Citrus Sinensis ID: 043997

---

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
MTSEGNFSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMTDELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRREFETLEMKSGEEDVKIVEKILRTLTEKFNDIVCSIEESKDIDSLSEEAEVKEDEVKTLLGAEEEEEAGKFAEHWTTSRKGSSNCHSTWKAQDVSFRERVDCNN
Secondary Structure (PSIPRED)
ccccccccccccccccccHHHHHHHHHHHHHccccccccccccccccccccccHHHHHcHHHHHHccHHHHHHHHHHcHHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccHHHHHHHHHHHHHcccHHHHHccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHcccccHHccHHHHHHHHHHccccccccccccccccccHHccccc
Coil and Loop (DISEMBL)
mtsegnfsqpaiprfvghydhwSMLMDNFMRSKEywglvetgydepasgsvlMDAHQKMTDELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRREFETLEMKSGEEDVKIVEKILRTLTEKFNDIVCSieeskdidslseeAEVKEDEVKTLLgaeeeeeagkfaehwttsrkgssnchstwkaqdvsfrervdcnn
Flexible Loop (DISEMBL)
mtsegnfsqpaiprFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMTDELKLKDLKVKNYLfqaidrtildtirkkDTAKEIWDAMkkkfegnarvkksqLQALRREFetlemksgeedvkIVEKILRTLTekfndivcsieeskdidslseeaevKEDEVKTllgaeeeeeagkfaehwttsrkgssnchstwkaqdvsfrervdcnn
Low Complexity Region (SEG)
MTSEGNFSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMTDELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRREFETLEMKSGEEDVKIVEKILRTLTEKFNDIVCSIEESKDIDSLSEEAEVKEDEVKTllgaeeeeeagKFAEHWTTSRKGSSNCHSTWKAQDVSFRERVDCNN
Disordered region (IsUnstruct)
***********IPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMTDELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKK******************************DVKIVEKILRTLTEKFNDIVCSI********************************************************************
Disordered Region (DISOPRED)
***********IPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMTDELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRREFETLEMKSGEEDVKIVEKILRTLTEKFNDIVCSIEESKDIDSLSE*****************************************************DC**
Disordered Region (DISEMBL)
********QPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMTDELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRREFETLEMKSGEEDVKIVEKILRTLTEKFNDIVCSIEESK**************EVKTLLGAEEEEEAGKFAE***************WKAQDVSFRERVDCNN
Disordered Region (DISPRO)
******FSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMTDELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRREFETLEMKSGEEDVKIVEKILRTLTEKFNDIVCSIEESKDIDSLSEEAEVKEDEVKTLL********************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MTSEGNFSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMTDELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMxxxxxxxxxxxxxxxxxxxxxxxxxxxxSGEEDVKIVEKILRTLTEKFNDIVCSIEESKDxxxxxxxxxxxxxxxxxxxxxEEEEEAGKFAEHWTTSRKGSSNCHSTWKAQDVSFRERVDCNN
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

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	222
147828362	972	hypothetical protein VITISV_004671 [Viti	0.734	0.167	0.661	2e-63
147821826	1246	hypothetical protein VITISV_036712 [Viti	0.734	0.130	0.645	5e-62
147859212	1088	hypothetical protein VITISV_033739 [Viti	0.738	0.150	0.588	9e-56
147801787	1278	hypothetical protein VITISV_023111 [Viti	0.734	0.127	0.577	4e-54
147820839	1265	hypothetical protein VITISV_004365 [Viti	0.729	0.128	0.551	3e-53
147782774	672	hypothetical protein VITISV_017285 [Viti	0.716	0.236	0.576	6e-53
147819474	1338	hypothetical protein VITISV_032452 [Viti	0.738	0.122	0.540	7e-52
147841356	1202	hypothetical protein VITISV_023209 [Viti	0.734	0.135	0.556	6e-51
357499393	510	Resistance gene analog protein [Medicago	0.576	0.250	0.746	2e-49
297744326	3048	unnamed protein product [Vitis vinifera]	0.716	0.052	0.532	2e-48

>gi|147828362|emb|CAN68758.1| hypothetical protein VITISV_004671 [Vitis vinifera]

 Score =  248 bits (632), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 123/186 (66%), Positives = 146/186 (78%), Gaps = 23/186 (12%)

Query: 2   TSEGNFSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMTD 61
           TSEG F+QPAIPRF GHYDHWSMLM+NF+RSKEYW LVETGYDEP + + + +A QK  D
Sbjct: 4   TSEGXFAQPAIPRFDGHYDHWSMLMENFLRSKEYWSLVETGYDEPQANAAMTEAQQKRLD 63

Query: 62  ELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRREF 121
           E+KLKDLKVKNYLFQAIDRTIL+TI +K+T+K+IWD+MKKK+EGNARVK+S LQALRR+F
Sbjct: 64  EMKLKDLKVKNYLFQAIDRTILETILQKNTSKQIWDSMKKKYEGNARVKRSILQALRRDF 123

Query: 122 ETLEMKS---------------------GEE--DVKIVEKILRTLTEKFNDIVCSIEESK 158
           ET+EMKS                     GE+  +V IVEKILR LT+ FN IVCSIEESK
Sbjct: 124 ETVEMKSSECITDYFSRVMSVSNKMRFHGEQMLEVTIVEKILRXLTDNFNYIVCSIEESK 183

Query: 159 DIDSLS 164
           D D+L+
Sbjct: 184 DTDTLT 189

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147821826|emb|CAN72600.1| hypothetical protein VITISV_036712 [Vitis vinifera]

 Score =  243 bits (620), Expect = 5e-62,   Method: Compositional matrix adjust.
 Identities = 120/186 (64%), Positives = 142/186 (76%), Gaps = 23/186 (12%)

Query: 2   TSEGNFSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMTD 61
           TSEG F+QPAIP F GHYDHWSMLM+NF+RSKEYW LVETGYDEP + + +  A QK  D
Sbjct: 4   TSEGQFAQPAIPCFNGHYDHWSMLMENFLRSKEYWSLVETGYDEPQANAAMTKAQQKRLD 63

Query: 62  ELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRREF 121
           E+KLKDLKVKNY+FQAIDRTIL+TI +K+T+K+IWD+MKKK+E NARVK+S LQ LRR+F
Sbjct: 64  EMKLKDLKVKNYMFQAIDRTILETILQKNTSKQIWDSMKKKYEENARVKRSILQTLRRDF 123

Query: 122 ETLEMKSGE-----------------------EDVKIVEKILRTLTEKFNDIVCSIEESK 158
           ETLEMKSGE                        +V IVEKILR+LT+ FN IVCSIEESK
Sbjct: 124 ETLEMKSGECITDYFSRVMSVSNKMRFHGEQIREVTIVEKILRSLTDNFNYIVCSIEESK 183

Query: 159 DIDSLS 164
           D D+L+
Sbjct: 184 DTDTLT 189

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147859212|emb|CAN81839.1| hypothetical protein VITISV_033739 [Vitis vinifera]

 Score =  222 bits (565), Expect = 9e-56,   Method: Compositional matrix adjust.
 Identities = 110/187 (58%), Positives = 135/187 (72%), Gaps = 23/187 (12%)

Query: 1   MTSEGNFSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMT 60
           M  E +F QPAIPRF GHYDHWSMLM+NF+RSKEYW LVETG    A G  L DA +K  
Sbjct: 1   MAFENSFVQPAIPRFDGHYDHWSMLMENFLRSKEYWNLVETGITAAAEGIDLSDAQKKAL 60

Query: 61  DELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRRE 120
           ++ KLKDLK KNYLFQAIDR+IL+TI KKDTAK+IWD++K+K++G ARVK +QLQALR+E
Sbjct: 61  EDQKLKDLKAKNYLFQAIDRSILETILKKDTAKDIWDSLKQKYQGTARVKHAQLQALRKE 120

Query: 121 FETLEMKSGEE-----------------------DVKIVEKILRTLTEKFNDIVCSIEES 157
           FE L MK+GE                        DV I+EKILR++T K++ +VCSIEES
Sbjct: 121 FEVLHMKTGESVNDYFGRTLIIANKMRTHGERMVDVVIIEKILRSMTSKYDYVVCSIEES 180

Query: 158 KDIDSLS 164
            D+D+LS
Sbjct: 181 NDLDTLS 187

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147801787|emb|CAN74536.1| hypothetical protein VITISV_023111 [Vitis vinifera]

 Score =  216 bits (551), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 108/187 (57%), Positives = 133/187 (71%), Gaps = 24/187 (12%)

Query: 1   MTSEGNFSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMT 60
           M SE NF QPAIPRF GHYD+WSMLM+NF+RSKEYW +V  G  EPA+ S + DA +   
Sbjct: 1   MASE-NFVQPAIPRFDGHYDYWSMLMENFLRSKEYWQVVSGGIAEPATNSPMTDAQKTEI 59

Query: 61  DELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRRE 120
           +  +LKDLK KNYLFQAIDR+IL+TI  KDT+++IWD+MKKK++G+ R K+ QLQALR E
Sbjct: 60  EGQRLKDLKAKNYLFQAIDRSILETILCKDTSQQIWDSMKKKYQGSMRTKRQQLQALRSE 119

Query: 121 FETLEMKSGE-----------------------EDVKIVEKILRTLTEKFNDIVCSIEES 157
           FETL MK GE                       EDV ++EKILR++T KFN +VCSIEES
Sbjct: 120 FETLRMKPGESVSDYFSRTMAIINKMRIHGEKMEDVTVIEKILRSMTPKFNYVVCSIEES 179

Query: 158 KDIDSLS 164
           KD+D LS
Sbjct: 180 KDLDELS 186

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147820839|emb|CAN65188.1| hypothetical protein VITISV_004365 [Vitis vinifera]

 Score =  214 bits (544), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 102/185 (55%), Positives = 133/185 (71%), Gaps = 23/185 (12%)

Query: 3   SEGNFSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMTDE 62
           +E +F QP +P+F GHYDHW+MLM+NF+RSKEYWGLVE+G    A G VL DA +K  D+
Sbjct: 2   AENSFVQPTVPKFDGHYDHWAMLMENFLRSKEYWGLVESGIPTVAEGVVLTDAQRKNIDD 61

Query: 63  LKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRREFE 122
            KLKDLK KNYLFQA+DR++L+TI  KDTAK IWD++K+K++G  RVK++ LQALR+EFE
Sbjct: 62  QKLKDLKAKNYLFQALDRSVLETILNKDTAKNIWDSLKQKYQGTTRVKRAHLQALRKEFE 121

Query: 123 TLEMKSGEE-----------------------DVKIVEKILRTLTEKFNDIVCSIEESKD 159
            L MK+GE                        DV +VEKILR++T KF+ +VCSIEESKD
Sbjct: 122 LLHMKAGESVNEYFARTLTIANKMKANGENKGDVVVVEKILRSMTPKFDYVVCSIEESKD 181

Query: 160 IDSLS 164
            ++L+
Sbjct: 182 TNTLT 186

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147782774|emb|CAN76821.1| hypothetical protein VITISV_017285 [Vitis vinifera]

 Score =  213 bits (541), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 105/182 (57%), Positives = 128/182 (70%), Gaps = 23/182 (12%)

Query: 6   NFSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMTDELKL 65
           NF QPAIPRF GHYDHWSMLM+NF+RSKEYW +V  G  EPA+ S + DA +   +  +L
Sbjct: 5   NFVQPAIPRFDGHYDHWSMLMENFLRSKEYWQVVSGGIAEPATNSPMTDAQKTEIEGQRL 64

Query: 66  KDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRREFETLE 125
           KDLK KNYLFQAIDR+IL+TI  KDT+++IWD+MKKK+ G+ R K+ QLQALR EFE L 
Sbjct: 65  KDLKAKNYLFQAIDRSILETILCKDTSQQIWDSMKKKYLGSTRTKRQQLQALRFEFEMLR 124

Query: 126 MKSGE-----------------------EDVKIVEKILRTLTEKFNDIVCSIEESKDIDS 162
           MK GE                       EDV ++EKILR++T KFN +VCSIEESKD+D 
Sbjct: 125 MKLGESVSDYFSRTMAIINKMRIHGEKMEDVTVIEKILRSMTPKFNYVVCSIEESKDLDE 184

Query: 163 LS 164
           LS
Sbjct: 185 LS 186

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147819474|emb|CAN74283.1| hypothetical protein VITISV_032452 [Vitis vinifera]

 Score =  209 bits (532), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 101/187 (54%), Positives = 130/187 (69%), Gaps = 23/187 (12%)

Query: 1   MTSEGNFSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMT 60
           M +E NF QPAIP+   HYDHW MLM+NF+RSKEYW L+E G     +G  L +  +K+ 
Sbjct: 64  MATESNFVQPAIPKLDAHYDHWCMLMENFLRSKEYWNLIEQGIXTAEAGVELTEGQKKVI 123

Query: 61  DELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRRE 120
           +  KLKDLKVKNYLFQAIDR++L+TI  KDTAK IWD++K+K++G ARV+++Q QALR+E
Sbjct: 124 ENAKLKDLKVKNYLFQAIDRSVLETILNKDTAKCIWDSLKQKYQGTARVQRAQRQALRKE 183

Query: 121 FETLEMKSGE-----------------------EDVKIVEKILRTLTEKFNDIVCSIEES 157
           FE L MK GE                       EDV ++EKILR++T KFN +VCSIEES
Sbjct: 184 FEMLNMKVGESVNEYFARTLTIANKMRVHGQKMEDVVVIEKILRSMTPKFNCVVCSIEES 243

Query: 158 KDIDSLS 164
            D+D+LS
Sbjct: 244 NDLDTLS 250

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147841356|emb|CAN66690.1| hypothetical protein VITISV_023209 [Vitis vinifera]

 Score =  206 bits (524), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 104/187 (55%), Positives = 129/187 (68%), Gaps = 24/187 (12%)

Query: 1   MTSEGNFSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMT 60
           M SE NF QPAIPRF GHYD+WSMLM+NF+RSKEYW +V  G  EPA+ S + DA +   
Sbjct: 1   MASE-NFVQPAIPRFDGHYDYWSMLMENFLRSKEYWQVVSGGIAEPATNSPMTDAQKTEI 59

Query: 61  DELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRRE 120
           +  +LKDLK KN LFQ IDR+IL+TI  KDT+++IWD+MKKK++G+ R K+  LQALR E
Sbjct: 60  EGQRLKDLKAKNXLFQXIDRSILETILCKDTSQQIWDSMKKKYQGSTRTKRQXLQALRSE 119

Query: 121 FETLEMKSGE-----------------------EDVKIVEKILRTLTEKFNDIVCSIEES 157
           FETL MK GE                       EDV ++EKIL ++T KFN +VCSIEES
Sbjct: 120 FETLRMKPGESVSDYFSRTMAIINKMRIHGEKMEDVTVIEKILXSMTPKFNYVVCSIEES 179

Query: 158 KDIDSLS 164
           KD+D LS
Sbjct: 180 KDLDELS 186

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357499393|ref|XP_003619985.1| Resistance gene analog protein [Medicago truncatula] gi|355495000|gb|AES76203.1| Resistance gene analog protein [Medicago truncatula]

 Score =  201 bits (511), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 97/130 (74%), Positives = 111/130 (85%), Gaps = 2/130 (1%)

Query: 1   MTSEGNFSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMT 60
           MTSEG+F QPAIPRF  HYDH SMLM+NF+RSKEYW LVETGY EP     + DA +K  
Sbjct: 1   MTSEGSFVQPAIPRFDCHYDHSSMLMENFLRSKEYWSLVETGYAEPEQA--VTDAERKRL 58

Query: 61  DELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRRE 120
           DELKLKDLK KNYLFQAIDRTIL+TI +K+T+K+IWD+MKKK+EGNARVK+  LQALR+E
Sbjct: 59  DELKLKDLKCKNYLFQAIDRTILETILQKNTSKQIWDSMKKKYEGNARVKRLHLQALRKE 118

Query: 121 FETLEMKSGE 130
           FETLEMKSGE
Sbjct: 119 FETLEMKSGE 128

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297744326|emb|CBI37296.3| unnamed protein product [Vitis vinifera]

 Score =  197 bits (502), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 97/182 (53%), Positives = 127/182 (69%), Gaps = 23/182 (12%)

Query: 6   NFSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMTDELKL 65
           +F QPAI +F G+YDHW+MLM+NF+RSKEYWGLV  G    A  +VL DA +K  ++ +L
Sbjct: 30  SFVQPAISKFDGYYDHWAMLMENFLRSKEYWGLVVNGVPAVAEDAVLTDAQRKHIEDQQL 89

Query: 66  KDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVKKSQLQALRREFETLE 125
           KDLK KNYLFQA+DR+IL+TI  K T K+IWD+MK+KF+G  RVK+  LQALR+EF+ L 
Sbjct: 90  KDLKAKNYLFQALDRSILETILNKKTTKDIWDSMKQKFQGTTRVKRGNLQALRKEFKILH 149

Query: 126 MKSGEE-----------------------DVKIVEKILRTLTEKFNDIVCSIEESKDIDS 162
           MKSGE                        +  +VEKILR++T KF+ +VCSIEESKD+D+
Sbjct: 150 MKSGETVNEYFSRTLAIANKMKVNGEDKGNTAVVEKILRSMTSKFDYVVCSIEESKDLDT 209

Query: 163 LS 164
           L+
Sbjct: 210 LT 211

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	222
TAIR|locus:2008174	97	AT1G48720 "AT1G48720" [Arabido	0.382	0.876	0.258	2.5e-05

TAIR|locus:2008174 AT1G48720 "AT1G48720" [Arabidopsis thaliana (taxid:3702)]

 Score = 102 (41.0 bits), Expect = 2.5e-05, P = 2.5e-05
 Identities = 23/89 (25%), Positives = 45/89 (50%)

Query:     7 FSQPAIPRFVGHYDHWSMLMDNFMRSKEYWGLVETGYDEPAS-GSVLMDAHQKMTDELKL 65
             F  P + +   +YD+WS+ M   + + + W +VE G+ EP + GS+       + D  K 
Sbjct:     8 FQVPVLTK--SNYDNWSLRMKAILGAHDVWEIVEKGFIEPENEGSLSQTQKDGLRDSRK- 64

Query:    66 KDLKVKNYLFQAIDRTILDTIRKKDTAKE 94
             +D K    ++Q +D    + + +  +AK+
Sbjct:    65 RDKKALCLIYQGLDEDTFEKVVEATSAKD 93


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        0.314   0.129   0.373    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      222       211   0.00081  112 3  11 23  0.41    33
                                                     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:  1
  No. of states in DFA:  612 (65 KB)
  Total size of DFA:  186 KB (2106 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:  25.47u 0.14s 25.61t   Elapsed:  00:00:01
  Total cpu time:  25.47u 0.14s 25.61t   Elapsed:  00:00:01
  Start:  Sat May 11 03:48:38 2013   End:  Sat May 11 03:48:39 2013

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

---

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	222
pfam14223	119	pfam14223, UBN2, gag-polypeptide of LTR copia-type	9e-26
pfam13961	27	pfam13961, DUF4219, Domain of unknown function (DU	0.002

>gnl|CDD|222605 pfam14223, UBN2, gag-polypeptide of LTR copia-type

 Score = 96.5 bits (241), Expect = 9e-26
 Identities = 52/118 (44%), Positives = 66/118 (55%), Gaps = 29/118 (24%)

Query: 90  DTAKEIWDAMKKKFEGNARVKKSQLQALRREFETLEMKSGE------------------- 130
            TAKE WDA+K  +EG+ RVK+++LQ LRREFE L+MK GE                   
Sbjct: 1   KTAKEAWDALKTMYEGSDRVKEARLQTLRREFENLKMKDGESIDDYLDRLSEIVNKLRSL 60

Query: 131 ----EDVKIVEKILRTLTEKFNDIVCSIEESKDIDSLSEEAEVKEDEVKTLLGAEEEE 184
                D  +VEKILR+L EK+  IV SIEESKD+ +L+ E      E+   L A EE 
Sbjct: 61  GEKISDEDVVEKILRSLPEKYEQIVTSIEESKDLSTLTLE------ELVGRLKAHEER 112

This family is found in Plants and fungi, and contains LTR-polyproteins, or retrotransposons of the copia-type. Length = 119

>gnl|CDD|206131 pfam13961, DUF4219, Domain of unknown function (DUF4219)

 Score = 34.3 bits (80), Expect = 0.002
 Identities = 7/23 (30%), Positives = 17/23 (73%)

Query: 18 HYDHWSMLMDNFMRSKEYWGLVE 40
          +YD W++ M  ++++++ W +VE
Sbjct: 5  NYDVWAIRMKTYLQAQDLWDVVE 27

This domain is very short and is found at the N-terminal of many Gag-pol polyprotein and related proteins. There is a highly conserved YxxWxxxM sequence motif. Length = 27

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	222
PF14244	152	UBN2_3: gag-polypeptide of LTR copia-type	99.87
PF14223	119	UBN2: gag-polypeptide of LTR copia-type	99.7
PF14227	119	UBN2_2: gag-polypeptide of LTR copia-type	99.53
PF13961	27	DUF4219: Domain of unknown function (DUF4219)	99.15
PF00098	18	zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi	98.34
PF13696	32	zf-CCHC_2: Zinc knuckle	97.17
PF14787	36	zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB:	96.41
smart00343	26	ZnF_C2HC zinc finger.	95.95
PF13917	42	zf-CCHC_3: Zinc knuckle	95.27
PF15288	40	zf-CCHC_6: Zinc knuckle	95.22
PF14392	49	zf-CCHC_4: Zinc knuckle	94.6
PF03564	145	DUF1759: Protein of unknown function (DUF1759); In	94.28
COG5082	190	AIR1 Arginine methyltransferase-interacting protei	94.03
COG5082	190	AIR1 Arginine methyltransferase-interacting protei	93.61
KOG4400	261	consensus E3 ubiquitin ligase interacting with arg	87.44
PTZ00368	148	universal minicircle sequence binding protein (UMS	87.37
KOG2560	529	consensus RNA splicing factor - Slu7p [RNA process	86.64
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	84.81
COG5222	427	Uncharacterized conserved protein, contains RING Z	83.76
PTZ00368	148	universal minicircle sequence binding protein (UMS	82.83

>PF14244 UBN2_3: gag-polypeptide of LTR copia-type

Probab=99.87  E-value=1.1e-21  Score=151.62  Aligned_cols=111  Identities=31%  Similarity=0.527  Sum_probs=93.8

Q ss_pred             CCCCCCcccC-ChHHHHHHHHHHhhccccccccccCccCCCCCCcCchHhhhhhHHhhhhhHHHHHHHHHhchHHHHhhh
Q 043997            8 SQPAIPRFVG-HYDHWSMLMDNFMRSKEYWGLVETGYDEPASGSVLMDAHQKMTDELKLKDLKVKNYLFQAIDRTILDTI   86 (222)
Q Consensus         8 ~~~~i~~l~G-NY~~W~~~m~~~L~~~~lw~~v~~~~~~p~~~~~~t~~~~~~~~~~~~~d~~a~~~I~~sl~~~~~~~i   86 (222)
                      .....++|+| ||..|+..|+.+|.++++|++|+|..+.|+.+.       ..+++|.+.|.++++||.++|+++++..|
T Consensus         6 ~~i~~~kL~g~NY~~W~~~~~~~L~~~~l~~~i~g~~~~P~~~~-------~~~~~W~~~d~~v~swl~~sis~~i~~~i   78 (152)
T PF14244_consen    6 QPITSIKLNGSNYLSWSQQMEMALRGKGLWGFIDGTIPKPPETD-------PAYEKWERKDQLVLSWLLNSISPDILSTI   78 (152)
T ss_pred             CcccccCCCCccHHHHHHHHHHHHHhCCCcccccCccccccccc-------hhhhhHHHhhhHHHHHHHHhhcHHHHhhh
Confidence            3444689999 999999999999999999999999887775321       34566689999999999999999999999


Q ss_pred             ccccchHHHHHHHHHHhhchhHHHHHHHHHHHHHHHHhhcc
Q 043997           87 RKKDTAKEIWDAMKKKFEGNARVKKSQLQALRREFETLEMK  127 (222)
Q Consensus        87 ~~~~tAke~W~~L~~~y~~~~~~~~~~l~~l~~~~~~~~m~  127 (222)
                      ..++||+++|++|+++|...+.  .+++.+|+.+|..++..
T Consensus        79 ~~~~tak~~W~~L~~~f~~~~~--~~r~~~L~~~l~~~kq~  117 (152)
T PF14244_consen   79 IFCETAKEIWDALKERFSQKSN--ASRVFQLRNELHSLKQG  117 (152)
T ss_pred             HhhhhHHHHHHHHHHHhhcccH--HHHHHHHHHHHHHHhhC
Confidence            9999999999999999998873  24556677777777633

>PF14223 UBN2: gag-polypeptide of LTR copia-type

Probab=99.70  E-value=7.9e-17  Score=119.31  Aligned_cols=86  Identities=40%  Similarity=0.692  Sum_probs=81.7

Q ss_pred             cchHHHHHHHHHHhhchhHHHHHHHHHHHHHHHHhhcccCC-----------------------hhHHHHHHHHhhcccc
Q 043997           90 DTAKEIWDAMKKKFEGNARVKKSQLQALRREFETLEMKSGE-----------------------EDVKIVEKILRTLTEK  146 (222)
Q Consensus        90 ~tAke~W~~L~~~y~~~~~~~~~~l~~l~~~~~~~~m~~~e-----------------------~d~~~v~~lL~~Lp~~  146 (222)
                      +||+++|++|++.|++.+.++.+++..|+.+|..++|.+++                       +|.++|.++|++||++
T Consensus         1 ~tA~e~W~~L~~~y~~~~~~~~~~~~~L~~~l~~~k~~~~~sv~~y~~~~~~i~~~L~~~g~~i~d~~~v~~iL~~Lp~~   80 (119)
T PF14223_consen    1 KTAKEAWDALKKRYEGQSKVKQARVQQLKSQLENLKMKDGESVDEYISRLKEIVDELRAIGKPISDEDLVSKILRSLPPS   80 (119)
T ss_pred             ChHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHhhhhhhhcCCcccchhHHHHHHhcCCch
Confidence            58999999999999999998889999999999999998876                       8999999999999999


Q ss_pred             hhHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q 043997          147 FNDIVCSIEESKDIDSLSEEAEVKEDEVK  175 (222)
Q Consensus       147 ~~~~~~~i~~~~~~~~lt~~ev~~~l~~~  175 (222)
                      |++++++|...++++.+|+++++++|+.+
T Consensus        81 y~~~~~~i~~~~~~~~~t~~el~~~L~~~  109 (119)
T PF14223_consen   81 YDTFVTAIRNSKDLPKMTLEELISRLLAE  109 (119)
T ss_pred             hHHHHHHHHhcCCCCcCCHHHHHHHHHHH
Confidence            99999999999999989999999999993

>PF14227 UBN2_2: gag-polypeptide of LTR copia-type

Probab=99.53  E-value=5.1e-14  Score=104.19  Aligned_cols=84  Identities=31%  Similarity=0.406  Sum_probs=74.3

Q ss_pred             ccchHHHHHHHHHHhhchhHHHHHHHHHHHHHHHHhhcccCC-----------------------hhHHHHHHHHhhccc
Q 043997           89 KDTAKEIWDAMKKKFEGNARVKKSQLQALRREFETLEMKSGE-----------------------EDVKIVEKILRTLTE  145 (222)
Q Consensus        89 ~~tAke~W~~L~~~y~~~~~~~~~~l~~l~~~~~~~~m~~~e-----------------------~d~~~v~~lL~~Lp~  145 (222)
                      |+||+++|++|+..|++.+..+..   .|.++|..++|.+|.                       +|++++..||.+||+
T Consensus         1 ~~ta~~~W~~L~~~y~~~~~~~~~---~l~~kl~~~k~~~~~~v~~hi~~~~~l~~~L~~~g~~i~d~~~~~~lL~sLP~   77 (119)
T PF14227_consen    1 CKTAKEMWDKLKKKYEKKSFANKI---YLLRKLYSLKMDEGGSVRDHINEFRSLVNQLKSLGVPIDDEDKVIILLSSLPP   77 (119)
T ss_pred             CCCHHHHHHHHHHHHcCCCHHHHH---HHHHHHHHhHhccchhHHHHHHHHHHHHHhhccccccchHHHHHHHHHHcCCH
Confidence            689999999999999999875433   467899999998764                       899999999999999


Q ss_pred             chhHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q 043997          146 KFNDIVCSIEESKDIDSLSEEAEVKEDEVK  175 (222)
Q Consensus       146 ~~~~~~~~i~~~~~~~~lt~~ev~~~l~~~  175 (222)
                      +|++++++|.+..+...+|+++|+++|.++
T Consensus        78 sy~~~~~~l~~~~~~~~~tl~~v~~~L~~e  107 (119)
T PF14227_consen   78 SYDSFVTALLYSKPEDELTLEEVKSKLLQE  107 (119)
T ss_pred             hHHHHHHHHHccCCCCCcCHHHHHHHHHHH
Confidence            999999999998766789999999999994

>PF13961 DUF4219: Domain of unknown function (DUF4219)

Probab=99.15  E-value=1.9e-11  Score=66.19  Aligned_cols=26  Identities=31%  Similarity=0.920  Sum_probs=24.9

Q ss_pred             ccC-ChHHHHHHHHHHhhccccccccc
Q 043997           15 FVG-HYDHWSMLMDNFMRSKEYWGLVE   40 (222)
Q Consensus        15 l~G-NY~~W~~~m~~~L~~~~lw~~v~   40 (222)
                      ||| ||..|+.+|+.+|++++||++|+
T Consensus         1 l~g~NY~~W~~~M~~~L~~~~lW~vVe   27 (27)
T PF13961_consen    1 LDGTNYSTWKIRMKAYLESQDLWDVVE   27 (27)
T ss_pred             CCccCHHHHHHHHHHHHHHcchhhhhC
Confidence            799 99999999999999999999985

>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=98.34  E-value=2.7e-07  Score=44.90  Aligned_cols=17  Identities=18%  Similarity=0.208  Sum_probs=15.3

Q ss_pred             CCCCCCCCCCccc-cccc
Q 043997          198 KGSSNCHSTWKAQ-DVSF  214 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~~  214 (222)
                      +.||+||+.||++ |||.
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            4699999999999 9984

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 ....

>PF13696 zf-CCHC_2: Zinc knuckle

Probab=97.17  E-value=0.00015  Score=40.32  Aligned_cols=18  Identities=11%  Similarity=-0.007  Sum_probs=16.4

Q ss_pred             CCCCCCCCCCccc-ccccC
Q 043997          198 KGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~~~  215 (222)
                      -.|+.|++.||++ |||..
T Consensus         9 Y~C~~C~~~GH~i~dCP~~   27 (32)
T PF13696_consen    9 YVCHRCGQKGHWIQDCPTN   27 (32)
T ss_pred             CEeecCCCCCccHhHCCCC
Confidence            4699999999999 99985

>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A

Probab=96.41  E-value=0.0018  Score=36.80  Aligned_cols=24  Identities=17%  Similarity=0.234  Sum_probs=15.8

Q ss_pred             CCCCCCCCCCccc-ccccCcccccC
Q 043997          198 KGSSNCHSTWKAQ-DVSFRERVDCN  221 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~~~~~~~~~  221 (222)
                      ..|+.|+|..|++ +|.+.-++|-|
T Consensus         3 ~~CprC~kg~Hwa~~C~sk~d~~G~   27 (36)
T PF14787_consen    3 GLCPRCGKGFHWASECRSKTDVDGN   27 (36)
T ss_dssp             -C-TTTSSSCS-TTT---TCCCCCE
T ss_pred             ccCcccCCCcchhhhhhhhhcccCC
Confidence            4599999999999 99999888754

>smart00343 ZnF_C2HC zinc finger

Probab=95.95  E-value=0.0036  Score=33.18  Aligned_cols=17  Identities=18%  Similarity=0.161  Sum_probs=15.0

Q ss_pred             CCCCCCCCCccc-ccccC
Q 043997          199 GSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       199 ~C~~C~k~GH~~-dC~~~  215 (222)
                      +|+.|++.||++ +|+..
T Consensus         1 ~C~~CG~~GH~~~~C~~~   18 (26)
T smart00343        1 KCYNCGKEGHIARDCPKX   18 (26)
T ss_pred             CCccCCCCCcchhhCCcc
Confidence            599999999999 99843

>PF13917 zf-CCHC_3: Zinc knuckle

Probab=95.27  E-value=0.0096  Score=35.41  Aligned_cols=18  Identities=11%  Similarity=0.200  Sum_probs=16.3

Q ss_pred             cCCCCCCCCCCCccc-ccc
Q 043997          196 SRKGSSNCHSTWKAQ-DVS  213 (222)
Q Consensus       196 ~~~~C~~C~k~GH~~-dC~  213 (222)
                      .+..|.+|++.||+. .|+
T Consensus         3 ~~~~CqkC~~~GH~tyeC~   21 (42)
T PF13917_consen    3 ARVRCQKCGQKGHWTYECP   21 (42)
T ss_pred             CCCcCcccCCCCcchhhCC
Confidence            456799999999999 999

>PF15288 zf-CCHC_6: Zinc knuckle

Probab=95.22  E-value=0.0097  Score=34.82  Aligned_cols=19  Identities=11%  Similarity=0.181  Sum_probs=15.9

Q ss_pred             CCCCCCCCCCCccc---ccccC
Q 043997          197 RKGSSNCHSTWKAQ---DVSFR  215 (222)
Q Consensus       197 ~~~C~~C~k~GH~~---dC~~~  215 (222)
                      +.+|.+||.+||..   .||-.
T Consensus         1 k~kC~~CG~~GH~~t~k~CP~~   22 (40)
T PF15288_consen    1 KVKCKNCGAFGHMRTNKRCPMY   22 (40)
T ss_pred             CccccccccccccccCccCCCC
Confidence            46899999999998   67654

>PF14392 zf-CCHC_4: Zinc knuckle

Probab=94.60  E-value=0.014  Score=36.00  Aligned_cols=18  Identities=6%  Similarity=0.054  Sum_probs=15.5

Q ss_pred             CCCCCCCCCCCccc-cccc
Q 043997          197 RKGSSNCHSTWKAQ-DVSF  214 (222)
Q Consensus       197 ~~~C~~C~k~GH~~-dC~~  214 (222)
                      ...|++||..||.. +|+.
T Consensus        31 p~~C~~C~~~gH~~~~C~k   49 (49)
T PF14392_consen   31 PRFCFHCGRIGHSDKECPK   49 (49)
T ss_pred             ChhhcCCCCcCcCHhHcCC
Confidence            34599999999999 9973

>PF03564 DUF1759: Protein of unknown function (DUF1759); InterPro: IPR005312 This is a small family of proteins of unknown function

Probab=94.28  E-value=0.28  Score=36.93  Aligned_cols=54  Identities=20%  Similarity=0.423  Sum_probs=36.7

Q ss_pred             HHHHHHHHHhchHHHHhhhcccc----chHHHHHHHHHHhhchhHHHHHHHHHHHHHHHHhh
Q 043997           68 LKVKNYLFQAIDRTILDTIRKKD----TAKEIWDAMKKKFEGNARVKKSQLQALRREFETLE  125 (222)
Q Consensus        68 ~~a~~~I~~sl~~~~~~~i~~~~----tAke~W~~L~~~y~~~~~~~~~~l~~l~~~~~~~~  125 (222)
                      ..=+.+|...|..+....|..+.    +=..+|+.|+++|.....+..+    +..++..+.
T Consensus        28 ~~K~~~L~~~L~G~A~~~i~~~~~~~~~Y~~a~~~L~~~yg~~~~i~~~----~~~~l~~l~   85 (145)
T PF03564_consen   28 IEKLNYLRSCLKGEAKELIRGLPLSEENYEEAWELLEERYGNPRRIIQA----LLEELRNLP   85 (145)
T ss_pred             HHHHHHHHHHhcchHHHHHHcccccchhhHHHHHHHHHHhCCchHHHHH----HHHHHhccc
Confidence            34456777888888888777754    3467999999999887654333    334455444

>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

Probab=94.03  E-value=0.027  Score=44.52  Aligned_cols=15  Identities=33%  Similarity=0.383  Sum_probs=9.9

Q ss_pred             CCCCCCCCCCccc-cc
Q 043997          198 KGSSNCHSTWKAQ-DV  212 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC  212 (222)
                      ++|++||..||+. ||
T Consensus        98 ~~C~~Cg~~GH~~~dC  113 (190)
T COG5082          98 KKCYNCGETGHLSRDC  113 (190)
T ss_pred             cccccccccCcccccc
Confidence            4566666666666 66

>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

Probab=93.61  E-value=0.031  Score=44.17  Aligned_cols=20  Identities=15%  Similarity=0.172  Sum_probs=17.7

Q ss_pred             hccCCCCCCCCCCCccc-ccc
Q 043997          194 TTSRKGSSNCHSTWKAQ-DVS  213 (222)
Q Consensus       194 ~~~~~~C~~C~k~GH~~-dC~  213 (222)
                      +...+.||+||+.||.+ |||
T Consensus        57 ~~~~~~C~nCg~~GH~~~DCP   77 (190)
T COG5082          57 REENPVCFNCGQNGHLRRDCP   77 (190)
T ss_pred             cccccccchhcccCcccccCC
Confidence            35667899999999999 999

>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]

Probab=87.44  E-value=0.34  Score=40.57  Aligned_cols=18  Identities=11%  Similarity=0.102  Sum_probs=16.1

Q ss_pred             CCCCCCCCCCccc-ccccC
Q 043997          198 KGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~~~  215 (222)
                      ..||.||+.||+. +|+.+
T Consensus       144 ~~Cy~Cg~~GH~s~~C~~~  162 (261)
T KOG4400|consen  144 AKCYSCGEQGHISDDCPEN  162 (261)
T ss_pred             CccCCCCcCCcchhhCCCC
Confidence            6699999999999 99954

>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional

Probab=87.37  E-value=0.29  Score=37.26  Aligned_cols=17  Identities=29%  Similarity=0.258  Sum_probs=14.3

Q ss_pred             CCCCCCCCCCccc-cccc
Q 043997          198 KGSSNCHSTWKAQ-DVSF  214 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~~  214 (222)
                      ..|++|+..||+. |||.
T Consensus       130 ~~C~~Cg~~gH~~~dCp~  147 (148)
T PTZ00368        130 KTCYNCGQTGHLSRDCPD  147 (148)
T ss_pred             CccccCCCcCcccccCCC
Confidence            5699999999999 8885

>KOG2560 consensus RNA splicing factor - Slu7p [RNA processing and modification]

Probab=86.64  E-value=0.14  Score=45.53  Aligned_cols=22  Identities=23%  Similarity=0.306  Sum_probs=20.0

Q ss_pred             cCCCCCCCCCCCccc-ccccCcc
Q 043997          196 SRKGSSNCHSTWKAQ-DVSFRER  217 (222)
Q Consensus       196 ~~~~C~~C~k~GH~~-dC~~~~~  217 (222)
                      .++-|-|||-.||.. ||-.|||
T Consensus       111 RKGACeNCGAmtHk~KDCmERPR  133 (529)
T KOG2560|consen  111 RKGACENCGAMTHKVKDCMERPR  133 (529)
T ss_pred             hhhhhhhhhhhhcchHHHhhcch
Confidence            456799999999999 9999997

>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]

Probab=84.81  E-value=0.4  Score=40.47  Aligned_cols=20  Identities=10%  Similarity=0.225  Sum_probs=17.3

Q ss_pred             cCCCCCCCCCCCccc-ccccC
Q 043997          196 SRKGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       196 ~~~~C~~C~k~GH~~-dC~~~  215 (222)
                      +.-+|+.|||.||+. .||--
T Consensus       159 Dq~~cyrcGkeghwskEcP~~  179 (346)
T KOG0109|consen  159 DQSGCYRCGKEGHWSKECPVD  179 (346)
T ss_pred             CHHHheeccccccccccCCcc
Confidence            455799999999999 99865

>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=83.76  E-value=0.47  Score=40.17  Aligned_cols=17  Identities=6%  Similarity=-0.048  Sum_probs=15.9

Q ss_pred             CCCCCCCCCccc-ccccC
Q 043997          199 GSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       199 ~C~~C~k~GH~~-dC~~~  215 (222)
                      .||.||..||++ .||..
T Consensus       178 ~CyRCGqkgHwIqnCpTN  195 (427)
T COG5222         178 VCYRCGQKGHWIQNCPTN  195 (427)
T ss_pred             eEEecCCCCchhhcCCCC
Confidence            499999999999 99987

>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional

Probab=82.83  E-value=0.77  Score=34.90  Aligned_cols=18  Identities=22%  Similarity=0.296  Sum_probs=10.6

Q ss_pred             CCCCCCCCCccc-ccccCc
Q 043997          199 GSSNCHSTWKAQ-DVSFRE  216 (222)
Q Consensus       199 ~C~~C~k~GH~~-dC~~~~  216 (222)
                      .|+.|++.||+. ||+...
T Consensus        79 ~C~~Cg~~GH~~~~C~~~~   97 (148)
T PTZ00368         79 SCYNCGQTGHISRECPNRA   97 (148)
T ss_pred             ccCcCCCCCcccccCCCcc
Confidence            466666666666 665543

---

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	222
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04

>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 = 39.5 bits (91), Expect = 6e-04
 Identities = 35/218 (16%), Positives = 58/218 (26%), Gaps = 61/218 (27%)

Query: 56  HQKMTDELKLKDLKVKNYLFQAIDRTILDTIRKKDTAKEIWDAMKKKFEGNARVK----- 110
           H  M  E      + K+ L         D        K++ D  K        +      
Sbjct: 4   HHHMDFETGEHQYQYKDILS-----VFEDAFVDNFDCKDVQDMPKSILS-KEEIDHIIMS 57

Query: 111 KSQLQALRREFETLEMKSGEEDVK-IVEKILRT----LTEK------------------- 146
           K  +    R F TL  K  EE V+  VE++LR     L                      
Sbjct: 58  KDAVSGTLRLFWTLLSK-QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR 116

Query: 147 ---FNDI-------VCSIEESKDIDSLSEEAEVKEDEV--------KTLLGAE-----EE 183
              +ND        V  ++    +     E    ++ +        KT +  +     + 
Sbjct: 117 DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV 176

Query: 184 EEAGKFAEHWTTSRKGSSNCHSTWKAQDVSFRERVDCN 221
           +    F   W      + N   T          ++D N
Sbjct: 177 QCKMDFKIFWLNL--KNCNSPETVLEMLQKLLYQIDPN 212

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	222
1a6b_B	40	Momulv, zinc finger protein NCP10; nucleocapsid pr	98.23
1u6p_A	56	GAG polyprotein; MLV, A-minor K-turn, stem loop, b	98.15
1nc8_A	29	Nucleocapsid protein; HIV-2, RNA recognition, zinc	97.92
1dsq_A	26	Nucleic acid binding protein P14; CCHC type zinc f	97.9
2ysa_A	55	Retinoblastoma-binding protein 6; zinc finger, CCH	97.61
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	97.01
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	97.01
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	96.66
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	96.63
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	96.61
1cl4_A	60	Protein (GAG polyprotein); nucleocapsid protein, R	96.58
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	96.57
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	96.53
3nyb_B	83	Protein AIR2; polya RNA polymerase, zinc knuckle p	96.49
2ihx_A	61	Nucleocapsid (NC) protein; protein-RNA complex, vi	96.36
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	96.34
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	96.23
2ihx_A	61	Nucleocapsid (NC) protein; protein-RNA complex, vi	96.2
1cl4_A	60	Protein (GAG polyprotein); nucleocapsid protein, R	96.13
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	96.05
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	95.96
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	95.69
3ts2_A	148	Protein LIN-28 homolog A; microrna biogenesis, pro	95.62
3ts2_A	148	Protein LIN-28 homolog A; microrna biogenesis, pro	95.6
3nyb_B	83	Protein AIR2; polya RNA polymerase, zinc knuckle p	95.41
2lli_A	124	Protein AIR2; RNA surveillance, RNA degradation, R	93.79
2lli_A	124	Protein AIR2; RNA surveillance, RNA degradation, R	91.47
2hqh_E	26	Restin; beta/BETA structure, zinc finger motif, st	85.83

>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=98.23  E-value=5.9e-07  Score=52.18  Aligned_cols=25  Identities=16%  Similarity=0.177  Sum_probs=20.6

Q ss_pred             ccCCCCCCCCCCCccc-ccccCcccc
Q 043997          195 TSRKGSSNCHSTWKAQ-DVSFRERVD  219 (222)
Q Consensus       195 ~~~~~C~~C~k~GH~~-dC~~~~~~~  219 (222)
                      ..+.+||+||+.||++ |||.....+
T Consensus         8 ~~~~~C~~Cgk~GH~ardCP~~~~~~   33 (40)
T 1a6b_B            8 LDRDQCAYCKEKGHWAKDCPKKPRGP   33 (40)
T ss_dssp             CCSSSCSSSCCTTCCTTSCSSSCCCT
T ss_pred             CCCCeeeECCCCCcchhhCcCCcccC
Confidence            3567899999999999 999885543

>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=98.15  E-value=8.4e-07  Score=55.44  Aligned_cols=25  Identities=16%  Similarity=0.177  Sum_probs=21.0

Q ss_pred             ccCCCCCCCCCCCccc-ccccCcccc
Q 043997          195 TSRKGSSNCHSTWKAQ-DVSFRERVD  219 (222)
Q Consensus       195 ~~~~~C~~C~k~GH~~-dC~~~~~~~  219 (222)
                      ..+.+||+||+.||++ |||..++.+
T Consensus        21 ~~~~~C~~Cge~GH~ardCp~~~~~~   46 (56)
T 1u6p_A           21 LDRDQCAYCKEKGHWAKDCPKKPRGP   46 (56)
T ss_dssp             CCTTBCSSSCCBSSCGGGCTTCCCSS
T ss_pred             CCCCcceeCCCCCcccccCcCCcccc
Confidence            4567799999999999 999986543

>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=97.92  E-value=4e-06  Score=45.24  Aligned_cols=19  Identities=11%  Similarity=0.013  Sum_probs=16.7

Q ss_pred             CCCCCCCCCCCccc-ccccC
Q 043997          197 RKGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       197 ~~~C~~C~k~GH~~-dC~~~  215 (222)
                      ...||+||+.||++ ||+..
T Consensus         6 ~~~C~nCgk~GH~ar~C~~p   25 (29)
T 1nc8_A            6 VIRCWNCGKEGHSARQCRAP   25 (29)
T ss_dssp             CCBCTTTSCBSSCGGGCCSS
T ss_pred             CCEEEECCccccCHhHCccc
Confidence            46799999999999 99864

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

Probab=97.61  E-value=2.4e-05  Score=48.60  Aligned_cols=22  Identities=9%  Similarity=-0.028  Sum_probs=18.1

Q ss_pred             cCCCCCCCCCCCccc-ccccCcc
Q 043997          196 SRKGSSNCHSTWKAQ-DVSFRER  217 (222)
Q Consensus       196 ~~~~C~~C~k~GH~~-dC~~~~~  217 (222)
                      ....||.||++||++ ||+...+
T Consensus         6 ~~~~C~kCGk~GH~~k~Cp~~~~   28 (55)
T 2ysa_A            6 SGYTCFRCGKPGHYIKNCPTNGD   28 (55)
T ss_dssp             SSCCCTTTCCTTSCGGGCSGGGC
T ss_pred             CCCccccCCCcCcccccCCCCCC
Confidence            345799999999999 9996643

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

Probab=97.01  E-value=0.00035  Score=40.15  Aligned_cols=16  Identities=25%  Similarity=0.318  Sum_probs=10.7

Q ss_pred             CCCCCCCCCCccc-ccc
Q 043997          198 KGSSNCHSTWKAQ-DVS  213 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~  213 (222)
                      ..|+.||+.||++ |||
T Consensus        22 ~~C~~Cg~~GH~~~~C~   38 (39)
T 2a51_A           22 EGCWNCGSKEHRFAQCP   38 (39)
T ss_dssp             SSCTTTCCSSSCTTTSC
T ss_pred             CccccCCCCCCccCcCc
Confidence            4567777777766 665

>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=97.01  E-value=0.00038  Score=42.15  Aligned_cols=18  Identities=22%  Similarity=0.294  Sum_probs=10.3

Q ss_pred             CCCCCCCCCCccc-ccccC
Q 043997          198 KGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~~~  215 (222)
                      ..||.||+.||++ ||+.+
T Consensus        28 ~~C~~Cg~~GH~~~~C~~~   46 (49)
T 2ec7_A           28 QGCWKCGKTGHVMAKCPER   46 (49)
T ss_dssp             CSCSSSCCSSCCGGGCCSS
T ss_pred             CeeCcCCCcCCccCCCcCC
Confidence            3466666666666 66543

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

Probab=96.66  E-value=0.00086  Score=37.97  Aligned_cols=16  Identities=13%  Similarity=0.119  Sum_probs=10.1

Q ss_pred             CCCCCCCCCCccc-ccc
Q 043997          198 KGSSNCHSTWKAQ-DVS  213 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~  213 (222)
                      ..|+.|++.||++ ||+
T Consensus        20 ~~C~~Cg~~GH~a~~C~   36 (37)
T 2bl6_A           20 KVCFKCKQPGHFSKQCR   36 (37)
T ss_dssp             TTCSSCCCTTGGGGTTC
T ss_pred             CeEccCCCcCCccCcCc
Confidence            4566666666666 665

>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=96.63  E-value=0.00091  Score=40.41  Aligned_cols=18  Identities=11%  Similarity=0.030  Sum_probs=16.1

Q ss_pred             CCCCCCCCCCCccc-cccc
Q 043997          197 RKGSSNCHSTWKAQ-DVSF  214 (222)
Q Consensus       197 ~~~C~~C~k~GH~~-dC~~  214 (222)
                      ...||+||+.||++ +|+.
T Consensus         6 ~~~C~~Cg~~GH~a~~C~~   24 (49)
T 2ec7_A            6 VIRCWNCGKEGHSARQCRA   24 (49)
T ss_dssp             CCBCTTTCCBTCCTTTCCC
T ss_pred             cCeeeecCCCCcChhhCcC
Confidence            35799999999999 9986

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

Probab=96.61  E-value=0.00087  Score=38.43  Aligned_cols=16  Identities=13%  Similarity=0.044  Sum_probs=14.5

Q ss_pred             CCCCCCCCCCccc-ccc
Q 043997          198 KGSSNCHSTWKAQ-DVS  213 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~  213 (222)
                      .+||+|++.||++ +|+
T Consensus         1 i~C~~Cg~~GH~a~~C~   17 (39)
T 2a51_A            1 LTCFNCGKPGHTARMCR   17 (39)
T ss_dssp             CBCTTTCCBSSCTTTCC
T ss_pred             CeeeccCCCCcccccCC
Confidence            3699999999999 996

>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A

Probab=96.58  E-value=0.0013  Score=41.45  Aligned_cols=23  Identities=4%  Similarity=-0.032  Sum_probs=19.1

Q ss_pred             cCCCCCCCCCCCccc-ccccCccc
Q 043997          196 SRKGSSNCHSTWKAQ-DVSFRERV  218 (222)
Q Consensus       196 ~~~~C~~C~k~GH~~-dC~~~~~~  218 (222)
                      ....||.|++.||++ ||+...+-
T Consensus        29 ~~~~C~~Cg~~GH~ar~C~~~~~~   52 (60)
T 1cl4_A           29 VPGLCPRCKRGKHWANECKSKTDN   52 (60)
T ss_dssp             CCCSCSSCSSCSSCSTTCCCTTSS
T ss_pred             CCcceeECCCCCCccCcCCCcccc
Confidence            356799999999999 99987543

>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=96.57  E-value=0.0013  Score=40.64  Aligned_cols=16  Identities=19%  Similarity=0.252  Sum_probs=8.4

Q ss_pred             CCCCCCCCCccc-cccc
Q 043997          199 GSSNCHSTWKAQ-DVSF  214 (222)
Q Consensus       199 ~C~~C~k~GH~~-dC~~  214 (222)
                      .||.||+.||++ ||+.
T Consensus        35 ~C~~Cg~~GH~~~~C~~   51 (55)
T 1a1t_A           35 GCWKCGKEGHQMKDCTE   51 (55)
T ss_dssp             BCTTTCCBSSCGGGCSS
T ss_pred             EeCCCCCcCCccCCCcC
Confidence            455555555555 5544

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

Probab=96.53  E-value=0.001  Score=37.62  Aligned_cols=16  Identities=13%  Similarity=0.110  Sum_probs=14.7

Q ss_pred             CCCCCCCCCccc-cccc
Q 043997          199 GSSNCHSTWKAQ-DVSF  214 (222)
Q Consensus       199 ~C~~C~k~GH~~-dC~~  214 (222)
                      .||+|++.||++ +|+.
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            599999999999 9975

>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}

Probab=96.49  E-value=0.0012  Score=44.47  Aligned_cols=20  Identities=15%  Similarity=0.052  Sum_probs=17.5

Q ss_pred             cCCCCCCCCCCCccc-ccccC
Q 043997          196 SRKGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       196 ~~~~C~~C~k~GH~~-dC~~~  215 (222)
                      ....|++||+.||+. ||+..
T Consensus        45 ~~~~CYnCG~~GH~~rdC~~~   65 (83)
T 3nyb_B           45 HTIYCYNCGGKGHFGDDCKEK   65 (83)
T ss_dssp             CCCBCSSSSCBSSCGGGCSSC
T ss_pred             CCCeecccCCCCcCcccCCcc
Confidence            346799999999999 99876

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

Probab=96.36  E-value=0.002  Score=40.80  Aligned_cols=18  Identities=11%  Similarity=0.154  Sum_probs=14.7

Q ss_pred             CCCCCCCCCCccc-ccccC
Q 043997          198 KGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~~~  215 (222)
                      ..||.|++.||++ ||+..
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            5688888888888 88875

>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=96.34  E-value=0.0014  Score=40.49  Aligned_cols=20  Identities=10%  Similarity=0.047  Sum_probs=17.0

Q ss_pred             cCCCCCCCCCCCccc-ccccC
Q 043997          196 SRKGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       196 ~~~~C~~C~k~GH~~-dC~~~  215 (222)
                      ....||+|++.||++ +|+..
T Consensus        11 ~~~~C~~Cg~~GH~a~~C~~~   31 (55)
T 1a1t_A           11 KTVKCFNCGKEGHIAKNCRAP   31 (55)
T ss_dssp             GTCBCTTTCCBSSCGGGCSSC
T ss_pred             CCcceeeeCCCCcChhhcCCC
Confidence            346799999999999 99864

>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=96.23  E-value=0.002  Score=41.03  Aligned_cols=20  Identities=15%  Similarity=0.218  Sum_probs=14.6

Q ss_pred             CCCCCCCCCCCccc-ccccCc
Q 043997          197 RKGSSNCHSTWKAQ-DVSFRE  216 (222)
Q Consensus       197 ~~~C~~C~k~GH~~-dC~~~~  216 (222)
                      ...||.|++.||++ ||+...
T Consensus        29 ~~~C~~Cg~~GH~ar~Cp~~~   49 (63)
T 2cqf_A           29 PKKCHFCQSISHMVASCPLKA   49 (63)
T ss_dssp             SSCCTTTCCSSSCTTTCTGGG
T ss_pred             CCccCCcCCcCCccCcCCCcc
Confidence            45688888888888 887653

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

Probab=96.20  E-value=0.0017  Score=41.08  Aligned_cols=18  Identities=22%  Similarity=0.102  Sum_probs=16.1

Q ss_pred             CCCCCCCCCCCccc-cccc
Q 043997          197 RKGSSNCHSTWKAQ-DVSF  214 (222)
Q Consensus       197 ~~~C~~C~k~GH~~-dC~~  214 (222)
                      ...||+|++.||++ ||+.
T Consensus         4 ~~~C~~Cg~~GH~a~~C~~   22 (61)
T 2ihx_A            4 RGLCYTCGSPGHYQAQCPK   22 (61)
T ss_dssp             TTBCSSSCCBTCCGGGCTT
T ss_pred             CCcccccCCCCeehhhCcC
Confidence            35699999999999 9986

>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A

Probab=96.13  E-value=0.0013  Score=41.51  Aligned_cols=18  Identities=6%  Similarity=0.012  Sum_probs=0.0

Q ss_pred             CCCCCCCCCCccc-ccccC
Q 043997          198 KGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~~~  215 (222)
                      +.||+|++.||++ ||+..
T Consensus         2 ~~Cf~Cg~~GH~a~~C~~~   20 (60)
T 1cl4_A            2 GSCFKCGKKGHFAKNCHEH   20 (60)
T ss_dssp             -------------------
T ss_pred             CccccCCCCCcCHhhCcCC
Confidence            3599999999999 99986

>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=96.05  E-value=0.0039  Score=39.66  Aligned_cols=19  Identities=11%  Similarity=0.143  Sum_probs=16.7

Q ss_pred             CCCCCCCCCCCccc-ccccC
Q 043997          197 RKGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       197 ~~~C~~C~k~GH~~-dC~~~  215 (222)
                      ...||+|++.||++ ||+..
T Consensus         7 ~~~C~~Cg~~GH~a~~C~~~   26 (63)
T 2cqf_A            7 GDRCYNCGGLDHHAKECKLP   26 (63)
T ss_dssp             CCCCSSSCCSSSCTTTCCSC
T ss_pred             CCcccccCCCCcChhhCCCC
Confidence            35799999999999 99964

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

Probab=95.96  E-value=0.0036  Score=41.20  Aligned_cols=17  Identities=12%  Similarity=0.196  Sum_probs=9.9

Q ss_pred             CCCCCCCCCCccc-cccc
Q 043997          198 KGSSNCHSTWKAQ-DVSF  214 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~~  214 (222)
                      ..||+|++.||+. +|+.
T Consensus        25 ~~C~~Cg~~GH~a~~C~~   42 (74)
T 2li8_A           25 DRCYNCGGLDHHAKECKL   42 (74)
T ss_dssp             SCCTTTCCSSSCTTTCSS
T ss_pred             CcccccCCcCcCcccCCC
Confidence            3466666666666 6654

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

Probab=95.69  E-value=0.0046  Score=40.69  Aligned_cols=21  Identities=14%  Similarity=0.211  Sum_probs=18.1

Q ss_pred             cCCCCCCCCCCCccc-ccccCc
Q 043997          196 SRKGSSNCHSTWKAQ-DVSFRE  216 (222)
Q Consensus       196 ~~~~C~~C~k~GH~~-dC~~~~  216 (222)
                      ....||.|++.||++ ||+...
T Consensus        45 ~~~~C~~Cg~~GH~ar~Cp~~~   66 (74)
T 2li8_A           45 QPKKCHFCQSISHMVASCPLKA   66 (74)
T ss_dssp             CCCCCTTTCCTTSCGGGCTTGG
T ss_pred             CCCccCCcCCcCCccCcCcCCc
Confidence            346899999999999 999763

>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*

Probab=95.62  E-value=0.0048  Score=46.20  Aligned_cols=19  Identities=11%  Similarity=0.151  Sum_probs=16.0

Q ss_pred             CCCCCCCCCCccc-ccccCc
Q 043997          198 KGSSNCHSTWKAQ-DVSFRE  216 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~~~~  216 (222)
                      .+||+||+.||++ +|+..|
T Consensus        98 ~~C~~Cg~~GH~a~~C~~~~  117 (148)
T 3ts2_A           98 DRCYNCGGLDHHAKECKLPP  117 (148)
T ss_dssp             CCCTTTCCSSCCGGGCCSCC
T ss_pred             CcccEeCCccchhhhCCCCC
Confidence            4699999999999 998743

>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*

Probab=95.60  E-value=0.0047  Score=46.28  Aligned_cols=21  Identities=14%  Similarity=0.227  Sum_probs=18.3

Q ss_pred             CCCCCCCCCCCccc-ccccCcc
Q 043997          197 RKGSSNCHSTWKAQ-DVSFRER  217 (222)
Q Consensus       197 ~~~C~~C~k~GH~~-dC~~~~~  217 (222)
                      ...|+.|++.||++ |||.++.
T Consensus       119 ~~~C~~Cg~~GH~~r~Cp~~~~  140 (148)
T 3ts2_A          119 PKKCHFCQSINHMVASCPLKAQ  140 (148)
T ss_dssp             CCCCTTTCCSSCCGGGCTTTTC
T ss_pred             CCcccccCCcCCEeccCcCCCC
Confidence            46799999999999 9998843

>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}

Probab=95.41  E-value=0.0063  Score=40.93  Aligned_cols=20  Identities=10%  Similarity=0.131  Sum_probs=15.0

Q ss_pred             cCCCCCCCCCCCccc-ccccC
Q 043997          196 SRKGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       196 ~~~~C~~C~k~GH~~-dC~~~  215 (222)
                      ++..|++|++.||.+ +||..
T Consensus         4 k~~~C~~Cg~~GH~~~~Cp~~   24 (83)
T 3nyb_B            4 KKVQCTLCKSKKHSKERCPSI   24 (83)
T ss_dssp             ---CCSSSCCSSSCGGGCGGG
T ss_pred             ccCCCCCCCCCCCccccCCCc
Confidence            456799999999999 99864

>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}

Probab=93.79  E-value=0.026  Score=40.71  Aligned_cols=18  Identities=17%  Similarity=0.012  Sum_probs=16.2

Q ss_pred             CCCCCCCCCCCccc-cccc
Q 043997          197 RKGSSNCHSTWKAQ-DVSF  214 (222)
Q Consensus       197 ~~~C~~C~k~GH~~-dC~~  214 (222)
                      ...|++|++.||++ |||.
T Consensus       105 ~~~Cy~Cg~~GH~a~dCp~  123 (124)
T 2lli_A          105 TIYCYNCGGKGHFGDDCKE  123 (124)
T ss_dssp             CCCTTTTSSSCTTTTTSCC
T ss_pred             CCCcCCCCCCCcCcccCcC
Confidence            46799999999999 9985

>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}

Probab=91.47  E-value=0.096  Score=37.64  Aligned_cols=19  Identities=11%  Similarity=0.135  Sum_probs=15.3

Q ss_pred             CCCCCCCCCCCccc-ccccC
Q 043997          197 RKGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       197 ~~~C~~C~k~GH~~-dC~~~  215 (222)
                      ...|+.|++.||++ |||..
T Consensus        64 ~~~C~~Cg~~GH~~~~Cp~~   83 (124)
T 2lli_A           64 KVQCTLCKSKKHSKERCPSI   83 (124)
T ss_dssp             CCSSSSSCSSCCCTTTCCCS
T ss_pred             CccCCCCCcCCcchhhCCCc
Confidence            35788888888888 88865

>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}

Probab=85.83  E-value=0.14  Score=26.13  Aligned_cols=19  Identities=16%  Similarity=-0.006  Sum_probs=15.0

Q ss_pred             cCCCCCCCCCCCccc-cccc
Q 043997          196 SRKGSSNCHSTWKAQ-DVSF  214 (222)
Q Consensus       196 ~~~~C~~C~k~GH~~-dC~~  214 (222)
                      .++-|.+|...||.. +|..
T Consensus         2 ~RpYCe~CE~FGH~t~~C~d   21 (26)
T 2hqh_E            2 SRPYCEICEMFGHWATNCND   21 (26)
T ss_dssp             --CEETTTTEESSCGGGCCT
T ss_pred             CCccchHHHHhCcccccCCc
Confidence            355699999999999 9953

---

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	222
d1nc8a_	29	HIV nucleocapsid {Human immunodeficiency virus typ	98.16
d1dsqa_	26	Nucleic acid binding protein p14 {Mouse mammary tu	97.79
d1a6bb_	40	Zinc finger protein ncp10 {Moloney murine leukemia	97.74
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	97.48
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	97.17
d1cl4a_	32	Nucleocapsid protein from mason-pfizer monkey viru	94.54
d1dsva_	31	Nucleic acid binding protein p14 {Mouse mammary tu	93.27

>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=98.16  E-value=3.8e-07  Score=46.17  Aligned_cols=20  Identities=10%  Similarity=0.014  Sum_probs=17.5

Q ss_pred             cCCCCCCCCCCCccc-ccccC
Q 043997          196 SRKGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       196 ~~~~C~~C~k~GH~~-dC~~~  215 (222)
                      ...+||+|||.||.. +|...
T Consensus         5 ~~ikCfNCGkeGH~ar~CrAP   25 (29)
T d1nc8a_           5 KVIRCWNCGKEGHSARQCRAP   25 (29)
T ss_dssp             CCCBCTTTSCBSSCGGGCCSS
T ss_pred             ceeEeecCCccchhhhhccCc
Confidence            457899999999999 99764

>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=97.79  E-value=3.2e-06  Score=40.85  Aligned_cols=18  Identities=17%  Similarity=0.106  Sum_probs=16.0

Q ss_pred             CCCCCCCCCCccc-ccccC
Q 043997          198 KGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~~~  215 (222)
                      +.||.|||.||.+ ||...
T Consensus         3 pvcfscgktghikkdck~e   21 (26)
T d1dsqa_           3 PVCFSCGKTGHIKRDCKEE   21 (26)
T ss_dssp             CBCTTTCCBSSCTTTTTCC
T ss_pred             CEEEecCCcccchhhhhhh
Confidence            5699999999999 99764

>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=97.74  E-value=7.6e-06  Score=44.46  Aligned_cols=23  Identities=17%  Similarity=0.221  Sum_probs=20.7

Q ss_pred             cCCCCCCCCCCCccc-ccccCccc
Q 043997          196 SRKGSSNCHSTWKAQ-DVSFRERV  218 (222)
Q Consensus       196 ~~~~C~~C~k~GH~~-dC~~~~~~  218 (222)
                      .+.+|-+|.+.||++ |||.+|++
T Consensus         9 ~kDQCAyCke~GHW~~dCPkkprg   32 (40)
T d1a6bb_           9 DRDQCAYCKEKGHWAKDCPKKPRG   32 (40)
T ss_dssp             CSSSCSSSCCTTCCTTSCSSSCCC
T ss_pred             cchhhHHHhhcCchhhhCccCCCC
Confidence            567899999999999 99999875

>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=97.48  E-value=3.2e-05  Score=43.93  Aligned_cols=18  Identities=28%  Similarity=0.370  Sum_probs=11.5

Q ss_pred             CCCCCCCCCCccc-ccccC
Q 043997          198 KGSSNCHSTWKAQ-DVSFR  215 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~~~  215 (222)
                      ..|+.||+.||++ |||.+
T Consensus        23 ~~C~~Cg~~GH~~~~Cp~r   41 (42)
T d2exfa1          23 KGCWKCGKEGHQMKDCTER   41 (42)
T ss_dssp             SSCSSSCCSSSCTTTCCSS
T ss_pred             CccccCCCCCeecccCCCC
Confidence            3466666666666 66654

>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=97.17  E-value=9.1e-05  Score=42.00  Aligned_cols=20  Identities=10%  Similarity=0.084  Sum_probs=17.5

Q ss_pred             CCCCCCCCCCCccc-ccccCc
Q 043997          197 RKGSSNCHSTWKAQ-DVSFRE  216 (222)
Q Consensus       197 ~~~C~~C~k~GH~~-dC~~~~  216 (222)
                      +.+||+||+.||++ |||...
T Consensus         1 ni~C~~Cg~~GH~~~~Cp~~~   21 (42)
T d2exfa1           1 NVKCFNCGKEGHTARNCRAPR   21 (42)
T ss_dssp             CCCCTTTCCSSSCTTTCSSCC
T ss_pred             CCccccCCCcCcCcccCcCCC
Confidence            36899999999999 999853

>d1cl4a_ g.40.1.1 (A:) Nucleocapsid protein from mason-pfizer monkey virus (MPMV) {Mason-pfizer monkey virus [TaxId: 11855]}

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: Nucleocapsid protein from mason-pfizer monkey virus (MPMV)
species: Mason-pfizer monkey virus [TaxId: 11855]

Probab=94.54  E-value=0.014  Score=29.95  Aligned_cols=24  Identities=8%  Similarity=0.033  Sum_probs=21.1

Q ss_pred             CCCCCCCCCCccc-ccccCcccccC
Q 043997          198 KGSSNCHSTWKAQ-DVSFRERVDCN  221 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~~~~~~~~~  221 (222)
                      +.|-.|+|..|+. ||.+.-++|-+
T Consensus         3 ~lCPrC~kG~HWa~~Crsk~~~~G~   27 (32)
T d1cl4a_           3 GLCPRCKRGKHWANECKSKTDNQGN   27 (32)
T ss_dssp             CSCSSCSSCSSCSTTCCCTTSSSSC
T ss_pred             ccCccccCcchHHHHhhhhhccCCC
Confidence            4599999999999 99999888765

>d1dsva_ 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=93.27  E-value=0.015  Score=29.64  Aligned_cols=24  Identities=13%  Similarity=0.173  Sum_probs=20.5

Q ss_pred             CCCCCCCCCCccc-ccccCcccccC
Q 043997          198 KGSSNCHSTWKAQ-DVSFRERVDCN  221 (222)
Q Consensus       198 ~~C~~C~k~GH~~-dC~~~~~~~~~  221 (222)
                      ..|-.|+|..|+. ||.+.-++|-+
T Consensus         3 ~lCPrC~kG~HWa~~Crsk~~~~G~   27 (31)
T d1dsva_           3 GLCPRCKKGYHWKSECKSKFDKDGN   27 (31)
T ss_dssp             CBCTTTCSSBSCTTTCCCSEEGGGE
T ss_pred             ccCccccCcchHHHHhhhhhccCCC
Confidence            4599999999999 99999777653