGRCHLLGHSQKKCTM  563 (565)
Q Consensus       547 ~C~~C~~~gHn~~tC~~  563 (565)
                      .|.+|++.||..+.||.
T Consensus         1 ~C~~CG~~GH~~~~C~~   17 (26)
T smart00343        1 KCYNCGKEGHIARDCPK   17 (26)
T ss_pred             CCccCCCCCcchhhCCc
Confidence            48899999999999983

>PF14392 zf-CCHC_4: Zinc knuckle

Probab=86.99  E-value=0.24  Score=34.57  Aligned_cols=20  Identities=35%  Similarity=0.642  Sum_probs=17.6

Q ss_pred             ceEEcCccCCCCCCCCCCCC
Q 042031          544 RIVQCGRCHLLGHSQKKCTM  563 (565)
Q Consensus       544 ~~~~C~~C~~~gHn~~tC~~  563 (565)
                      -...|.+|+..||+.+.||.
T Consensus        30 lp~~C~~C~~~gH~~~~C~k   49 (49)
T PF14392_consen   30 LPRFCFHCGRIGHSDKECPK   49 (49)
T ss_pred             cChhhcCCCCcCcCHhHcCC
Confidence            34689999999999999984

>PF13565 HTH_32: Homeodomain-like domain

Probab=86.49  E-value=1.8  Score=33.17  Aligned_cols=41  Identities=24%  Similarity=0.462  Sum_probs=34.6

Q ss_pred             hHHHHHHHHHhcCCCCCHHHHHHHHHHHcCccc--CHHHHHHH
Q 042031          107 WVARSVEARIRDNPQYKPKEILQDIRDQHGVAV--SYMQAWRG  147 (565)
Q Consensus       107 ~i~~~~~~~l~~~~~~~~~~i~~~~~~~~g~~~--s~~~~~r~  147 (565)
                      .+...+.+.+..+|.+++.+|.+.|.+++|+.+  |.+++||.
T Consensus        34 e~~~~i~~~~~~~p~wt~~~i~~~L~~~~g~~~~~S~~tv~R~   76 (77)
T PF13565_consen   34 EQRERIIALIEEHPRWTPREIAEYLEEEFGISVRVSRSTVYRI   76 (77)
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCCccHhHHHHh
Confidence            344567777788999999999999999999876  99999874

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

Probab=83.13  E-value=1.1  Score=43.98  Aligned_cols=36  Identities=14%  Similarity=0.293  Sum_probs=28.8

Q ss_pred             EEEEeCCcccHHHHHhhhCCCCcchhhHHHHHHHHHhhcCc
Q 042031          250 LTILSERQRGIVEAVETHFPSAFHCFCLRYVSENFRDTFKN  290 (565)
Q Consensus       250 ~~iitD~~~~l~~Ai~~vfP~~~h~~C~~Hi~~n~~~~~~~  290 (565)
                      -+++||+-.+-..     +..+.|..|..|+.+.+.+-...
T Consensus       121 GilvsD~y~~Y~~-----~~~~~hq~C~AH~~R~~~~~~~~  156 (271)
T PF03050_consen  121 GILVSDGYSAYNK-----LAGITHQLCWAHLRRDFQDAAES  156 (271)
T ss_pred             eeeeccccccccc-----ccccccccccccccccccccccc
Confidence            4899999987654     33789999999999998776654

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 [].

>COG5179 TAF1 Transcription initiation factor TFIID, subunit TAF1 [Transcription]

Probab=81.98  E-value=0.86  Score=48.12  Aligned_cols=25  Identities=32%  Similarity=0.695  Sum_probs=19.4

Q ss_pred             CCCCCceEEcCccCCCCCCC--CCCCC
Q 042031          539 FKRPKRIVQCGRCHLLGHSQ--KKCTM  563 (565)
Q Consensus       539 ~~~~~~~~~C~~C~~~gHn~--~tC~~  563 (565)
                      +++...+++|++|||.||=+  +.||+
T Consensus       931 ~GRK~Ttr~C~nCGQvGHmkTNK~CP~  957 (968)
T COG5179         931 KGRKNTTRTCGNCGQVGHMKTNKACPK  957 (968)
T ss_pred             CCCCCcceecccccccccccccccCcc
Confidence            45555689999999999965  46775

---

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	565
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06

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

 Score = 49.5 bits (117), Expect = 3e-06
 Identities = 71/499 (14%), Positives = 145/499 (29%), Gaps = 185/499 (37%)

Query: 29  VETCRRTLKDIAIALHFDLRIVKSDRSRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHG 88
           ++ C        +    D +I       F          W +++  C      S  T+  
Sbjct: 168 LDVCL----SYKVQCKMDFKI-------F----------W-LNLKNC-----NSPETV-- 198

Query: 89  EHTCEGVQNLHHQQASVGWVAR------------SVEARIRDNPQYKPKE----ILQDIR 132
               E +Q L +Q     W +R            S++A +R   + KP E    +L +++
Sbjct: 199 ---LEMLQKLLYQ-IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ 254

Query: 133 D------------------QHGVAVSYMQAWRGKERSMAALHGTYEEGYRL--------- 165
           +                     V   ++ A      S+     T                
Sbjct: 255 NAKAWNAFNLSCKILLTTRFKQVT-DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC 313

Query: 166 ----LPAYCEQIRKTNPGSIASVFA----------------TGQKIVSIGSLFLIV---- 201
               LP    ++  TNP  + S+ A                   K+ +I    L V    
Sbjct: 314 RPQDLP---REVLTTNPRRL-SIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA 369

Query: 202 ---HQY--MGVDAEDALFP---LAIAIVDVESDENWMWFMSELRKLLGVNTDNMP----- 248
                +  + V    A  P   L++   DV   +  M  +++L K   V           
Sbjct: 370 EYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV-MVVVNKLHKYSLVEKQPKESTISI 428

Query: 249 -------RLTILSERQ--RGIVEAVETHFPSAFHCFCLRYVSENFRDTFKNTKLVNIFWN 299
                  ++ + +E    R IV+            F    +   + D +        + +
Sbjct: 429 PSIYLELKVKLENEYALHRSIVDHYNIP-----KTFDSDDLIPPYLDQY-------FYSH 476

Query: 300 AVYALTTVEFEAKISEMVEISQDVIPWFQQFPPQLWAIAYFEGVRYGHFTLGVTELLYNW 359
             + L  +E   +++    +  D   + +Q             +R+             W
Sbjct: 477 IGHHLKNIEHPERMTLFRMVFLD-FRFLEQ------------KIRHDS---------TAW 514

Query: 360 ALECHELPVVQMMEYIRHQLTSWFNDRREMGMRWTSILVPSTERQIMEAIADARCYQVLR 419
                 L  +Q +++ +  +    ND             P  ER ++ AI D     + +
Sbjct: 515 NASGSILNTLQQLKFYKPYICD--ND-------------PKYER-LVNAILDF----LPK 554

Query: 420 ANEIEFEIVSTERTNIVDI 438
             E    ++ ++ T+++ I
Sbjct: 555 IEEN---LICSKYTDLLRI 570

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	565
1nc8_A	29	Nucleocapsid protein; HIV-2, RNA recognition, zinc	96.43
1dsq_A	26	Nucleic acid binding protein P14; CCHC type zinc f	95.21
1a6b_B	40	Momulv, zinc finger protein NCP10; nucleocapsid pr	95.16
1u6p_A	56	GAG polyprotein; MLV, A-minor K-turn, stem loop, b	94.03
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	93.69
2ayd_A	76	WRKY transcription factor 1; beta strands, zinc fi	92.8
1wj2_A	78	Probable WRKY transcription factor 4; DNA-binding	92.33
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	91.41
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	90.31
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	88.88
2ysa_A	55	Retinoblastoma-binding protein 6; zinc finger, CCH	87.94
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	87.83
2rpr_A	87	Flywch-type zinc finger-containing protein 1; flyw	83.75
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	83.03
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	82.88
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	82.72
2ihx_A	61	Nucleocapsid (NC) protein; protein-RNA complex, vi	81.04
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	80.77

>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=96.43  E-value=0.00097  Score=40.01  Aligned_cols=23  Identities=30%  Similarity=0.911  Sum_probs=20.1

Q ss_pred             CCceEEcCccCCCCCCCCCCCCC
Q 042031          542 PKRIVQCGRCHLLGHSQKKCTMP  564 (565)
Q Consensus       542 ~~~~~~C~~C~~~gHn~~tC~~~  564 (565)
                      +++...|-+|++.||..+.|+.|
T Consensus         3 ~r~~~~C~nCgk~GH~ar~C~~p   25 (29)
T 1nc8_A            3 QRKVIRCWNCGKEGHSARQCRAP   25 (29)
T ss_dssp             CCCCCBCTTTSCBSSCGGGCCSS
T ss_pred             CCCCCEEEECCccccCHhHCccc
Confidence            34567899999999999999987

>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=95.21  E-value=0.0084  Score=34.80  Aligned_cols=19  Identities=26%  Similarity=0.599  Sum_probs=17.5

Q ss_pred             EEcCccCCCCCCCCCCCCC
Q 042031          546 VQCGRCHLLGHSQKKCTMP  564 (565)
Q Consensus       546 ~~C~~C~~~gHn~~tC~~~  564 (565)
                      .+|-+|++.||..+.||.+
T Consensus         3 ~~Cf~CG~~GH~ardC~~~   21 (26)
T 1dsq_A            3 PVCFSCGKTGHIKRDCKEE   21 (26)
T ss_dssp             CBCTTTCCBSSCTTTTTCC
T ss_pred             CeeEeCCCCCcccccCCCc
Confidence            5799999999999999976

>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=95.16  E-value=0.011  Score=38.19  Aligned_cols=21  Identities=33%  Similarity=0.586  Sum_probs=18.9

Q ss_pred             ceEEcCccCCCCCCCCCCCCC
Q 042031          544 RIVQCGRCHLLGHSQKKCTMP  564 (565)
Q Consensus       544 ~~~~C~~C~~~gHn~~tC~~~  564 (565)
                      ....|-+|++.||-.+.||++
T Consensus         9 ~~~~C~~Cgk~GH~ardCP~~   29 (40)
T 1a6b_B            9 DRDQCAYCKEKGHWAKDCPKK   29 (40)
T ss_dssp             CSSSCSSSCCTTCCTTSCSSS
T ss_pred             CCCeeeECCCCCcchhhCcCC
Confidence            457899999999999999986

>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=94.03  E-value=0.023  Score=39.69  Aligned_cols=22  Identities=32%  Similarity=0.528  Sum_probs=19.2

Q ss_pred             CceEEcCccCCCCCCCCCCCCC
Q 042031          543 KRIVQCGRCHLLGHSQKKCTMP  564 (565)
Q Consensus       543 ~~~~~C~~C~~~gHn~~tC~~~  564 (565)
                      ....+|-+||+.||-.+.||.+
T Consensus        21 ~~~~~C~~Cge~GH~ardCp~~   42 (56)
T 1u6p_A           21 LDRDQCAYCKEKGHWAKDCPKK   42 (56)
T ss_dssp             CCTTBCSSSCCBSSCGGGCTTC
T ss_pred             CCCCcceeCCCCCcccccCcCC
Confidence            3456899999999999999975

>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=93.69  E-value=0.031  Score=38.02  Aligned_cols=18  Identities=33%  Similarity=0.693  Sum_probs=11.3

Q ss_pred             EEcCccCCCCCCCCCCCC
Q 042031          546 VQCGRCHLLGHSQKKCTM  563 (565)
Q Consensus       546 ~~C~~C~~~gHn~~tC~~  563 (565)
                      ..|-+|++.||-.+.||.
T Consensus        28 ~~C~~Cg~~GH~~~~C~~   45 (49)
T 2ec7_A           28 QGCWKCGKTGHVMAKCPE   45 (49)
T ss_dssp             CSCSSSCCSSCCGGGCCS
T ss_pred             CeeCcCCCcCCccCCCcC
Confidence            456666666666666664

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

Probab=92.80  E-value=0.2  Score=37.21  Aligned_cols=39  Identities=31%  Similarity=0.564  Sum_probs=34.5

Q ss_pred             EEEEEeecCCCccEEEEEEcCCCCceEEeeeccceeeeC
Q 042031           56 RFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEG   94 (565)
Q Consensus        56 r~~~~C~~~~C~~~v~~~~~~~~~~~~V~~~~~~H~c~~   94 (565)
                      |-.++|...||+++-.+.+..+++...++++.++|||+.
T Consensus        35 RsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~   73 (76)
T 2ayd_A           35 RSYYRCSSPGCPVKKHVERSSHDTKLLITTYEGKHDHDM   73 (76)
T ss_dssp             EEEEEECSTTCCCEEEEEECSSSTTEEEEEEESCCSSCC
T ss_pred             eeEeEcCCCCCCceeeEEEECCCCCEEEEEEccCcCCCC
Confidence            556899999999999999888788899999999999964

>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=92.33  E-value=0.22  Score=37.09  Aligned_cols=40  Identities=30%  Similarity=0.522  Sum_probs=34.6

Q ss_pred             eEEEEEeecCCCccEEEEEEcCCCCceEEeeeccceeeeC
Q 042031           55 SRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEG   94 (565)
Q Consensus        55 ~r~~~~C~~~~C~~~v~~~~~~~~~~~~V~~~~~~H~c~~   94 (565)
                      -|-.++|...+|+++-.+.+...++...++++.++|||+.
T Consensus        37 PRsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~   76 (78)
T 1wj2_A           37 PRSYYKCTTPGCGVRKHVERAATDPKAVVTTYEGKHNHDL   76 (78)
T ss_dssp             CEEEEEEECSSCEEEEEEEEETTTTSEEEEEEESCCSSCC
T ss_pred             eeEEeecCcCCCCcEeeEEEEcCCCCEEEEEEeeEcCCCC
Confidence            3556899999999999999887788888999999999964

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

Probab=91.41  E-value=0.08  Score=33.97  Aligned_cols=15  Identities=27%  Similarity=0.640  Sum_probs=7.6

Q ss_pred             cCccCCCCCCCCCCC
Q 042031          548 CGRCHLLGHSQKKCT  562 (565)
Q Consensus       548 C~~C~~~gHn~~tC~  562 (565)
                      |-+|++.||-.+.||
T Consensus        24 C~~Cg~~GH~~~~C~   38 (39)
T 2a51_A           24 CWNCGSKEHRFAQCP   38 (39)
T ss_dssp             CTTTCCSSSCTTTSC
T ss_pred             cccCCCCCCccCcCc
Confidence            444555555555554

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

Probab=90.31  E-value=0.11  Score=32.93  Aligned_cols=18  Identities=33%  Similarity=0.715  Sum_probs=12.5

Q ss_pred             EEcCccCCCCCCCCCCCC
Q 042031          546 VQCGRCHLLGHSQKKCTM  563 (565)
Q Consensus       546 ~~C~~C~~~gHn~~tC~~  563 (565)
                      ..|-+|++.||-.+.||+
T Consensus        20 ~~C~~Cg~~GH~a~~C~~   37 (37)
T 2bl6_A           20 KVCFKCKQPGHFSKQCRS   37 (37)
T ss_dssp             TTCSSCCCTTGGGGTTCC
T ss_pred             CeEccCCCcCCccCcCcC
Confidence            667777777777777764

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

Probab=88.88  E-value=0.16  Score=32.56  Aligned_cols=17  Identities=29%  Similarity=0.741  Sum_probs=15.6

Q ss_pred             EcCccCCCCCCCCCCCC
Q 042031          547 QCGRCHLLGHSQKKCTM  563 (565)
Q Consensus       547 ~C~~C~~~gHn~~tC~~  563 (565)
                      +|-+|++.||..+.||.
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            69999999999999984

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

Probab=87.94  E-value=0.18  Score=34.95  Aligned_cols=20  Identities=35%  Similarity=0.579  Sum_probs=17.7

Q ss_pred             ceEEcCccCCCCCCCCCCCC
Q 042031          544 RIVQCGRCHLLGHSQKKCTM  563 (565)
Q Consensus       544 ~~~~C~~C~~~gHn~~tC~~  563 (565)
                      ..+.|=+|++.||-.+.||.
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            45789999999999999983

>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=87.83  E-value=0.12  Score=35.99  Aligned_cols=20  Identities=35%  Similarity=0.620  Sum_probs=14.2

Q ss_pred             eEEcCccCCCCCCCCCCCCC
Q 042031          545 IVQCGRCHLLGHSQKKCTMP  564 (565)
Q Consensus       545 ~~~C~~C~~~gHn~~tC~~~  564 (565)
                      ...|-+|++.||-.+.||..
T Consensus        33 ~~~C~~Cg~~GH~~~~C~~~   52 (55)
T 1a1t_A           33 KKGCWKCGKEGHQMKDCTER   52 (55)
T ss_dssp             CCBCTTTCCBSSCGGGCSSS
T ss_pred             CCEeCCCCCcCCccCCCcCc
Confidence            45677777777777777753

>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=83.75  E-value=1.2  Score=34.25  Aligned_cols=45  Identities=20%  Similarity=0.225  Sum_probs=32.1

Q ss_pred             cceEEEEeecCeEEEEEeec---CCCccEEEEEEcCCCCceEEeeeccceeeeCc
Q 042031           44 HFDLRIVKSDRSRFIAKCSK---EGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGV   95 (565)
Q Consensus        44 gf~~~~~kS~~~r~~~~C~~---~~C~~~v~~~~~~~~~~~~V~~~~~~H~c~~~   95 (565)
                      ||.|...+....+....|..   .+|++++....    +.  |. ....|||+|.
T Consensus        27 Gy~Y~~~~~~~~~~yWrC~~~~~~kCrARi~T~~----~~--~~-~~~~HnH~p~   74 (87)
T 2rpr_A           27 SFLYRKEKAAGEKVYWMCRDQARLGCRSRAITQG----HR--IM-VMRSHCHQPD   74 (87)
T ss_dssp             TEEEEEEEECSSCEEEEEGGGTTSCCCCEEEEET----TE--EE-ECSCCSSCCC
T ss_pred             CEEEEeeecCCCcEEEEecCCCCCCCCEEEEEcC----CC--EE-CCCCcCCCCc
Confidence            67777766666667799986   58999998863    22  22 4577999874

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

Probab=83.03  E-value=0.38  Score=30.31  Aligned_cols=17  Identities=29%  Similarity=0.714  Sum_probs=15.5

Q ss_pred             EcCccCCCCCCCCCCCC
Q 042031          547 QCGRCHLLGHSQKKCTM  563 (565)
Q Consensus       547 ~C~~C~~~gHn~~tC~~  563 (565)
                      +|-+|++.||..+.||.
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            58999999999999984

>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}

Probab=82.88  E-value=0.63  Score=34.54  Aligned_cols=19  Identities=21%  Similarity=0.616  Sum_probs=12.0

Q ss_pred             eEEcCccCCCCCCCCCCCC
Q 042031          545 IVQCGRCHLLGHSQKKCTM  563 (565)
Q Consensus       545 ~~~C~~C~~~gHn~~tC~~  563 (565)
                      ...|-+|++.||-.+.||.
T Consensus        46 ~~~C~~Cg~~GH~ar~Cp~   64 (74)
T 2li8_A           46 PKKCHFCQSISHMVASCPL   64 (74)
T ss_dssp             CCCCTTTCCTTSCGGGCTT
T ss_pred             CCccCCcCCcCCccCcCcC
Confidence            3566666666666666664

>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=82.72  E-value=0.56  Score=33.59  Aligned_cols=16  Identities=25%  Similarity=0.762  Sum_probs=8.4

Q ss_pred             EcCccCCCCCCCCCCC
Q 042031          547 QCGRCHLLGHSQKKCT  562 (565)
Q Consensus       547 ~C~~C~~~gHn~~tC~  562 (565)
                      .|-+|++.||-.+.||
T Consensus        31 ~C~~Cg~~GH~ar~Cp   46 (63)
T 2cqf_A           31 KCHFCQSISHMVASCP   46 (63)
T ss_dssp             CCTTTCCSSSCTTTCT
T ss_pred             ccCCcCCcCCccCcCC
Confidence            4555555555555554

>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}

Probab=81.04  E-value=0.41  Score=34.09  Aligned_cols=19  Identities=32%  Similarity=0.807  Sum_probs=14.7

Q ss_pred             EEcCccCCCCCCCCCCCCC
Q 042031          546 VQCGRCHLLGHSQKKCTMP  564 (565)
Q Consensus       546 ~~C~~C~~~gHn~~tC~~~  564 (565)
                      ..|-+|++.||-.+.||.+
T Consensus        31 ~~C~~Cg~~GH~ar~C~~~   49 (61)
T 2ihx_A           31 ERCQLCNGMGHNAKQCRKR   49 (61)
T ss_dssp             SBCTTTCCBSSCGGGCCCC
T ss_pred             CeeCCCCCCCCCcCCCcCC
Confidence            5688888888888888764

>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=80.77  E-value=0.47  Score=32.93  Aligned_cols=22  Identities=36%  Similarity=0.822  Sum_probs=19.1

Q ss_pred             CceEEcCccCCCCCCCCCCCCC
Q 042031          543 KRIVQCGRCHLLGHSQKKCTMP  564 (565)
Q Consensus       543 ~~~~~C~~C~~~gHn~~tC~~~  564 (565)
                      ++...|-+|++.||..+.||.|
T Consensus        10 ~~~~~C~~Cg~~GH~a~~C~~~   31 (55)
T 1a1t_A           10 RKTVKCFNCGKEGHIAKNCRAP   31 (55)
T ss_dssp             GGTCBCTTTCCBSSCGGGCSSC
T ss_pred             CCCcceeeeCCCCcChhhcCCC
Confidence            3457899999999999999976

---

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	565
d1nc8a_	29	HIV nucleocapsid {Human immunodeficiency virus typ	97.18
d1wj2a_	71	WRKY DNA-binding protein 4 {Thale cress (Arabidops	94.72
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	94.65
d1dsqa_	26	Nucleic acid binding protein p14 {Mouse mammary tu	87.78
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	87.65
d1a6bb_	40	Zinc finger protein ncp10 {Moloney murine leukemia	82.98

>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=97.18  E-value=5.9e-05  Score=41.64  Aligned_cols=23  Identities=30%  Similarity=0.911  Sum_probs=20.8

Q ss_pred             CCceEEcCccCCCCCCCCCCCCC
Q 042031          542 PKRIVQCGRCHLLGHSQKKCTMP  564 (565)
Q Consensus       542 ~~~~~~C~~C~~~gHn~~tC~~~  564 (565)
                      .++.++|=+||.+||..|.|..|
T Consensus         3 qr~~ikCfNCGkeGH~ar~CrAP   25 (29)
T d1nc8a_           3 QRKVIRCWNCGKEGHSARQCRAP   25 (29)
T ss_dssp             CCCCCBCTTTSCBSSCGGGCCSS
T ss_pred             CcceeEeecCCccchhhhhccCc
Confidence            45778999999999999999887

>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=94.72  E-value=0.024  Score=39.57  Aligned_cols=40  Identities=30%  Similarity=0.522  Sum_probs=35.1

Q ss_pred             eEEEEEeecCCCccEEEEEEcCCCCceEEeeeccceeeeC
Q 042031           55 SRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEG   94 (565)
Q Consensus        55 ~r~~~~C~~~~C~~~v~~~~~~~~~~~~V~~~~~~H~c~~   94 (565)
                      .|..+.|+..+|+++=.+.+..+++...++++.++|||+.
T Consensus        30 pRsYYrCt~~~C~a~K~Vqr~~~d~~~~~vtY~G~H~h~~   69 (71)
T d1wj2a_          30 PRSYYKCTTPGCGVRKHVERAATDPKAVVTTYEGKHNHDL   69 (71)
T ss_dssp             CEEEEEEECSSCEEEEEEEEETTTTSEEEEEEESCCSSCC
T ss_pred             ceEEEEccccCCCCcceEEEEcCCCCEEEEEEeeEeCCCC
Confidence            4666889999999999999888788889999999999963

>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=94.65  E-value=0.0061  Score=38.38  Aligned_cols=19  Identities=37%  Similarity=0.917  Sum_probs=12.2

Q ss_pred             EEcCccCCCCCCCCCCCCC
Q 042031          546 VQCGRCHLLGHSQKKCTMP  564 (565)
Q Consensus       546 ~~C~~C~~~gHn~~tC~~~  564 (565)
                      ++|-+|++.||..+.||.|
T Consensus         2 i~C~~Cg~~GH~~~~Cp~~   20 (42)
T d2exfa1           2 VKCFNCGKEGHTARNCRAP   20 (42)
T ss_dssp             CCCTTTCCSSSCTTTCSSC
T ss_pred             CccccCCCcCcCcccCcCC
Confidence            3566666666666666654

>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=87.78  E-value=0.12  Score=26.82  Aligned_cols=17  Identities=29%  Similarity=0.714  Sum_probs=15.3

Q ss_pred             EcCccCCCCCCCCCCCC
Q 042031          547 QCGRCHLLGHSQKKCTM  563 (565)
Q Consensus       547 ~C~~C~~~gHn~~tC~~  563 (565)
                      -|=.||..||-++.|+.
T Consensus         4 vcfscgktghikkdck~   20 (26)
T d1dsqa_           4 VCFSCGKTGHIKRDCKE   20 (26)
T ss_dssp             BCTTTCCBSSCTTTTTC
T ss_pred             EEEecCCcccchhhhhh
Confidence            48899999999999985

>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=87.65  E-value=0.1  Score=32.51  Aligned_cols=18  Identities=39%  Similarity=0.744  Sum_probs=16.5

Q ss_pred             EEcCccCCCCCCCCCCCC
Q 042031          546 VQCGRCHLLGHSQKKCTM  563 (565)
Q Consensus       546 ~~C~~C~~~gHn~~tC~~  563 (565)
                      ..|-+|++.||-.+.||.
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=82.98  E-value=0.3  Score=28.78  Aligned_cols=19  Identities=37%  Similarity=0.663  Sum_probs=17.0

Q ss_pred             eEEcCccCCCCCCCCCCCC
Q 042031          545 IVQCGRCHLLGHSQKKCTM  563 (565)
Q Consensus       545 ~~~C~~C~~~gHn~~tC~~  563 (565)
                      +-.|-.|.+.||=.+.||+
T Consensus        10 kDQCAyCke~GHW~~dCPk   28 (40)
T d1a6bb_          10 RDQCAYCKEKGHWAKDCPK   28 (40)
T ss_dssp             SSSCSSSCCTTCCTTSCSS
T ss_pred             chhhHHHhhcCchhhhCcc
Confidence            3479999999999999996