Citrus Sinensis ID: 027274

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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-----
Protein Sequence
METTVKIQPQLQSHCISMNTFVSSKIRTLCTYPFAQHGRTLLVRAAAAGDTTKAAVAAQMKQNWLDSLTFPPLHVHDLTANQTNADSQWALGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVFTCR
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccHHHHHHHcccHHHHHHHHHHHcccHHccccccccccccccccccccccEEEEEccccccEEEEEEcccccccEEEEEcccccEEccccccccccHHHHHHHHHccccccccEEEEEEcccccccccEEEEccccHHHHHHHHHHHHcccEEEEccHHHHHHHccccccccHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccEEEccHHHHHHcccccEEEEccccccccccccccccccccHccccHHHHHHHHHHHHHHHHHHcccccccccccccccHccccccEEEEEccccccEEEEEEccccccEEEEEccccEEEEEccEEEEcccHHHHHHHHHccccccccEEEEEEcccccccccccEEcccccHHHHHHHHHHccccEEEccHHHHHHHHccccccccEEEEEEEEEEEEccc
Coil and Loop (DISEMBL)
mettvkiqpqlqshcismntfVSSKIrtlctypfaqhGRTLLVRAAAAGDTTKAAVAAQMKQNwldsltfpplhvhdltanqtnadsqwalgidpdLSGALAVLKsdhngcsaevfdtphlpvlvGKRVRKRLDAKSMIMLLRSldapigttayveqsipypqdgkqgwwsggfgYGLWIGILVAsgfsvvpipsltwknwyglsggtstKVCINTLILSVFTCR
Flexible Loop (DISEMBL)
mettvkiqpqlqshciSMNTFVSSKIRTLCTYPFAQHGRTLLVRAAAAGDTTKAAVAAQMKQNWLDSLTFPPLHVHDLTANQTNADSQWALGIDPDLSGALAVLKSDHNGCSaevfdtphlpvlvgKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVFTCR
Low Complexity Region (SEG)
METTVKIQPQLQSHCISMNTFVSSKIRTLCTYPFAQHGRTLLVRaaaagdttkaavaaQMKQNWLDSLTFPPLHVHDLTANQTNADSQWALGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVFTCR
Disordered region (IsUnstruct)
***********QSHCISMNTFVSSKIRTLCTYPFAQHGRTLLVRAAAAGDTTKAAVAAQMKQNWLDSLTFPPLHVHDLTANQTNADSQWALGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVFTC*
Disordered Region (DISOPRED)
********PQLQSHCISMNTFVSSKIR********************************MKQNWLDSLTF*************NADSQWALGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGL**********NTLILSVFTCR
Disordered Region (DISEMBL)
METTVKIQPQLQSHCISMNTFVSSKIRTLCTYPFAQHGRTLLVRAAA**********AQMKQNWLDSLTFPPLHVHDLTANQTNADSQWALGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVFTCR
Disordered Region (DISPRO)
*ETTVKIQPQLQSHCISMNTFVSSKIRTLCTYPFAQHG*T**************AVAAQMKQNWLDSLTFPPLHVHDLTAN*TNADSQWALGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVFTCR
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooHHHHHHHHHHHHHHHHHHHHHHHii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHHooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHHHHiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
METTVKIQPQLQSHCISMNTFVSSKIRTLCTYPFAQHGRTLLVRAAAAGDTTKAAVAAQMKQNWLDSLTFPPLHVHDLTANQTNADSQWALGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVFTCR
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	225
224105997	235	predicted protein [Populus trichocarpa]	0.711	0.680	0.670	3e-60
255580004	280	conserved hypothetical protein [Ricinus	0.706	0.567	0.658	4e-58
359479130	261	PREDICTED: uncharacterized protein LOC10	0.96	0.827	0.506	5e-56
225435862	291	PREDICTED: uncharacterized protein LOC10	0.924	0.714	0.515	1e-55
356528579	274	PREDICTED: uncharacterized protein LOC10	0.706	0.580	0.620	2e-53
296083889	192	unnamed protein product [Vitis vinifera]	0.595	0.697	0.708	5e-52
30683279	273	uncharacterized protein [Arabidopsis tha	0.897	0.739	0.532	3e-50
356555307	290	PREDICTED: uncharacterized protein LOC10	0.746	0.579	0.582	7e-50
3426042	286	unknown protein [Arabidopsis thaliana]	0.897	0.706	0.502	1e-47
297825913	287	hypothetical protein ARALYDRAFT_320472 [	0.897	0.703	0.495	2e-47

>gi|224105997|ref|XP_002314007.1| predicted protein [Populus trichocarpa] gi|222850415|gb|EEE87962.1| predicted protein [Populus trichocarpa]

 Score =  237 bits (605), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 114/170 (67%), Positives = 134/170 (78%), Gaps = 10/170 (5%)

Query: 53  KAAVAAQMKQNWLDSLTFP--------PLHVHDLTANQTNADSQWALGIDPDLSGALAVL 104
           K A  AQ+KQNWLDSLTFP         L   DL  N  N  S W +G+DPD+SGALA+L
Sbjct: 67  KVADVAQLKQNWLDSLTFPLPNETENTNLGGDDLARN--NVGSNWVIGVDPDVSGALALL 124

Query: 105 KSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQD 164
           K D +GCSA+VFD+PHL V+VGK +RKRLD KS++ L+RS DAPIGTTAYVEQS P+PQD
Sbjct: 125 KIDESGCSAQVFDSPHLKVMVGKGIRKRLDVKSIVQLIRSFDAPIGTTAYVEQSTPFPQD 184

Query: 165 GKQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCI 214
           GKQGWWSGGFGYGLWIG+LVASGFSVVP+PS+TWK+   L+GG  TKVC+
Sbjct: 185 GKQGWWSGGFGYGLWIGVLVASGFSVVPVPSMTWKSDLELAGGRCTKVCV 234

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255580004|ref|XP_002530836.1| conserved hypothetical protein [Ricinus communis] gi|223529600|gb|EEF31549.1| conserved hypothetical protein [Ricinus communis]

 Score =  230 bits (586), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 110/167 (65%), Positives = 135/167 (80%), Gaps = 8/167 (4%)

Query: 52  TKAAVAAQMKQNWLDSLTFPPLHVHDLTANQ-------TNADSQWALGIDPDLSGALAVL 104
           ++A VA Q+K+NWL SL+ P  +  + +A++       +N  S W +GIDPDLSGALA+L
Sbjct: 62  SEAEVARQLKENWLHSLSCP-FNQTESSASKGVDSTAPSNVGSNWVIGIDPDLSGALALL 120

Query: 105 KSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQD 164
           K D +GCSA+VFD+PHL VLVGKR+RKRLDAKS++ LL S DAP+GTTAY+EQSIP+PQD
Sbjct: 121 KIDDSGCSAQVFDSPHLKVLVGKRIRKRLDAKSIVQLLHSFDAPLGTTAYIEQSIPFPQD 180

Query: 165 GKQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTK 211
           GKQGWWSGGFGYGLWIGILVASGFSVVP+PSL WKN + LSG   +K
Sbjct: 181 GKQGWWSGGFGYGLWIGILVASGFSVVPVPSLAWKNVFELSGSKFSK 227

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359479130|ref|XP_003632222.1| PREDICTED: uncharacterized protein LOC100242692 isoform 2 [Vitis vinifera]

 Score =  223 bits (568), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 115/227 (50%), Positives = 152/227 (66%), Gaps = 11/227 (4%)

Query: 1   METTVKIQPQLQSHCISMNTFVSSKIRTLCTY---PFAQHGRTLLVRAAAAGDTTKAAVA 57
           M    KI P+L         F ++ + +  T+   P      T+L    ++G        
Sbjct: 18  MNPISKITPKLALSAPKFRVFCATSLNSTNTHDPIPAPSSTDTVL---RSSGKARARVSD 74

Query: 58  AQMKQNWLDSLTFPPLHVHD-----LTANQTNADSQWALGIDPDLSGALAVLKSDHNGCS 112
            Q ++NWL SL+ P    ++     + + ++NA +Q  +GIDPD+SGALA+LK+  +GCS
Sbjct: 75  TQYRENWLASLSCPFPDENERPGIRMDSAESNAGTQCVIGIDPDISGALALLKTGDSGCS 134

Query: 113 AEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSG 172
           A+VFD+PHL +LVGKRVRKRLDAKS++ LLR  DAPIGT AY+EQSIP+PQDGKQGWWSG
Sbjct: 135 AQVFDSPHLQILVGKRVRKRLDAKSIVQLLRGFDAPIGTIAYIEQSIPFPQDGKQGWWSG 194

Query: 173 GFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLIL 219
           GFGYGLWIGILVASGFSVVP+PS  WKN + LSG  ++KV ++   L
Sbjct: 195 GFGYGLWIGILVASGFSVVPVPSSLWKNEFKLSGNGTSKVFLSIFPL 241

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225435862|ref|XP_002263460.1| PREDICTED: uncharacterized protein LOC100242692 isoform 1 [Vitis vinifera]

 Score =  221 bits (564), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 113/219 (51%), Positives = 148/219 (67%), Gaps = 11/219 (5%)

Query: 1   METTVKIQPQLQSHCISMNTFVSSKIRTLCTY---PFAQHGRTLLVRAAAAGDTTKAAVA 57
           M    KI P+L         F ++ + +  T+   P      T+L    ++G        
Sbjct: 18  MNPISKITPKLALSAPKFRVFCATSLNSTNTHDPIPAPSSTDTVL---RSSGKARARVSD 74

Query: 58  AQMKQNWLDSLTFPPLHVHD-----LTANQTNADSQWALGIDPDLSGALAVLKSDHNGCS 112
            Q ++NWL SL+ P    ++     + + ++NA +Q  +GIDPD+SGALA+LK+  +GCS
Sbjct: 75  TQYRENWLASLSCPFPDENERPGIRMDSAESNAGTQCVIGIDPDISGALALLKTGDSGCS 134

Query: 113 AEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSG 172
           A+VFD+PHL +LVGKRVRKRLDAKS++ LLR  DAPIGT AY+EQSIP+PQDGKQGWWSG
Sbjct: 135 AQVFDSPHLQILVGKRVRKRLDAKSIVQLLRGFDAPIGTIAYIEQSIPFPQDGKQGWWSG 194

Query: 173 GFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTK 211
           GFGYGLWIGILVASGFSVVP+PS  WKN + LSG  ++K
Sbjct: 195 GFGYGLWIGILVASGFSVVPVPSSLWKNEFKLSGNGTSK 233

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356528579|ref|XP_003532877.1| PREDICTED: uncharacterized protein LOC100775189 [Glycine max]

 Score =  214 bits (545), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 103/166 (62%), Positives = 129/166 (77%), Gaps = 7/166 (4%)

Query: 53  KAAVAAQMKQNWLDSLTFP-PLHVHDLTANQT----NADSQWALGIDPDLSGALAVLKSD 107
           KA+   Q K+NWL SL++P P   H L+        N  S+W LGIDPD+SGA+A+LK+ 
Sbjct: 52  KASSDTQFKENWLASLSYPFPEKTHLLSGEHEPTHQNDGSKWVLGIDPDVSGAVALLKTH 111

Query: 108 HNGCSAEVFDTPHLPVLVGK--RVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDG 165
            + CSA+VFD+PH+ +LVGK  R R+RLDAKS++ L+R  DAPIGTTA++EQS+PYPQDG
Sbjct: 112 GSVCSAQVFDSPHVKILVGKNKRTRRRLDAKSVVELVRGFDAPIGTTAFIEQSLPYPQDG 171

Query: 166 KQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTK 211
           KQGWWSGGFGYGLWIGILVASGFSV+P+PS TWK  + LSG  +TK
Sbjct: 172 KQGWWSGGFGYGLWIGILVASGFSVIPVPSFTWKAKFELSGNGTTK 217

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296083889|emb|CBI24277.3| unnamed protein product [Vitis vinifera]

 Score =  209 bits (533), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 95/134 (70%), Positives = 116/134 (86%)

Query: 78  LTANQTNADSQWALGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKS 137
           + + ++NA +Q  +GIDPD+SGALA+LK+  +GCSA+VFD+PHL +LVGKRVRKRLDAKS
Sbjct: 1   MDSAESNAGTQCVIGIDPDISGALALLKTGDSGCSAQVFDSPHLQILVGKRVRKRLDAKS 60

Query: 138 MIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFGYGLWIGILVASGFSVVPIPSLT 197
           ++ LLR  DAPIGT AY+EQSIP+PQDGKQGWWSGGFGYGLWIGILVASGFSVVP+PS  
Sbjct: 61  IVQLLRGFDAPIGTIAYIEQSIPFPQDGKQGWWSGGFGYGLWIGILVASGFSVVPVPSSL 120

Query: 198 WKNWYGLSGGTSTK 211
           WKN + LSG  ++K
Sbjct: 121 WKNEFKLSGNGTSK 134

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30683279|ref|NP_180252.2| uncharacterized protein [Arabidopsis thaliana] gi|26452962|dbj|BAC43557.1| unknown protein [Arabidopsis thaliana] gi|28973431|gb|AAO64040.1| unknown protein [Arabidopsis thaliana] gi|330252802|gb|AEC07896.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  204 bits (518), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 115/216 (53%), Positives = 143/216 (66%), Gaps = 14/216 (6%)

Query: 1   METTVKIQ---PQLQSHCISMNTFVSSKIRTLCTYPFAQHGRTLLVRAAAAGDTTKAAVA 57
           M TTV  Q   PQ+ S    +  F+S       T PF +  R+    A     TTKA  A
Sbjct: 1   MATTVYGQASLPQMHSLFSKVRPFLSHSPS--FTAPFTRR-RSFPFSALP---TTKAIDA 54

Query: 58  AQMKQNWLDSLTFPPLHVHDLTANQTNADSQWALGIDPDLSGALAVLKSDHNGCS--AEV 115
           A MK+ WLDSL+   L   D      NA+S   +GIDPDLSGALA+LK DH G S  A+V
Sbjct: 55  ALMKEKWLDSLS---LTSQDEDTTPENAESSCIIGIDPDLSGALALLKFDHLGSSSFAQV 111

Query: 116 FDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFG 175
           +DTPH+PVLVGKRVRKRLDAKS++ L++SLD P G+  Y+EQS P+P+DGKQGW+SGGFG
Sbjct: 112 YDTPHIPVLVGKRVRKRLDAKSIVQLIQSLDVPSGSRVYIEQSNPFPKDGKQGWYSGGFG 171

Query: 176 YGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTK 211
           YGLWIG LVASGF V+P+ +  WK  + L+ G+ TK
Sbjct: 172 YGLWIGTLVASGFCVIPVSASLWKRHFQLASGSCTK 207

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356555307|ref|XP_003545975.1| PREDICTED: uncharacterized protein LOC100790125 [Glycine max]

 Score =  202 bits (514), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 102/175 (58%), Positives = 126/175 (72%), Gaps = 7/175 (4%)

Query: 55  AVAAQMKQNWLDSLTFP-PLHVHDLTANQT----NADSQWALGIDPDLSGALAVLKSDHN 109
           A   Q K+NWL SL+ P P   H L         N  S+W LGIDPD+SGA+A+LK+  +
Sbjct: 70  ASDTQFKENWLASLSNPFPEKTHLLNGEHEPTHQNDGSKWVLGIDPDVSGAVALLKTHGS 129

Query: 110 GCSAEVFDTPHLPVLVGKR--VRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQ 167
            CSA+VFD+PH+ +LVGK    R+RLDAKS++ L+    APIGTTAY+EQS+PYPQDGKQ
Sbjct: 130 VCSAQVFDSPHVKILVGKNKTTRRRLDAKSVVELVCGFRAPIGTTAYIEQSLPYPQDGKQ 189

Query: 168 GWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVF 222
           GWWSGGFGYGLWIGILVASGFSV+P+PS TWK  + LSG  +TK     L  ++F
Sbjct: 190 GWWSGGFGYGLWIGILVASGFSVIPVPSFTWKAKFKLSGNGTTKDDSRRLASTLF 244

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3426042|gb|AAC32241.1| unknown protein [Arabidopsis thaliana]

 Score =  195 bits (495), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 115/229 (50%), Positives = 143/229 (62%), Gaps = 27/229 (11%)

Query: 1   METTVKIQ---PQLQSHCISMNTFVSSKIRTLCTYPFAQHGRTLLVRAAAAGDTTKAAVA 57
           M TTV  Q   PQ+ S    +  F+S       T PF +  R+    A     TTKA  A
Sbjct: 1   MATTVYGQASLPQMHSLFSKVRPFLSHSPS--FTAPFTRR-RSFPFSALP---TTKAIDA 54

Query: 58  AQMKQNWLDSLTFPPLHVHDLTANQTNADSQWALGIDPDLSGALAVLKSDHNGCS--AEV 115
           A MK+ WLDSL+   L   D      NA+S   +GIDPDLSGALA+LK DH G S  A+V
Sbjct: 55  ALMKEKWLDSLS---LTSQDEDTTPENAESSCIIGIDPDLSGALALLKFDHLGSSSFAQV 111

Query: 116 FDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQ-------- 167
           +DTPH+PVLVGKRVRKRLDAKS++ L++SLD P G+  Y+EQS P+P+DGKQ        
Sbjct: 112 YDTPHIPVLVGKRVRKRLDAKSIVQLIQSLDVPSGSRVYIEQSNPFPKDGKQVYATAHIR 171

Query: 168 -----GWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTK 211
                GW+SGGFGYGLWIG LVASGF V+P+ +  WK  + L+ G+ TK
Sbjct: 172 FSSAMGWYSGGFGYGLWIGTLVASGFCVIPVSASLWKRHFQLASGSCTK 220

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297825913|ref|XP_002880839.1| hypothetical protein ARALYDRAFT_320472 [Arabidopsis lyrata subsp. lyrata] gi|297326678|gb|EFH57098.1| hypothetical protein ARALYDRAFT_320472 [Arabidopsis lyrata subsp. lyrata]

 Score =  194 bits (493), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 114/230 (49%), Positives = 143/230 (62%), Gaps = 28/230 (12%)

Query: 1   METTVKIQPQL-QSHCISMNTFVSSKIR---TLCTYPFAQHGRTLLVRAAAAGDTTKAAV 56
           M TT   QP L Q H +       SK+R   +L +  F    R     + +A  TTKA  
Sbjct: 1   MATTAYGQPSLPQMHSLF------SKLRPFLSLSSPSFTAPFRRRRDFSFSALPTTKAID 54

Query: 57  AAQMKQNWLDSLTFPPLHVHDLTANQTNADSQWALGIDPDLSGALAVLKSDHNGCS--AE 114
            A MK+ WLDSL+   L   D      NA+S   +GIDPDLSGALA+LK DH G S  A+
Sbjct: 55  VALMKEKWLDSLS---LTSQDEDTTPENAESSCVIGIDPDLSGALALLKFDHLGSSSSAQ 111

Query: 115 VFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQ------- 167
           V+DTPH+PVLVGKRVRKRLDAKS++ L++SLD P G+  Y+EQS P+P+DGKQ       
Sbjct: 112 VYDTPHIPVLVGKRVRKRLDAKSIVQLIQSLDVPSGSRVYIEQSNPFPKDGKQVYATTHI 171

Query: 168 ------GWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTK 211
                 GW+SGGFGYGLWIG LVASGF V+P+ +  WK  + L+ G+ TK
Sbjct: 172 HFSSVMGWYSGGFGYGLWIGTLVASGFCVIPVSASLWKRHFQLASGSCTK 221

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	225
TAIR|locus:2097129	195	AT3G43910 "AT3G43910" [Arabido	0.617	0.712	0.418	3e-21
TAIR|locus:2097124	84	AT3G43900 "AT3G43900" [Arabido	0.24	0.642	0.473	3e-06

TAIR|locus:2097129 AT3G43910 "AT3G43910" [Arabidopsis thaliana (taxid:3702)]

 Score = 249 (92.7 bits), Expect = 3.0e-21, P = 3.0e-21
 Identities = 62/148 (41%), Positives = 88/148 (59%)

Query:    60 MKQNWLDSLTFPPLHVHDLTANQTNADSQWALGIDPDLSGALAVLKSDHNG-CSAEVFDT 118
             MKQ  L+ L+    +  ++   Q N    W +GIDP+LSGALAVLK D  G C A+V+DT
Sbjct:     1 MKQKSLNPLSSSSPNYDEMI--QENFKPHWIIGIDPNLSGALAVLKFDDKGSCFAQVYDT 58

Query:   119 PHLPVLVGKRVRKR-LDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFGYG 177
             P L V+V + +R R  + KSM+ L+RSLD P GT A+V + I +P++    + + G G G
Sbjct:    59 PQLEVVV-QNIRTRSFNEKSMLELIRSLDVPSGTKAFVAKYI-HPENAITAY-NDGLGCG 115

Query:   178 LWIGILVASGFSVVPIPSLTWKNWYGLS 205
             LW   L+ S  SV+ +   TW   + LS
Sbjct:   116 LWT--LLTSSISVIYVTPSTWDKHFNLS 141

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2097124 AT3G43900 "AT3G43900" [Arabidopsis thaliana (taxid:3702)]

 Score = 110 (43.8 bits), Expect = 3.0e-06, P = 3.0e-06
 Identities = 27/57 (47%), Positives = 35/57 (61%)

Query:    60 MKQNWLDSLTFPPLHVHDLTANQTNADSQWALGIDPDLSGALAVLKSDHNG-CSAEV 115
             MKQ  L+ L+    +  ++   Q N    W +GIDP+LSGALAVLK D  G CSA+V
Sbjct:    27 MKQKLLNPLSSSSPNYDEMI--QENFKPHWIIGIDPNLSGALAVLKFDDKGSCSAQV 81


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.321   0.135   0.435    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      225       211   0.00081  112 3  11 22  0.48    32
                                                     31  0.48    35


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  618 (66 KB)
  Total size of DFA:  198 KB (2111 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  17.24u 0.17s 17.41t   Elapsed:  00:00:01
  Total cpu time:  17.24u 0.17s 17.41t   Elapsed:  00:00:01
  Start:  Fri May 10 07:54:37 2013   End:  Fri May 10 07:54:38 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: grail3.0001085402 hypothetical protein (235 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	225
PF02075	149	RuvC: Crossover junction endodeoxyribonuclease Ruv	99.21
PRK00039	164	ruvC Holliday junction resolvase; Reviewed	98.92
cd00529	154	RuvC_resolvase Holliday junction resolvases (HJRs)	98.69
TIGR00228	156	ruvC crossover junction endodeoxyribonuclease RuvC	98.41
PF04312	138	DUF460: Protein of unknown function (DUF460); Inte	97.08
COG2433	652	Uncharacterized conserved protein [Function unknow	96.66
COG0817	160	RuvC Holliday junction resolvasome, endonuclease s	95.32
PF01548	144	DEDD_Tnp_IS110: Transposase; InterPro: IPR002525 T	95.29
PF07066	159	DUF3882: Lactococcus phage M3 protein; InterPro: I	94.95
PF04848	143	Pox_A22: Poxvirus A22 protein; InterPro: IPR006932	92.46
PF11215	138	DUF3010: Protein of unknown function (DUF3010); In	86.48
smart00732	99	YqgFc Likely ribonuclease with RNase H fold. YqgF	84.95

>PF02075 RuvC: Crossover junction endodeoxyribonuclease RuvC; InterPro: IPR002176 The Escherichia coli ruvC gene is involved in DNA repair and in the late step of RecE and RecF pathway recombination []

Probab=99.21  E-value=2.5e-11  Score=99.43  Aligned_cols=125  Identities=19%  Similarity=0.269  Sum_probs=87.1

Q ss_pred             EEEECCCCC-ceEEEEecCCCCceeeeeeCCCcccccccccccccC--HHHHHHHHHhcCCCCCcEEEEeecccCCCCCc
Q 027274           90 ALGIDPDLS-GALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLD--AKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGK  166 (225)
Q Consensus        90 IIGIDPG~s-GALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlD--aksl~~lLr~l~~P~gt~a~lEkv~~mPgqGv  166 (225)
                      |+|||||++ -+.||++.++.  .++.+|.-+++..-....-.||.  .+.+.++|+.+. |  ..++||++  |-++..
T Consensus         1 ILGIDPgl~~tG~avi~~~~~--~~~~i~~G~I~t~~~~~~~~Rl~~I~~~l~~li~~~~-P--~~vaiE~~--f~~~n~   73 (149)
T PF02075_consen    1 ILGIDPGLSNTGYAVIEEDGG--KLRLIDYGTIKTSSKDSLPERLKEIYEELEELIEEYN-P--DEVAIEEI--FFGKNP   73 (149)
T ss_dssp             EEEEE--SSEEEEEEEEEETT--EEEEEEEEEEE---S--HHHHHHHHHHHHHHHHHHH-----SEEEEEE---S----H
T ss_pred             CEEECCCCCCeeEEEEEeeCC--EEEEEEeCeEECCCCCCHHHHHHHHHHHHHHHHHhhC-C--CEEEeehh--hhccCH
Confidence            799999998 89999998653  67788887776432222334554  567777888777 4  78999996  567789


Q ss_pred             ceeecccchhHHHHHHHHHhCCeeeEeCchhhHhHh-CCCCCCCchhhHHHhhhhccc
Q 027274          167 QGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWY-GLSGGTSTKVCINTLILSVFT  223 (225)
Q Consensus       167 qS~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~-gL~~~gstKd~Sr~~A~~lfp  223 (225)
                      +|++..|+..|++.-++...|+|+..++|++||+.. |-  +..+|+.-..+-.++|.
T Consensus        74 ~s~~~l~~arGvi~l~~~~~~i~v~~y~P~~vKk~vtG~--G~A~KeqV~~mv~~ll~  129 (149)
T PF02075_consen   74 KSALKLGQARGVILLAAAQRGIPVFEYTPSEVKKAVTGN--GRASKEQVAFMVRKLLG  129 (149)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTT--EEEEEHHHHHHHHTSS--TT--HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCeEEEECHHHHHHHhhCC--CccCHHHHHHHHHHHhC
Confidence            999999999999999999999999999999999986 44  46778877777776664

RuvC protein (3.1.22.4 from EC) cleaves cruciform junctions, which are formed by the extrusion of inverted repeat sequences from a super-coiled plasmid and which are structurally analogous to Holliday junctions, by introducing nicks into strands with the same polarity. The nicks leave a 5'terminal phosphate and a 3'terminal hydroxyl group which are ligated by E. coli or Bacteriophage T4 DNA ligases. Analysis of the cleavage sites suggests that DNA topology rather than a particular sequence determines the cleavage site. RuvC protein also cleaves Holliday junctions that are formed between gapped circular and linear duplex DNA by the function of RecA protein. The active form of RuvC protein is a dimer. This is mechanistically suited for an endonuclease involved in swapping DNA strands at the crossover junctions. It is inferred that RuvC protein is an endonuclease that resolves Holliday structures in vivo []. RucC is a small protein of about 20 kD. It requires and binds a magnesium ion. The structure of E. coli ruvC is a 3-layer alpha-beta sandwich containing a 5-stranded beta-sheet sandwiched between 5 alpha-helices [].; GO: 0004520 endodeoxyribonuclease activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1HJR_A.

>PRK00039 ruvC Holliday junction resolvase; Reviewed

Probab=98.92  E-value=5.9e-09  Score=87.32  Aligned_cols=126  Identities=17%  Similarity=0.245  Sum_probs=86.0

Q ss_pred             cEEEECCCC-CceEEEEecCCCCceeeeeeCCCcccccccccccccC--HHHHHHHHHhcCCCCCcEEEEeecccCCCCC
Q 027274           89 WALGIDPDL-SGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLD--AKSMIMLLRSLDAPIGTTAYVEQSIPYPQDG  165 (225)
Q Consensus        89 ~IIGIDPG~-sGALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlD--aksl~~lLr~l~~P~gt~a~lEkv~~mPgqG  165 (225)
                      .|+|||||+ +=+.|+++.+++  ...++|.=+++..-..-.-.|+-  ...+.++|..+. |  ..++||+.- | +++
T Consensus         3 ~iLGIDPgl~~tG~avi~~~~~--~~~~~~~G~i~t~~~~~~~~Rl~~I~~~l~~~i~~~~-P--d~vaiE~~f-~-~~n   75 (164)
T PRK00039          3 RILGIDPGLRRTGYGVIEVEGR--RLSYVASGVIRTPSDLDLPERLKQIYDGLSELIDEYQ-P--DEVAIEEVF-F-NKN   75 (164)
T ss_pred             EEEEEccccCceeEEEEEecCC--eEEEEEeeEEECCCCCCHHHHHHHHHHHHHHHHHHhC-C--CEEEEehhh-h-ccC
Confidence            589999997 668999998754  35555544332110000011211  144555555554 4  788999974 2 356


Q ss_pred             cceeecccchhHHHHHHHHHhCCeeeEeCchhhHhHhCCCCCCCchhhHHHhhhhcc
Q 027274          166 KQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVF  222 (225)
Q Consensus       166 vqS~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~gL~~~gstKd~Sr~~A~~lf  222 (225)
                      .+|++.+|+.+|++...|...|+|++.++|.+||++. .-++..+|+.-..+..+++
T Consensus        76 ~~sa~~l~~arGvi~la~~~~~ipv~ey~P~~VKk~v-tG~G~A~K~qV~~mv~~~l  131 (164)
T PRK00039         76 PQSALKLGQARGVAILAAAQRGLPVAEYTPLQVKKAV-VGYGRADKEQVQHMVKRLL  131 (164)
T ss_pred             hHHHHHHHHHHHHHHHHHHHcCCCEEEECHHHhhhhh-cCCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999999999999999999987 2124567776666665554

>cd00529 RuvC_resolvase Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination

Probab=98.69  E-value=5.5e-08  Score=79.67  Aligned_cols=125  Identities=15%  Similarity=0.216  Sum_probs=83.4

Q ss_pred             cEEEECCCC-CceEEEEecCCCCceeeeeeCCCccccccccccccc--CHHHHHHHHHhcCCCCCcEEEEeecccCCCCC
Q 027274           89 WALGIDPDL-SGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRL--DAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDG  165 (225)
Q Consensus        89 ~IIGIDPG~-sGALAvL~~~~~~~~~~V~DmPt~~v~vg~~~Rkrl--Daksl~~lLr~l~~P~gt~a~lEkv~~mPgqG  165 (225)
                      .|+|||||+ +=+.|+++.+++  ..+++|.=++...-..-.-.|+  =...+.+++..+. |  +.++||+.- |.. +
T Consensus         1 rILGIDPGl~~~G~av~~~~~~--~~~~~~~g~i~t~~~~~~~~rl~~I~~~l~~~i~~~~-P--d~vaiE~~~-~~~-n   73 (154)
T cd00529           1 RILGIDPGSRNTGYGVIEQEGR--KLIYLASGVIRTSSDAPLPSRLKTIYDGLNEVIDQFQ-P--DVVAIERVF-FAK-N   73 (154)
T ss_pred             CEEEEccCcCceEEEEEEeeCC--eEEEEEeeEEECCCCCCHHHHHHHHHHHHHHHHHHhC-C--CEEEEEEhh-ccc-C
Confidence            389999999 458999987653  4444444333211000000111  1234444554444 5  699999874 233 4


Q ss_pred             cceeecccchhHHHHHHHHHhCCeeeEeCchhhHhHh-CCCCCCCchhhHHHhhhhcc
Q 027274          166 KQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWY-GLSGGTSTKVCINTLILSVF  222 (225)
Q Consensus       166 vqS~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~-gL~~~gstKd~Sr~~A~~lf  222 (225)
                      ..+.+..|..+|++..+|...|+|++.++|.++|++. |-  ++.+|+....+...++
T Consensus        74 ~~s~~~l~~~~Gvi~~~~~~~~i~v~e~~P~~vKk~~tG~--G~A~KeqV~~mv~~~l  129 (154)
T cd00529          74 PDSALKLGQARGALILALANRNLPVFEYTPNQVKKAVTGY--GKADKDQVQHMVKRLL  129 (154)
T ss_pred             hHHHHHHHHHHHHHHHHHHHcCCCEEEEccCeeEEEEECC--CCCCHHHHHHHHHHHh
Confidence            6788899999999999999999999999999999998 32  4667777666665554

HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes only the bacterial and mitochondrial HJR's. These are referred to as the RuvC family of Holliday junction resolvases, RuvC being the E.coli HJR. RuvC and its orthologs are homodimers and are structurely similar to RNase H and Hsp70.

>TIGR00228 ruvC crossover junction endodeoxyribonuclease RuvC

Probab=98.41  E-value=1.1e-06  Score=74.03  Aligned_cols=124  Identities=15%  Similarity=0.168  Sum_probs=86.3

Q ss_pred             EEEECCCCCc-eEEEEecCCCCceeeeeeCCCccccccccccccc--CHHHHHHHHHhcCCCCCcEEEEeecccCCCCCc
Q 027274           90 ALGIDPDLSG-ALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRL--DAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGK  166 (225)
Q Consensus        90 IIGIDPG~sG-ALAvL~~~~~~~~~~V~DmPt~~v~vg~~~Rkrl--Daksl~~lLr~l~~P~gt~a~lEkv~~mPgqGv  166 (225)
                      |||||||++. +.+|++..++  ...++|.=++... ....-.||  =...+.++|..+. |  ..+.||++-  =....
T Consensus         1 ILGIDPGl~~tG~gvi~~~~~--~~~~v~~G~I~t~-~~~~~~RL~~I~~~l~~~i~~y~-P--~~~aiE~~F--~~~N~   72 (156)
T TIGR00228         1 ILGIDPGSRVTGYGVIRQVGR--QLSYLGSGCIRTK-VDDLPSRLKLIYAGVTEIITQFQ-P--NYFAIEQVF--MAKNA   72 (156)
T ss_pred             CEeECcccccccEEEEEecCC--eEEEEEeeEEECC-CCCHHHHHHHHHHHHHHHHHHhC-C--CEEEEeHHh--hccCH
Confidence            6999999976 6889887654  3455554444211 00111122  2345666666666 5  688999984  22478


Q ss_pred             ceeecccchhHHHHHHHHHhCCeeeEeCchhhHhHhCCCCCCCchhhHHHhhhhcc
Q 027274          167 QGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVF  222 (225)
Q Consensus       167 qS~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~gL~~~gstKd~Sr~~A~~lf  222 (225)
                      +|++..|+..|++.=.+...|+|++..+|.++|+.. .-++..+|+.-..|..+++
T Consensus        73 ~sa~~lg~arGvilla~~~~~ipv~Ey~P~~vKkav-tG~G~A~KeQV~~mV~~lL  127 (156)
T TIGR00228        73 DSALKLGQARGVAIVAAVNQELPVFEYAARQVKQTV-VGIGSAEKSQVQHMVRRLL  127 (156)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEECHHHHHHHh-cCCCCCCHHHHHHHHHHHc
Confidence            899999999999999999999999999999999987 2124566776666666555

Endonuclease that resolves Holliday junction intermediates in genetic recombination. The active form of the protein is a dimer. Structure studies reveals that the catalytic center, comprised of four acidic residues, lies at the bottom of a cleft that fits a DNA duplex. The model hits a single Synechocystis PCC6803 protein at a score of 30, below the trusted cutoff, that appears orthologous and may act as authentic RuvC.

>PF04312 DUF460: Protein of unknown function (DUF460); InterPro: IPR007408 This is an archaeal protein of unknown function

Probab=97.08  E-value=0.0016  Score=54.67  Aligned_cols=61  Identities=20%  Similarity=0.378  Sum_probs=48.8

Q ss_pred             CCccEEEECCCCCceEEEEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCCC
Q 027274           86 DSQWALGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQ  163 (225)
Q Consensus        86 ~~~~IIGIDPG~sGALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPg  163 (225)
                      ....|+|||||.+=|||+|+-+|.     ++++=..         |.+|-..++++|.+++.|   +++---|++||.
T Consensus        30 ~~~lIVGiDPG~ttgiAildL~G~-----~l~l~S~---------R~~~~~evi~~I~~~G~P---viVAtDV~p~P~   90 (138)
T PF04312_consen   30 RRYLIVGIDPGTTTGIAILDLDGE-----LLDLKSS---------RNMSRSEVIEWISEYGKP---VIVATDVSPPPE   90 (138)
T ss_pred             CCCEEEEECCCceeEEEEEecCCc-----EEEEEee---------cCCCHHHHHHHHHHcCCE---EEEEecCCCCcH
Confidence            445799999999999999999984     4444333         778999999999999864   556667788885

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=96.66  E-value=0.0036  Score=63.02  Aligned_cols=103  Identities=17%  Similarity=0.229  Sum_probs=71.2

Q ss_pred             cEEEECCCCCceEEEEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCCCCCcce
Q 027274           89 WALGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQG  168 (225)
Q Consensus        89 ~IIGIDPG~sGALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPgqGvqS  168 (225)
                      .|+|||||++=|||+|+-+|     +|+|+-..         |-+|...+++++.+++.|   +++-=-|++||+     
T Consensus       245 lIVGIDPGiTtgiAvldldG-----evl~~~S~---------r~~~~~eVve~I~~lG~P---vvVAtDVtp~P~-----  302 (652)
T COG2433         245 LIVGIDPGITTGIAVLDLDG-----EVLDLESR---------RGIDRSEVVEFISELGKP---VVVATDVTPAPE-----  302 (652)
T ss_pred             eEEEeCCCceeeEEEEecCC-----cEEeeecc---------ccCCHHHHHHHHHHcCCc---eEEEccCCCChH-----
Confidence            68999999999999999998     57777655         789999999999999975   556667899997     


Q ss_pred             eecccchhHHHHHHHHHhCCeeeEeC-----chhhH--hHhCCCCCCCchhhHHHhhhhcc
Q 027274          169 WWSGGFGYGLWIGILVASGFSVVPIP-----SLTWK--NWYGLSGGTSTKVCINTLILSVF  222 (225)
Q Consensus       169 ~fsfG~gyGlw~GVL~A~Gipvv~Vt-----Pq~WK--k~~gL~~~gstKd~Sr~~A~~lf  222 (225)
                               ..+=|-+.+|-..+...     --+|.  +..+++...+---|+.+-|+..|
T Consensus       303 ---------~V~KiAasf~A~ly~P~~dLsveEK~~~~r~~~~~~~ddH~RDALAAA~kAY  354 (652)
T COG2433         303 ---------TVKKIAASFNAVLYTPDRDLSVEEKQEALRTLKISVSDDHERDALAAAYKAY  354 (652)
T ss_pred             ---------HHHHHHHHcCCcccCCcccCCHHHHHHHHhhcCCCCCCchHHHHHHHHHHHH
Confidence                     33433333333322211     12455  33455544555567777777655

>COG0817 RuvC Holliday junction resolvasome, endonuclease subunit [DNA replication, recombination, and repair]

Probab=95.32  E-value=0.036  Score=47.65  Aligned_cols=123  Identities=17%  Similarity=0.225  Sum_probs=79.1

Q ss_pred             EEECCCCC-ceEEEEecCCCCceeeeeeCCCccccccccccccc--CHHHHHHHHHhcCCCCCcEEEEeecccCCCCCcc
Q 027274           91 LGIDPDLS-GALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRL--DAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQ  167 (225)
Q Consensus        91 IGIDPG~s-GALAvL~~~~~~~~~~V~DmPt~~v~vg~~~Rkrl--Daksl~~lLr~l~~P~gt~a~lEkv~~mPgqGvq  167 (225)
                      +|||||+. =+.+|++.++.  ....++.=++...-.--.-.||  =-+.+.++|..+. |  ..+.||++-  =.-..+
T Consensus         1 lGIDPGl~~~G~gvI~~~~~--~l~~v~~G~I~t~~~~~l~~RL~~l~~~l~~vl~~~~-P--~~~AIE~~F--~~kN~~   73 (160)
T COG0817           1 LGIDPGLRRTGYGVIEVEGR--QLSYLASGVIRTSSDAPLAERLKQLYDGLSEVLDEYQ-P--DEVAIEQVF--VNKNAD   73 (160)
T ss_pred             CCcCCCccccceEEEEccCC--eEEEEeeeEEecCCCccHHHHHHHHHHHHHHHHHHhC-C--CeeehhHHH--HhcChH
Confidence            69999985 46888888764  4554444333211000000111  1234445566555 4  688999982  123678


Q ss_pred             eeecccchhHHHHHHHHHhCCeeeEeCchhhHhHh-CCCCCCCchhhHHHhhhhcc
Q 027274          168 GWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWY-GLSGGTSTKVCINTLILSVF  222 (225)
Q Consensus       168 S~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~-gL~~~gstKd~Sr~~A~~lf  222 (225)
                      |....|+.-|++.=.++-.++||..-+|++=||+. |-  +.-+|+.--.|-.+++
T Consensus        74 s~lklgQARGv~~la~~~~~l~v~eY~p~~VKkavvG~--G~A~K~QVq~MV~~lL  127 (160)
T COG0817          74 SALKLGQARGVALLAAARRGLPVFEYTPNQVKKAVVGN--GKADKEQVQHMVKRLL  127 (160)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCChhhccHHHHHHHhhcC--CcccHHHHHHHHHHHh
Confidence            99999999999999999999999999998766665 54  4556665555554444

>PF01548 DEDD_Tnp_IS110: Transposase; InterPro: IPR002525 Transposase proteins are necessary for efficient DNA transposition

Probab=95.29  E-value=0.04  Score=43.15  Aligned_cols=104  Identities=17%  Similarity=0.182  Sum_probs=66.3

Q ss_pred             EEEECCCCCceEE-EEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCCCCCcce
Q 027274           90 ALGIDPDLSGALA-VLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQG  168 (225)
Q Consensus        90 IIGIDPG~sGALA-vL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPgqGvqS  168 (225)
                      +||||-+..--.+ +++..+.  ....+..++.+          -+-..+.++|..+.   ..++.+|.-+         
T Consensus         1 ~vGiDv~k~~~~v~v~~~~~~--~~~~~~~~~~~----------~~~~~l~~~l~~~~---~~~v~~E~tg---------   56 (144)
T PF01548_consen    1 FVGIDVSKDTHDVCVIDPNGE--KLRRFKFENDP----------AGLEKLLDWLASLG---PVLVVMEATG---------   56 (144)
T ss_pred             eEEEEcccCeEEEEEEcCCCc--EEEEEEEeccc----------cchhHHhhhhcccc---cccccccccc---------
Confidence            6899998775433 3444431  33333344332          11255566666553   3667777543         


Q ss_pred             eecccchhHHHHHHHHHhCCeeeEeCchhhHhHhCC--CCCCCchhhHHHhhhhcc
Q 027274          169 WWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGL--SGGTSTKVCINTLILSVF  222 (225)
Q Consensus       169 ~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~gL--~~~gstKd~Sr~~A~~lf  222 (225)
                          |+++ .|.-.|...|++|+.|.|..=|..-+.  ....++|.||+.+|.-++
T Consensus        57 ----~y~~-~l~~~L~~~g~~v~~vnp~~~~~~~~~~~~~~KtD~~DA~~ia~~~~  107 (144)
T PF01548_consen   57 ----GYWR-PLADFLQDAGIEVVVVNPLQVKRFRKSLGRRAKTDKIDARAIARLLR  107 (144)
T ss_pred             ----ccch-hhhhheeccccccccccccccccccccccccccccccchHHHHHHHh
Confidence                2333 566678889999999999876666532  567899999999997654

This entry represents the N-terminal region of the pilin gene inverting protein (PIVML) and members of the IS111A/IS1328/IS1533 family of 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

>PF07066 DUF3882: Lactococcus phage M3 protein; InterPro: IPR009773 This family consists of several Lactococcus bacteriophage 712, middle-3 (M3) proteins of around 160 residues in length

Probab=94.95  E-value=0.01  Score=50.84  Aligned_cols=67  Identities=16%  Similarity=0.226  Sum_probs=51.0

Q ss_pred             HHHHHHHHhcCCCCCcEEEEeecccCCCCCcceeecccchhHHHHHHHHHhCCeeeEeCchhhHhHhCCC
Q 027274          136 KSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLS  205 (225)
Q Consensus       136 ksl~~lLr~l~~P~gt~a~lEkv~~mPgqGvqS~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~gL~  205 (225)
                      ..|...+..++. .+-..+||+ .-|.. ..+++-+.|.-=|.+.|.|-+.-=.+++|.+++|+++...+
T Consensus        52 s~Lk~ii~~~d~-~~y~i~IE~-~vmg~-Nqqs~i~l~~~~G~iLG~l~~~~n~~~fIn~s~W~kY~lis  118 (159)
T PF07066_consen   52 SELKTIIQKYDL-KFYIIVIEK-PVMGP-NQQSSIKLGIATGIILGRLINRANGYYFINVSTWRKYWLIS  118 (159)
T ss_pred             HHHHHHHHHhCC-CcceEEEec-ccccc-cccceEEEEEEeEEEeeeeecccCcEEEecHHHhhhheeee
Confidence            334444556664 457789998 44444 78999999999999999987552379999999999999874

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The function of this family is unknown.

>PF04848 Pox_A22: Poxvirus A22 protein; InterPro: IPR006932 This family, representing the Poxvirus A22 protein, is a Holliday junction resolvase, it specifically cleaves and resolves four-way DNA Holliday junctions into linear duplex products

Probab=92.46  E-value=1.1  Score=37.62  Aligned_cols=109  Identities=15%  Similarity=0.037  Sum_probs=67.6

Q ss_pred             cEEEECCCCC-ceEEEEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCCCCCcc
Q 027274           89 WALGIDPDLS-GALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQ  167 (225)
Q Consensus        89 ~IIGIDPG~s-GALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPgqGvq  167 (225)
                      .|++||+|.. =|+|+++.++.  .+.++|.--++.....   ...-+.+   ++.    ..-.++.||+....   +. 
T Consensus         2 ii~sIDiGikNlA~~iie~~~~--~i~~~~i~~~~~~~~~---~~~~~~d---l~~----~~~d~VlIErQ~~r---~~-   65 (143)
T PF04848_consen    2 IILSIDIGIKNLAYCIIEFEGN--KIRVIDISKVDWSRDW---EYRILKD---LLK----YEADTVLIERQPPR---NP-   65 (143)
T ss_pred             eEEEEecCCCceeEEEEEcCCC--eEEEEEeccCCcccch---HHHHHHH---Hhh----ccCCEEEEecCCCC---Cc-
Confidence            4899999985 59999998764  4888888777633110   0111122   222    33489999997522   32 


Q ss_pred             eeecccchhHHHHHHHHHhCCeeeEeCchhhHhHhCCCCCCCchhhHHHhhhhcc
Q 027274          168 GWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVF  222 (225)
Q Consensus       168 S~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~gL~~~gstKd~Sr~~A~~lf  222 (225)
                       +-.   =.+.+.|-+.-.+..|+.|.|.     ++-..-..-|+.|..++.+++
T Consensus        66 -~~~---i~~fI~~~f~~~~~kv~~v~p~-----~~~~~Y~~RKk~SVe~~~~~~  111 (143)
T PF04848_consen   66 -NVK---IVHFIHGYFYIKNTKVICVSPK-----MKGWSYRERKKRSVEVFKNWI  111 (143)
T ss_pred             -chh---HHHHHHHHhccCCceEEEECcc-----cccCCHHHHHHHHHHHHHHHH
Confidence             111   2347788888889999999998     432112345667777766543

; GO: 0000287 magnesium ion binding, 0000400 four-way junction DNA binding, 0016788 hydrolase activity, acting on ester bonds, 0006281 DNA repair, 0006310 DNA recombination

>PF11215 DUF3010: Protein of unknown function (DUF3010); InterPro: IPR021378 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria

Probab=86.48  E-value=3.3  Score=35.05  Aligned_cols=99  Identities=11%  Similarity=0.021  Sum_probs=64.4

Q ss_pred             EEEECCCCCce-EEEEecCCCCceeeeeeCCCcccccccccccccCHHHHH-------HHHHhcCCCCCcEEEEeecccC
Q 027274           90 ALGIDPDLSGA-LAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMI-------MLLRSLDAPIGTTAYVEQSIPY  161 (225)
Q Consensus        90 IIGIDPG~sGA-LAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~-------~lLr~l~~P~gt~a~lEkv~~m  161 (225)
                      |+||+=-.+=| ||+|+.++.  ..++.|+-+.++.+.    +.-|..+|.       .|+..+.+  ..+|+-|+..  
T Consensus         3 vCGVELkgneaii~ll~~~~~--~~~~pdcr~~k~~l~----~~~~~~~vr~Fq~~f~kl~~dy~V--d~VvIk~R~~--   72 (138)
T PF11215_consen    3 VCGVELKGNEAIICLLSLDDG--LFQLPDCRVRKFSLS----DDNSTEEVRKFQFTFAKLMEDYKV--DKVVIKERAT--   72 (138)
T ss_pred             EEEEEEecCeEEEEEEecCCC--ceECCccceeEEEcC----CCccHHHHHHHHHHHHHHHHHcCC--CEEEEEeccc--
Confidence            67776544444 567777654  677777777777665    344555444       45555543  3677777763  


Q ss_pred             CCCCcceeecccchhHHHHHHHHHh-CCeeeEeCchhhHhHhC
Q 027274          162 PQDGKQGWWSGGFGYGLWIGILVAS-GFSVVPIPSLTWKNWYG  203 (225)
Q Consensus       162 PgqGvqS~fsfG~gyGlw~GVL~A~-Gipvv~VtPq~WKk~~g  203 (225)
                      -|+.+.|.-+|     -++|++.+. +++|.+|+|++=|..++
T Consensus        73 KGKfAGga~~F-----KmEaaIQL~~~~~V~lvs~~~ik~~lK  110 (138)
T PF11215_consen   73 KGKFAGGAVGF-----KMEAAIQLIDDVEVELVSPATIKAQLK  110 (138)
T ss_pred             CCCccCCchhH-----HHHHHHHhcCCCcEEEECHHHHHHHHh
Confidence            23333343333     578888888 99999999999998874

>smart00732 YqgFc Likely ribonuclease with RNase H fold

Probab=84.95  E-value=6.2  Score=28.63  Aligned_cols=49  Identities=24%  Similarity=0.395  Sum_probs=29.2

Q ss_pred             cEEEECCCCCc-eEEEEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcC
Q 027274           89 WALGIDPDLSG-ALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLD  146 (225)
Q Consensus        89 ~IIGIDPG~sG-ALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~  146 (225)
                      .++|||+|.+. .+|+++.++.  ..+....|+..       +..-..+.+.+++..+.
T Consensus         2 ~ilgiD~Ggt~i~~a~~d~~g~--~~~~~~~~~~~-------~~~~~~~~l~~~i~~~~   51 (99)
T smart00732        2 RVLGLDPGRKGIGVAVVDETGK--LADPLEVIPRT-------NKEADAARLKKLIKKYQ   51 (99)
T ss_pred             cEEEEccCCCeEEEEEECCCCC--EecCEEEEEec-------CcchHHHHHHHHHHHhC
Confidence            37999999766 4566665553  44444444431       12334677777777654

YqgF proteins are likely to function as an alternative to RuvC in most bacteria, and could be the principal holliday junction resolvases in low-GC Gram-positive bacteria. In Spt6p orthologues, the catalytic residues are substituted indicating that they lack enzymatic functions.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	225
1hjr_A	158	Holliday junction resolvase (RUVC); site-specific	99.38
4ep4_A	166	Crossover junction endodeoxyribonuclease RUVC; res	98.97
1vhx_A	150	Putative holliday junction resolvase; structural g	92.62

>1hjr_A Holliday junction resolvase (RUVC); site-specific recombinase; 2.50A {Escherichia coli} SCOP: c.55.3.6

Probab=99.38  E-value=9e-13  Score=108.42  Aligned_cols=125  Identities=16%  Similarity=0.193  Sum_probs=97.6

Q ss_pred             cEEEECCCCCc-eEEEEecCCCCceeeeeeCCCcccccccc--cccccCHHHHHHHHHhcCCCCCcEEEEeecccCCCCC
Q 027274           89 WALGIDPDLSG-ALAVLKSDHNGCSAEVFDTPHLPVLVGKR--VRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDG  165 (225)
Q Consensus        89 ~IIGIDPG~sG-ALAvL~~~~~~~~~~V~DmPt~~v~vg~~--~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPgqG  165 (225)
                      .|+|||||++. +.++++.+++  ..+.+|.-++... ...  .|-..-...+.++|..+. |  ..+.||++-  -..+
T Consensus         2 ~ILGIDPGl~~tG~gvi~~~g~--~~~~v~~G~i~t~-~~~~~~Rl~~i~~~l~~~i~~~~-P--d~vaiE~vf--~~~n   73 (158)
T 1hjr_A            2 IILGIDPGSRVTGYGVIRQVGR--QLSYLGSGCIRTK-VDDLPSRLKLIYAGVTEIITQFQ-P--DYFAIEQVF--MAKN   73 (158)
T ss_dssp             EEEEEECCSSEEEEEEEEEETT--EEEEEEEEEEECC-CSCHHHHHHHHHHHHHHHHHHHC-C--SEEEEEECC--CCCC
T ss_pred             EEEEEccCCCCeeEEEEEecCC--eEEEEEeeEEECC-CCCHHHHHHHHHHHHHHHHHHcC-C--CEEEEeecc--cccC
Confidence            48999999977 8999987654  5666665444322 111  223334455677787777 5  789999996  3568


Q ss_pred             cceeecccchhHHHHHHHHHhCCeeeEeCchhhHhHh-CCCCCCCchhhHHHhhhhccc
Q 027274          166 KQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWY-GLSGGTSTKVCINTLILSVFT  223 (225)
Q Consensus       166 vqS~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~-gL~~~gstKd~Sr~~A~~lfp  223 (225)
                      ++|++.+|+.+|++..+++..|+||..++|.+||++. |-  ++.+|+....+..++++
T Consensus        74 ~~s~~~lgqarGv~~~a~~~~~ipv~eytp~~vKkavtG~--G~A~K~qV~~mv~~ll~  130 (158)
T 1hjr_A           74 ADSALKLGQARGVAIVAAVNQELPVFEYAARQVKQTVVGI--GSAEKSQVQHMVRTLLK  130 (158)
T ss_dssp             TTTHHHHHHHHHHHHHHHHTTTCCEEEEEHHHHHHHHTSS--SSCCHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHHHHHHHHcCCCEEEECHHHHHHHhhCC--CCCcHHHHHHHHHHHcC
Confidence            9999999999999999999999999999999999998 55  57889999998888875

>4ep4_A Crossover junction endodeoxyribonuclease RUVC; resolvase, hydrolase; 1.28A {Thermus thermophilus} PDB: 4ep5_A

Probab=98.97  E-value=1.9e-09  Score=89.69  Aligned_cols=128  Identities=16%  Similarity=0.220  Sum_probs=91.5

Q ss_pred             cEEEECCCCC-ceEEEEecCCCC-ceeeeeeCCCcccccccc--cccccCHHHHHHHHHhcCCCCCcEEEEeecccCCCC
Q 027274           89 WALGIDPDLS-GALAVLKSDHNG-CSAEVFDTPHLPVLVGKR--VRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQD  164 (225)
Q Consensus        89 ~IIGIDPG~s-GALAvL~~~~~~-~~~~V~DmPt~~v~vg~~--~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPgq  164 (225)
                      .|+|||||++ =+.+|++.+++. .....+|+-++...-+.-  -|-..-...+.++|+.+. |  ..+.||++-  -+.
T Consensus         2 rILGIDPGl~~tG~gvi~~~g~~~~~~~~v~~G~I~t~~~~~~~~RL~~I~~~l~~~i~~~~-P--d~vaiE~~F--~~~   76 (166)
T 4ep4_A            2 VVAGIDPGITHLGLGVVAVEGKGALKARLLHGEVVKTSPQEPAKERVGRIHARVLEVLHRFR-P--EAVAVEEQF--FYR   76 (166)
T ss_dssp             EEEEEECCSSEEEEEEEEECSSSSSCEEEEEEEEEECCTTSCHHHHHHHHHHHHHHHHHHHC-C--SEEEEECCC--CSS
T ss_pred             EEEEEccccCceEEEEEEecCCccceEEEEEeCeEECCCCCCHHHHHHHHHHHHHHHHHHhC-C--CEEEEeehh--hcc
Confidence            4899999985 499999987641 023333333322110000  112222356677777777 4  788999983  345


Q ss_pred             CcceeecccchhHHHHHHHHHhCCeeeEeCchhhHhHh-CCCCCCCchhhHHHhhhhccc
Q 027274          165 GKQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWY-GLSGGTSTKVCINTLILSVFT  223 (225)
Q Consensus       165 GvqS~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~-gL~~~gstKd~Sr~~A~~lfp  223 (225)
                      +++|+...|+..|+..-++...|+|+..++|.+||++. |-  ++.+|+.-..|..++++
T Consensus        77 n~~sal~lgqarGv~~la~~~~glpv~eytP~~vKkavtG~--G~A~K~QV~~mV~~lL~  134 (166)
T 4ep4_A           77 QNELAYKVGWALGAVLVAAFEAGVPVYAYGPMQVKQALAGH--GHAAKEEVALMVRGILG  134 (166)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHHTCCEEEECHHHHHHHHHSS--TTCCHHHHHHHHHHHTT
T ss_pred             ChHHHHHHHHHHHHHHHHHHHcCCCEEEECHHHHHHHhcCC--CCCCHHHHHHHHHHHhc
Confidence            78999999999999999999999999999999999997 54  56788888888777764

>1vhx_A Putative holliday junction resolvase; structural genomics, hydrolase; 1.96A {Bacillus subtilis} SCOP: c.55.3.8

Probab=92.62  E-value=0.42  Score=38.30  Aligned_cols=100  Identities=11%  Similarity=0.066  Sum_probs=60.7

Q ss_pred             cEEEECCCCC-ceEEEEecCCCCce-eeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCCCCCc
Q 027274           89 WALGIDPDLS-GALAVLKSDHNGCS-AEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGK  166 (225)
Q Consensus        89 ~IIGIDPG~s-GALAvL~~~~~~~~-~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPgqGv  166 (225)
                      .|+|||||.. =++|+.+..+.-.. ..++..+.        .|..-+.+.|.++++.+.+   ..++||..-  -.+|.
T Consensus         4 riLGiDpG~~riGvAv~d~~g~~a~p~~~I~~~~--------~r~~~~~~~l~~li~~~~~---~~ivVGlP~--~~nGt   70 (150)
T 1vhx_A            4 RILGLDLGTKTLGVALSDEMGWTAQGIETIKINE--------AEGDYGLSRLSELIKDYTI---DKIVLGFPK--NMNGT   70 (150)
T ss_dssp             EEEEEEECSSEEEEEEECTTSSSEEEEEEEECBG--------GGTBCCHHHHHHHHTTSEE---EEEEEECCC--CBTTB
T ss_pred             EEEEEEccCCEEEEEEEECCCCEEeeEEEEEcCC--------cchHHHHHHHHHHHHHcCC---CEEEEeeee--cCCcc
Confidence            5899999985 57888887654222 33443211        1455678999999998873   667777653  33444


Q ss_pred             ceeecccchhHHHHHHHHHhCCeeeE----eCchhhHhHh
Q 027274          167 QGWWSGGFGYGLWIGILVASGFSVVP----IPSLTWKNWY  202 (225)
Q Consensus       167 qS~fsfG~gyGlw~GVL~A~Gipvv~----VtPq~WKk~~  202 (225)
                      .+ -..+..-++..-+....++||+.    -+|..=|+.+
T Consensus        71 ~~-~~~~~ar~f~~~L~~~~~lpV~~vDEr~Ts~~Ak~~l  109 (150)
T 1vhx_A           71 VG-PRGEASQTFAKVLETTYNVPVVLWDERLTTMAAEKML  109 (150)
T ss_dssp             CC-HHHHHHHHHHHHHHHHHCSCEEEECCSSCHHHHHHHH
T ss_pred             hh-HHHHHHHHHHHHHHHhhCCCEEEecCCCCHHHHHHHH
Confidence            32 22332223333334446999999    6776666655

---

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	225
d1hjra_	158	RuvC resolvase {Escherichia coli [TaxId: 562]}	98.94
d3bzka5	149	Transcriptional accessory factor Tex {Pseudomonas	96.23

>d1hjra_ c.55.3.6 (A:) RuvC resolvase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: RuvC resolvase
domain: RuvC resolvase
species: Escherichia coli [TaxId: 562]

Probab=98.94  E-value=1e-09  Score=87.36  Aligned_cols=123  Identities=16%  Similarity=0.170  Sum_probs=88.4

Q ss_pred             cEEEECCCCC-ceEEEEecCCCCceeee-----eeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCC
Q 027274           89 WALGIDPDLS-GALAVLKSDHNGCSAEV-----FDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYP  162 (225)
Q Consensus        89 ~IIGIDPG~s-GALAvL~~~~~~~~~~V-----~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mP  162 (225)
                      .|+|||||++ =+.||++.+++  ....     +..+.-+  ...|  -.-=...+.++|..+. |  ..+.||++.  -
T Consensus         2 iILGIDPGl~~~G~avid~~~~--~~~~v~~g~i~t~~~~--~~~R--l~~i~~~l~~li~~~~-P--d~vaiE~~f--~   70 (158)
T d1hjra_           2 IILGIDPGSRVTGYGVIRQVGR--QLSYLGSGCIRTKVDD--LPSR--LKLIYAGVTEIITQFQ-P--DYFAIEQVF--M   70 (158)
T ss_dssp             EEEEEECCSSEEEEEEEEEETT--EEEEEEEEEEECCCSC--HHHH--HHHHHHHHHHHHHHHC-C--SEEEEEECC--C
T ss_pred             EEEEEccCCCceEEEEEEeeCC--EEEEEEeeEEeCCCCC--hHHH--HHHHHHHHHHHHhccC-C--CEEEEEeeh--h
Confidence            5899999986 68999998764  3333     3333322  1111  1111234555666665 4  689999984  3


Q ss_pred             CCCcceeecccchhHHHHHHHHHhCCeeeEeCchhhHhHhCCCCCCCchhhHHHhhhhccc
Q 027274          163 QDGKQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVFT  223 (225)
Q Consensus       163 gqGvqS~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~gL~~~gstKd~Sr~~A~~lfp  223 (225)
                      +.+.+++...|...|.+.-++...|+|+..++|+++||+. .-+++.+|++-..+...+|+
T Consensus        71 ~~n~~sa~~l~~arG~i~l~a~~~~ipi~e~~P~~vKk~v-tG~G~A~K~qV~~mv~~~l~  130 (158)
T d1hjra_          71 AKNADSALKLGQARGVAIVAAVNQELPVFEYAARQVKQTV-VGIGSAEKSQVQHMVRTLLK  130 (158)
T ss_dssp             CCCTTTHHHHHHHHHHHHHHHHTTTCCEEEEEHHHHHHHH-TSSSSCCHHHHHHHHHHHTT
T ss_pred             ccCHHHHHHHHHHHHHHHHHHHHcCcceeecchhhhheee-cCCCCcCHHHHHHHHHHHcC
Confidence            4567888999999999999999999999999999999886 22246788888888887764

>d3bzka5 c.55.3.13 (A:325-473) Transcriptional accessory factor Tex {Pseudomonas aeruginosa [TaxId: 287]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: Tex RuvX-like domain-like
domain: Transcriptional accessory factor Tex
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=96.23  E-value=0.0046  Score=48.40  Aligned_cols=90  Identities=16%  Similarity=0.171  Sum_probs=54.1

Q ss_pred             CCCccEEEECCC-CCce-EEEEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCC
Q 027274           85 ADSQWALGIDPD-LSGA-LAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYP  162 (225)
Q Consensus        85 ~~~~~IIGIDPG-~sGA-LAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mP  162 (225)
                      ++.+.|+||||| -+|. +|+++.+|..-...++ .|+-+     ..+++-+.+.|.++++.+. |  .++.|-  +   
T Consensus         2 ~~~~~vlg~DPg~r~gck~AvlD~~G~vld~~vi-yp~~~-----~~~~~~a~~~l~~li~k~~-p--~vIaIG--N---   67 (149)
T d3bzka5           2 AGPRATLGLDPGLRTGVKVAVVDATGKLLDTATV-YPHAP-----KNQWDQTLAVLAALCAKHQ-V--ELIAIG--N---   67 (149)
T ss_dssp             CCSCCEEEEECCSTTCEEEEEECTTSCEEEEEEE-CCSTT-----TCCHHHHHHHHHHHHHHTT-C--CEEEEE--S---
T ss_pred             CCCceEEEECCCcccccEEEEECCCCCEEEEEEE-ecCCc-----HHHHHHHHHHHHHHHHHcC-C--eEEEEC--C---
Confidence            467899999999 6998 9999998852222233 35543     2344445667888998877 4  444552  2   


Q ss_pred             CCCcceeecccchhHHHHHHHHH---hCCeeeEeC
Q 027274          163 QDGKQGWWSGGFGYGLWIGILVA---SGFSVVPIP  194 (225)
Q Consensus       163 gqGvqS~fsfG~gyGlw~GVL~A---~Gipvv~Vt  194 (225)
                        |..+    -...-.+.-++..   ..++|++|.
T Consensus        68 --gTas----re~~~~v~~l~~~~~~~~i~~~iV~   96 (149)
T d3bzka5          68 --GTAS----RETDKLAGELIKKYPGMKLTKIMVS   96 (149)
T ss_dssp             --STTH----HHHHHHHHHHHHHCGGGCCEEEEEC
T ss_pred             --CccH----HHHHHHHHHHHHhCCCCCcEEEEEe
Confidence              2221    2333444444433   457777664