Citrus Sinensis ID: 046237

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------
Protein Sequence
VDQRRILCTRPWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGSMIGEVEEVDKGVKINITRPLMRGLTVQLEGEENLSTVEVYYERLPDFCFQRGRIGHVFRECPYLKSSPTNFILII
Secondary Structure (PSIPRED)
cHHHHHHccccEEEcccEEEEEcccccccccccccccEEEEEEEccccccccHHHHHHHHccccccEEEEEEEEEEEcccccEEEEEEEEccccccEEEEEEEccccccccccccEEcccccccccccccccEEEEc
Secondary Structure Prediction (SSPRO)
ccHHHHHccccccEcccEEEEEEcccccccccccccEEEEEEEEcccccccccHHHHHHHHHHcccEEEEEEEEEEEcccccEEEEEEEEccccEEEEEEEEEEccccHEEEccccccccccccccccccccEEEEc
Coil and Loop (DISEMBL)
vdqrrilctrpwsfnrclfvlteptgigdfskqnLNFCSFWIQlhklplmsMTKVVGLLFGSMigeveevdkgvkinitrplmrgltvqlegeenlSTVEVYYERlpdfcfqrgrighvfrecpylkssptnfilii
Flexible Loop (DISEMBL)
vdqrrilctrpwsfnrcLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGSMIGEVEevdkgvkinitrplmrgltvqlegeeNLSTVEVYYERLPDFCFQRGRIGHVFrecpylkssptnfilii
Low Complexity Region (SEG)
VDQRRILCTRPWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGSMIGEVEEVDKGVKINITRPLMRGLTVQLEGEENLSTVEVYYERLPDFCFQRGRIGHVFRECPYLKSSPTNFILII
Disordered region (IsUnstruct)
****RILCTRPWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGSMIGEVEEVDKGVKINITRPLMRGLTVQLEGEENLSTVEVYYERLPDFCFQRGRIGHVFRECPYLKSSPTNFILI*
Disordered Region (DISOPRED)
VDQRRILCTRPWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGSMIGEVEEVDKGVKINITRPLMRGLTVQLEGEENLSTVEVYYERLPDFCFQRGRIGHVFRECPYLKSSPTNFILII
Disordered Region (DISEMBL)
VDQRRILCTRPWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGSMIGEVEEVDKGVKINITRPLMRGLTVQLEGEENLSTVEVYYERLPDFCFQRGRIGHVFRECPYLKSSPTNFILII
Disordered Region (DISPRO)
VDQRRILCTRPWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGSMIGEVEEVDKGVKINITRPLMRGLTVQLEGEENLSTVEVYYERLPDFCFQRGRIGHVFRECPYLKSSPTNFILII
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
VDQRRILCTRPWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGSMIGEVEEVDKGVKINITRPLMRGLTVQLEGEENLSTVEVYYERLPDFCFQRGRIGHVFRECPYLKSSPTNFILII
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	137
242061544	503	hypothetical protein SORBIDRAFT_04g01784	0.934	0.254	0.383	5e-18
218187613	1499	hypothetical protein OsI_00627 [Oryza sa	0.824	0.075	0.362	2e-13
332322140	465	hypothetical protein [Beta vulgaris subs	0.883	0.260	0.345	3e-13
222617844	1066	hypothetical protein OsJ_00596 [Oryza sa	0.824	0.106	0.362	6e-13
110288692	1853	retrotransposon protein, putative, uncla	0.824	0.060	0.343	1e-12
22711564	1888	Putative retroelement [Oryza sativa Japo	0.824	0.059	0.343	1e-12
222612512	680	hypothetical protein OsJ_30864 [Oryza sa	0.824	0.166	0.343	1e-12
33465891	2367	bZIP-like protein [Oryza sativa Japonica	0.890	0.051	0.321	6e-12
77554244	1913	retrotransposon protein, putative, uncla	0.890	0.063	0.313	8e-12
222612692	1594	hypothetical protein OsJ_31232 [Oryza sa	0.883	0.075	0.320	1e-11

>gi|242061544|ref|XP_002452061.1| hypothetical protein SORBIDRAFT_04g017843 [Sorghum bicolor] gi|241931892|gb|EES05037.1| hypothetical protein SORBIDRAFT_04g017843 [Sorghum bicolor]

 Score = 95.9 bits (237), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 56/146 (38%), Positives = 81/146 (55%), Gaps = 18/146 (12%)

Query: 3   QRRILCTRPWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGS 62
           +++ L   PW F + L V+ E  G     + +  F   WI++HK+PL  MT+  G L G 
Sbjct: 4   RQKTLEEGPWMFGKELVVVAEFEGNKTIDEVDFFFIPIWIRVHKMPLGLMTREAGELIGE 63

Query: 63  MIGEVEEVDKG-------------VKINITRPLMRGLTVQL-EGE-ENLSTVEVYYERLP 107
           M+G+V +VD               V+++I +PLMRG+T+ + +G+ EN     + YE LP
Sbjct: 64  MVGKVLDVDADENGRAVGEFLRIKVRLDIRKPLMRGVTLDIGDGDHENNKWCPLVYEFLP 123

Query: 108 DFCFQRGRIGHVFRECPYL---KSSP 130
           DFCF  G IGHV R CPY    +SSP
Sbjct: 124 DFCFICGLIGHVDRACPYYAQNRSSP 149

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218187613|gb|EEC70040.1| hypothetical protein OsI_00627 [Oryza sativa Indica Group]

 Score = 80.5 bits (197), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 46/127 (36%), Positives = 72/127 (56%), Gaps = 14/127 (11%)

Query: 11  PWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGSMIGEVEEV 70
           PW +    F++TE  G    S   LN    W++++ LPL  MT+ +G L G+ +GEV +V
Sbjct: 114 PWIYQGDAFLITEYDGKSRPSDVKLNSLPVWVRIYDLPLSMMTETMGKLIGARLGEVRKV 173

Query: 71  ---DKG------VKINITRPLMRGLT--VQLEGEENLSTVEVY---YERLPDFCFQRGRI 116
              D+G      +++    P+ + LT  ++L+ +E+ S V+ Y   YER+P FCF  G I
Sbjct: 174 AVDDQGRAWDDFMRVRAEHPVDKSLTRWLKLKDKESSSVVQRYDVKYERIPRFCFYYGHI 233

Query: 117 GHVFREC 123
           GH+ REC
Sbjct: 234 GHMEREC 240

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|332322140|emb|CCA66049.1| hypothetical protein [Beta vulgaris subsp. vulgaris]

 Score = 79.7 bits (195), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 46/133 (34%), Positives = 70/133 (52%), Gaps = 12/133 (9%)

Query: 2   DQRRILCTRPWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFG 61
           D+ +++  RPWSF++ L +L E       S   L    FW++++ LP+   ++    + G
Sbjct: 88  DKEKVMAGRPWSFDQSLVLLQEIDADVQPSNVRLTHSPFWVRVYNLPMRCRSEQHIRMIG 147

Query: 62  SMIGEVEEVDKG-----------VKINITRPLMRGLTVQLEGEENLSTVEVYYERLPDFC 110
             IG+V EVD             V I+IT+PL R     L+   + + VE+ YERLP FC
Sbjct: 148 GCIGDVLEVDTHEILWDKSARIRVLIDITKPLRRVQRFALKNGVS-ALVEIKYERLPTFC 206

Query: 111 FQRGRIGHVFREC 123
           F  G IGH+ R+C
Sbjct: 207 FLCGVIGHIGRDC 219

Source: Beta vulgaris subsp. vulgaris

Species: Beta vulgaris

Genus: Beta

Family: Amaranthaceae

Order: Caryophyllales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222617844|gb|EEE53976.1| hypothetical protein OsJ_00596 [Oryza sativa Japonica Group]

 Score = 79.0 bits (193), Expect = 6e-13,   Method: Composition-based stats.
 Identities = 46/127 (36%), Positives = 72/127 (56%), Gaps = 14/127 (11%)

Query: 11  PWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGSMIGEVEEV 70
           PW +    F++TE  G    S   LN    W++++ LPL  MT+ +G L G+ +GEV +V
Sbjct: 114 PWIYQGDAFLITEYDGKSRPSDVKLNSLPVWVRIYDLPLSMMTETMGKLIGARLGEVRKV 173

Query: 71  ---DKG------VKINITRPLMRGLT--VQLEGEENLSTVEVY---YERLPDFCFQRGRI 116
              D+G      +++    P+ + LT  ++L+ +E+ S V+ Y   YER+P FCF  G I
Sbjct: 174 AVDDQGRAWDDFMRVRAEHPVDKPLTCWLKLKDKESSSVVQRYDVKYERIPRFCFYCGHI 233

Query: 117 GHVFREC 123
           GH+ REC
Sbjct: 234 GHMEREC 240

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|110288692|gb|ABB46931.2| retrotransposon protein, putative, unclassified [Oryza sativa Japonica Group]

 Score = 78.2 bits (191), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 44/128 (34%), Positives = 68/128 (53%), Gaps = 15/128 (11%)

Query: 11  PWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGSMIGEVEEV 70
           PW       ++    GI   S   L+    W++++ LPL+ MTKV G +FGS +G+V EV
Sbjct: 304 PWIHRGDALLVASFDGITCPSNVPLDVVPIWVRIYDLPLVLMTKVRGEMFGSKLGKVREV 363

Query: 71  DKG-------------VKINITRPLMRGLTVQL--EGEENLSTVEVYYERLPDFCFQRGR 115
           D G             V + + RPL   + +++  +G+E L   +++YER+P FCF  G 
Sbjct: 364 DVGDDGRNKHDFFHIRVDLPVKRPLKSQIAIRMTVQGKEVLRRFDLHYERVPHFCFICGF 423

Query: 116 IGHVFREC 123
           IGH  R+C
Sbjct: 424 IGHSDRDC 431

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22711564|gb|AAM01179.2|AC113336_31 Putative retroelement [Oryza sativa Japonica Group]

 Score = 78.2 bits (191), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 44/128 (34%), Positives = 68/128 (53%), Gaps = 15/128 (11%)

Query: 11  PWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGSMIGEVEEV 70
           PW       ++    GI   S   L+    W++++ LPL+ MTKV G +FGS +G+V EV
Sbjct: 304 PWIHRGDALLVASFDGITCPSNVPLDVVPIWVRIYDLPLVLMTKVRGEMFGSKLGKVREV 363

Query: 71  DKG-------------VKINITRPLMRGLTVQL--EGEENLSTVEVYYERLPDFCFQRGR 115
           D G             V + + RPL   + +++  +G+E L   +++YER+P FCF  G 
Sbjct: 364 DVGDDGRNKHDFFHIRVDLPVKRPLKSQIAIRMTVQGKEVLRRFDLHYERVPHFCFICGF 423

Query: 116 IGHVFREC 123
           IGH  R+C
Sbjct: 424 IGHSDRDC 431

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222612512|gb|EEE50644.1| hypothetical protein OsJ_30864 [Oryza sativa Japonica Group]

 Score = 78.2 bits (191), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 44/128 (34%), Positives = 68/128 (53%), Gaps = 15/128 (11%)

Query: 11  PWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGSMIGEVEEV 70
           PW       ++    GI   S   L+    W++++ LPL+ MTKV G +FGS +G+V EV
Sbjct: 304 PWIHRGDALLVASFDGITCPSNVPLDVVPIWVRIYDLPLVLMTKVRGEMFGSKLGKVREV 363

Query: 71  DKG-------------VKINITRPLMRGLTVQL--EGEENLSTVEVYYERLPDFCFQRGR 115
           D G             V + + RPL   + +++  +G+E L   +++YER+P FCF  G 
Sbjct: 364 DVGDDGRNKHDFFHIRVDLPVKRPLKSQIAIRMTVQGKEVLRRFDLHYERVPHFCFICGF 423

Query: 116 IGHVFREC 123
           IGH  R+C
Sbjct: 424 IGHSDRDC 431

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|33465891|gb|AAQ19327.1| bZIP-like protein [Oryza sativa Japonica Group]

 Score = 75.5 bits (184), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 44/137 (32%), Positives = 69/137 (50%), Gaps = 15/137 (10%)

Query: 2   DQRRILCTRPWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFG 61
           D   +L   PW       ++ E  G+ + S  NL+    W++++ LPL+ M +  G L+G
Sbjct: 406 DYNFVLQGDPWLHRGDALLVAEFNGLLNPSMVNLDTVPIWVRIYDLPLVMMNRARGELYG 465

Query: 62  SMIGEVEEVDKG-------------VKINITRPLMRGLTVQL--EGEENLSTVEVYYERL 106
           S +G+V EVD               V + + RPL R L +++  +G+E      + YER+
Sbjct: 466 SKMGKVREVDVQEDGCNKHDFFRIRVDLPVNRPLRRMLAIKIKVQGKEETRRFHLRYERV 525

Query: 107 PDFCFQRGRIGHVFREC 123
           P FCF  G IGH  +EC
Sbjct: 526 PHFCFFCGFIGHSDKEC 542

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|77554244|gb|ABA97040.1| retrotransposon protein, putative, unclassified [Oryza sativa Japonica Group]

 Score = 75.1 bits (183), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 43/137 (31%), Positives = 69/137 (50%), Gaps = 15/137 (10%)

Query: 2   DQRRILCTRPWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFG 61
           D R ++   PW       ++ E  GI   SK  L+    W++++ LPL+ MTK  G ++G
Sbjct: 246 DYRFVIQGGPWIHRGDALLVAEFDGITCPSKVTLDVIPVWVRIYDLPLVLMTKARGEIYG 305

Query: 62  SMIGEVEEVDKG-------------VKINITRPLMRGLTVQLEGEENLST--VEVYYERL 106
           S +G V EVD G               +++ RPL   LT+++  +  + T    + YER+
Sbjct: 306 SKLGRVREVDVGDDGRNKHDFFRIRADLSVKRPLKDKLTIKISAQGRVETRSFALRYERV 365

Query: 107 PDFCFQRGRIGHVFREC 123
           P FCF  G +GH  ++C
Sbjct: 366 PHFCFICGFMGHADKDC 382

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222612692|gb|EEE50824.1| hypothetical protein OsJ_31232 [Oryza sativa Japonica Group]

 Score = 74.7 bits (182), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 43/134 (32%), Positives = 64/134 (47%), Gaps = 13/134 (9%)

Query: 3   QRRILCTRPWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGS 62
           +RR L   PW FN+ L V+ +             F   W++  KLPL  MTK  G+  G 
Sbjct: 58  KRRALEDGPWMFNKDLVVMIDLDETKLIEDMIFAFVPIWVRAMKLPLGLMTKETGMAIGR 117

Query: 63  MIGEVEEVDK-------------GVKINITRPLMRGLTVQLEGEENLSTVEVYYERLPDF 109
            +GE   +D               ++I+I +PLMRG+T+ +  +E      + YE LPDF
Sbjct: 118 EVGEFMTMDLEEDGSAVGQFLRIKIRIDIRKPLMRGVTLFVGADERPLWCPLVYEFLPDF 177

Query: 110 CFQRGRIGHVFREC 123
           C+  G +GH  + C
Sbjct: 178 CYICGIVGHTEKLC 191

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

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)

No hits with e-value below 0.001 by BLAST

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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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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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	137
pfam14392	49	pfam14392, zf-CCHC_4, Zinc knuckle	1e-13
pfam14111	153	pfam14111, DUF4283, Domain of unknown function (DU	1e-06

>gnl|CDD|222730 pfam14392, zf-CCHC_4, Zinc knuckle

 Score = 60.3 bits (147), Expect = 1e-13
 Identities = 21/50 (42%), Positives = 32/50 (64%), Gaps = 1/50 (2%)

Query: 76  INITRPLMRGLTVQLEGEENLSTVEVYYERLPDFCFQRGRIGHVFRECPY 125
           +++++PL   + V+    E    V+V YERLP+FCF  GR+GH  +ECP 
Sbjct: 1   LDVSKPLRFEVNVKFPSGEEA-VVKVRYERLPNFCFHCGRLGHSDKECPK 49

The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. This particular family is found in plant proteins. Length = 49

>gnl|CDD|222549 pfam14111, DUF4283, Domain of unknown function (DUF4283)

 Score = 44.5 bits (106), Expect = 1e-06
 Identities = 18/71 (25%), Positives = 31/71 (43%)

Query: 2   DQRRILCTRPWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFG 61
           D  R+L   PW F     +L   +     S++ L     W++++ LPL   ++ +    G
Sbjct: 67  DAERVLRRGPWLFGGWALILERWSPEVGCSEEELKRIPVWVRIYGLPLHLWSEEILKRIG 126

Query: 62  SMIGEVEEVDK 72
           S  G    VD+
Sbjct: 127 SACGGFVAVDE 137

This domain family is found in plants, and is approximately 100 amino acids in length. Considering the very diverse range of other domains it is associated with it is possible that this domain is a binding/guiding region. There are two highly conserved tryptophan residues. Length = 153

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	137
PF14111	153	DUF4283: Domain of unknown function (DUF4283)	99.79
PF14392	49	zf-CCHC_4: Zinc knuckle	99.78
PF00098	18	zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi	97.47
PF13696	32	zf-CCHC_2: Zinc knuckle	95.37
smart00343	26	ZnF_C2HC zinc finger.	94.53
PF15288	40	zf-CCHC_6: Zinc knuckle	94.52
PF13917	42	zf-CCHC_3: Zinc knuckle	93.09
COG5082	190	AIR1 Arginine methyltransferase-interacting protei	91.79
COG5082	190	AIR1 Arginine methyltransferase-interacting protei	89.64
PTZ00368	148	universal minicircle sequence binding protein (UMS	84.53
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	83.66
KOG4400	261	consensus E3 ubiquitin ligase interacting with arg	82.53

>PF14111 DUF4283: Domain of unknown function (DUF4283)

Probab=99.79  E-value=1.7e-20  Score=135.63  Aligned_cols=71  Identities=30%  Similarity=0.485  Sum_probs=69.8

Q ss_pred             chhhhccCCCEEEcCCEEEEecCCCCCCCcccccceeeeeeeecCCCcccchhhHHhhhccccccEEEeee
Q 046237            2 DQRRILCTRPWSFNRCLFVLTEPTGIGDFSKQNLNFCSFWIQLHKLPLMSMTKVVGLLFGSMIGEVEEVDK   72 (137)
Q Consensus         2 D~~~Vl~~gPW~~~~~~lil~~w~~~~~~~~~~l~~~~vWVri~~LP~~~~~~~~~~~Ig~~iG~~l~vD~   72 (137)
                      |+++|+++|||+|+|+.+++++|+|++++++..++++++||||+|||+.||+++++.+||+.+|+++++|.
T Consensus        67 d~~~vl~~~p~~~~~~~~~l~~W~~~~~~~~~~~~~~~vWVri~glP~~~~~~~~~~~i~~~iG~~i~vD~  137 (153)
T PF14111_consen   67 DRQRVLKGGPWNFNGHFLILQRWSPDFNPSEVKFEHIPVWVRIYGLPLHLWSEEILKAIGSKIGEPIEVDE  137 (153)
T ss_pred             ceeEEEecccccccccchhhhhhcccccccccceeccchhhhhccCCHHHhhhHHHHHHHHhcCCeEEEEc
Confidence            88999999999999999999999999999999999999999999999999999999999999999999996

>PF14392 zf-CCHC_4: Zinc knuckle

Probab=99.78  E-value=1.2e-19  Score=109.53  Aligned_cols=49  Identities=47%  Similarity=0.891  Sum_probs=46.6

Q ss_pred             eeecCCCceeEEEeecCCcceEEEEEEeeccCccccCCcccccCCCcCCC
Q 046237           76 INITRPLMRGLTVQLEGEENLSTVEVYYERLPDFCFQRGRIGHVFRECPY  125 (137)
Q Consensus        76 idv~kPL~~~v~i~~~~~~~~~~~~v~YE~lp~fC~~Cg~iGH~~~~C~~  125 (137)
                      ||+++||.+.+.+++++ |+..+++|+|||||.||++||.+||+.++|++
T Consensus         1 id~~kPL~~~i~v~~~~-g~~~~~~v~YE~lp~~C~~C~~~gH~~~~C~k   49 (49)
T PF14392_consen    1 IDVSKPLRREIKVKFPE-GESFWVKVKYERLPRFCFHCGRIGHSDKECPK   49 (49)
T ss_pred             CCCCCcccceEEEEeCC-CcEEEEEEEECCcChhhcCCCCcCcCHhHcCC
Confidence            68999999999999886 78999999999999999999999999999985

>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=97.47  E-value=5.8e-05  Score=36.18  Aligned_cols=17  Identities=47%  Similarity=1.095  Sum_probs=15.7

Q ss_pred             cccCCcccccCCCcCCC
Q 046237          109 FCFQRGRIGHVFRECPY  125 (137)
Q Consensus       109 fC~~Cg~iGH~~~~C~~  125 (137)
                      -|++||..||..++||.
T Consensus         2 ~C~~C~~~GH~~~~Cp~   18 (18)
T PF00098_consen    2 KCFNCGEPGHIARDCPK   18 (18)
T ss_dssp             BCTTTSCSSSCGCTSSS
T ss_pred             cCcCCCCcCcccccCcc
Confidence            59999999999999984

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=95.37  E-value=0.0086  Score=32.77  Aligned_cols=18  Identities=33%  Similarity=0.859  Sum_probs=17.2

Q ss_pred             ccccCCcccccCCCcCCC
Q 046237          108 DFCFQRGRIGHVFRECPY  125 (137)
Q Consensus       108 ~fC~~Cg~iGH~~~~C~~  125 (137)
                      +.|..|+.-||..+.||.
T Consensus         9 Y~C~~C~~~GH~i~dCP~   26 (32)
T PF13696_consen    9 YVCHRCGQKGHWIQDCPT   26 (32)
T ss_pred             CEeecCCCCCccHhHCCC
Confidence            589999999999999999

>smart00343 ZnF_C2HC zinc finger

Probab=94.53  E-value=0.016  Score=29.81  Aligned_cols=18  Identities=39%  Similarity=1.032  Sum_probs=15.9

Q ss_pred             cccCCcccccCCCcCCCC
Q 046237          109 FCFQRGRIGHVFRECPYL  126 (137)
Q Consensus       109 fC~~Cg~iGH~~~~C~~~  126 (137)
                      .|+.||..||..++|+..
T Consensus         1 ~C~~CG~~GH~~~~C~~~   18 (26)
T smart00343        1 KCYNCGKEGHIARDCPKX   18 (26)
T ss_pred             CCccCCCCCcchhhCCcc
Confidence            499999999999999843

>PF15288 zf-CCHC_6: Zinc knuckle

Probab=94.52  E-value=0.022  Score=32.69  Aligned_cols=21  Identities=29%  Similarity=0.546  Sum_probs=17.3

Q ss_pred             ccccCCcccccCC--CcCCCCCC
Q 046237          108 DFCFQRGRIGHVF--RECPYLKS  128 (137)
Q Consensus       108 ~fC~~Cg~iGH~~--~~C~~~~~  128 (137)
                      .-|..||.+||..  +.||.-..
T Consensus         2 ~kC~~CG~~GH~~t~k~CP~~~~   24 (40)
T PF15288_consen    2 VKCKNCGAFGHMRTNKRCPMYCW   24 (40)
T ss_pred             ccccccccccccccCccCCCCCC
Confidence            3599999999987  78998763

>PF13917 zf-CCHC_3: Zinc knuckle

Probab=93.09  E-value=0.063  Score=31.16  Aligned_cols=19  Identities=37%  Similarity=0.606  Sum_probs=17.3

Q ss_pred             CccccCCcccccCCCcCCC
Q 046237          107 PDFCFQRGRIGHVFRECPY  125 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~  125 (137)
                      ...|..|+..||-..+|+.
T Consensus         4 ~~~CqkC~~~GH~tyeC~~   22 (42)
T PF13917_consen    4 RVRCQKCGQKGHWTYECPN   22 (42)
T ss_pred             CCcCcccCCCCcchhhCCC
Confidence            4689999999999999995

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

Probab=91.79  E-value=0.093  Score=39.90  Aligned_cols=22  Identities=36%  Similarity=0.845  Sum_probs=13.7

Q ss_pred             eeccCccccCCcccccCCCcCC
Q 046237          103 YERLPDFCFQRGRIGHVFRECP  124 (137)
Q Consensus       103 YE~lp~fC~~Cg~iGH~~~~C~  124 (137)
                      +-.--.+|++||..||..++||
T Consensus        56 ~~~~~~~C~nCg~~GH~~~DCP   77 (190)
T COG5082          56 IREENPVCFNCGQNGHLRRDCP   77 (190)
T ss_pred             ccccccccchhcccCcccccCC
Confidence            3334456666666666666666

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

Probab=89.64  E-value=0.15  Score=38.86  Aligned_cols=16  Identities=38%  Similarity=0.995  Sum_probs=11.8

Q ss_pred             cccCCcccccCCCcCC
Q 046237          109 FCFQRGRIGHVFRECP  124 (137)
Q Consensus       109 fC~~Cg~iGH~~~~C~  124 (137)
                      .|++||..||..+.|+
T Consensus        99 ~C~~Cg~~GH~~~dC~  114 (190)
T COG5082          99 KCYNCGETGHLSRDCN  114 (190)
T ss_pred             ccccccccCccccccC
Confidence            4567788888888883

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

Probab=84.53  E-value=0.53  Score=33.82  Aligned_cols=19  Identities=37%  Similarity=0.973  Sum_probs=14.9

Q ss_pred             CccccCCcccccCCCcCCC
Q 046237          107 PDFCFQRGRIGHVFRECPY  125 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~  125 (137)
                      +..|++||..||..++||.
T Consensus       129 ~~~C~~Cg~~gH~~~dCp~  147 (148)
T PTZ00368        129 DKTCYNCGQTGHLSRDCPD  147 (148)
T ss_pred             CCccccCCCcCcccccCCC
Confidence            4688888888888888875

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

Probab=83.66  E-value=1.9  Score=35.13  Aligned_cols=85  Identities=18%  Similarity=0.247  Sum_probs=58.5

Q ss_pred             eeeecCCCcccchhhHHhhhccccccEEEeee-----eeEeeecCCCceeE---E-EeecCCcceEEEEEEeeccC----
Q 046237           41 WIQLHKLPLMSMTKVVGLLFGSMIGEVEEVDK-----GVKINITRPLMRGL---T-VQLEGEENLSTVEVYYERLP----  107 (137)
Q Consensus        41 WVri~~LP~~~~~~~~~~~Ig~~iG~~l~vD~-----rV~idv~kPL~~~v---~-i~~~~~~~~~~~~v~YE~lp----  107 (137)
                      =+.+.|+.....+.+ +++.=..-|.+++.|.     -|.+|...-....+   . -++.  |...-+++.=-||.    
T Consensus        80 kl~vgNis~tctn~E-lRa~fe~ygpviecdivkdy~fvh~d~~eda~~air~l~~~~~~--gk~m~vq~stsrlrtapg  156 (346)
T KOG0109|consen   80 KLHVGNISPTCTNQE-LRAKFEKYGPVIECDIVKDYAFVHFDRAEDAVEAIRGLDNTEFQ--GKRMHVQLSTSRLRTAPG  156 (346)
T ss_pred             ccccCCCCccccCHH-HhhhhcccCCceeeeeecceeEEEEeeccchHHHHhcccccccc--cceeeeeeeccccccCCC
Confidence            345778888888877 4555567799999987     34455433322221   0 1223  56677778777775    


Q ss_pred             ----ccccCCcccccCCCcCCCCCC
Q 046237          108 ----DFCFQRGRIGHVFRECPYLKS  128 (137)
Q Consensus       108 ----~fC~~Cg~iGH~~~~C~~~~~  128 (137)
                          --|+.||+-||-+++||....
T Consensus       157 mgDq~~cyrcGkeghwskEcP~~~~  181 (346)
T KOG0109|consen  157 MGDQSGCYRCGKEGHWSKECPVDRT  181 (346)
T ss_pred             CCCHHHheeccccccccccCCccCC
Confidence                479999999999999998764

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

Probab=82.53  E-value=0.61  Score=36.69  Aligned_cols=25  Identities=28%  Similarity=0.551  Sum_probs=19.7

Q ss_pred             EEeeccCccccCCcccccCCCcCCCC
Q 046237          101 VYYERLPDFCFQRGRIGHVFRECPYL  126 (137)
Q Consensus       101 v~YE~lp~fC~~Cg~iGH~~~~C~~~  126 (137)
                      +.+.+- .+||.||..||...+|+..
T Consensus       138 ~~~~~~-~~Cy~Cg~~GH~s~~C~~~  162 (261)
T KOG4400|consen  138 VDGPKP-AKCYSCGEQGHISDDCPEN  162 (261)
T ss_pred             ccCCCC-CccCCCCcCCcchhhCCCC
Confidence            344444 6799999999999999955

---

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	137
1dsq_A	26	Nucleic acid binding protein P14; CCHC type zinc f	97.46
1nc8_A	29	Nucleocapsid protein; HIV-2, RNA recognition, zinc	96.98
1a6b_B	40	Momulv, zinc finger protein NCP10; nucleocapsid pr	96.92
1u6p_A	56	GAG polyprotein; MLV, A-minor K-turn, stem loop, b	96.41
2hqh_E	26	Restin; beta/BETA structure, zinc finger motif, st	96.29
3nyb_B	83	Protein AIR2; polya RNA polymerase, zinc knuckle p	96.17
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	95.53
2ihx_A	61	Nucleocapsid (NC) protein; protein-RNA complex, vi	95.51
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	95.4
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	95.26
2ysa_A	55	Retinoblastoma-binding protein 6; zinc finger, CCH	95.25
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	95.22
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	95.19
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	95.17
1cl4_A	60	Protein (GAG polyprotein); nucleocapsid protein, R	95.16
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	94.97
2ihx_A	61	Nucleocapsid (NC) protein; protein-RNA complex, vi	94.8
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	94.73
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	94.73
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	94.46
1cl4_A	60	Protein (GAG polyprotein); nucleocapsid protein, R	93.87
3ts2_A	148	Protein LIN-28 homolog A; microrna biogenesis, pro	93.48
3nyb_B	83	Protein AIR2; polya RNA polymerase, zinc knuckle p	93.2
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	93.09
2pzo_E	42	CAP-Gly domain-containing linker protein 1; struct	93.01
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	92.95
3ts2_A	148	Protein LIN-28 homolog A; microrna biogenesis, pro	92.78
3e2u_E	42	CAP-Gly domain-containing linker protein 1; struct	91.27
2lli_A	124	Protein AIR2; RNA surveillance, RNA degradation, R	90.05
2lli_A	124	Protein AIR2; RNA surveillance, RNA degradation, R	86.26

>1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A

Probab=96.98  E-value=0.00035  Score=36.50  Aligned_cols=21  Identities=29%  Similarity=0.570  Sum_probs=18.3

Q ss_pred             CccccCCcccccCCCcCCCCC
Q 046237          107 PDFCFQRGRIGHVFRECPYLK  127 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~~~  127 (137)
                      ..-|++||..||..++|+.+.
T Consensus         6 ~~~C~nCgk~GH~ar~C~~pr   26 (29)
T 1nc8_A            6 VIRCWNCGKEGHSARQCRAPR   26 (29)
T ss_dssp             CCBCTTTSCBSSCGGGCCSSS
T ss_pred             CCEEEECCccccCHhHCcccc
Confidence            456999999999999998764

>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=96.92  E-value=0.00049  Score=38.79  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=19.5

Q ss_pred             CccccCCcccccCCCcCCCCCC
Q 046237          107 PDFCFQRGRIGHVFRECPYLKS  128 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~~~~  128 (137)
                      ..-|++||..||-+++||....
T Consensus        10 ~~~C~~Cgk~GH~ardCP~~~~   31 (40)
T 1a6b_B           10 RDQCAYCKEKGHWAKDCPKKPR   31 (40)
T ss_dssp             SSSCSSSCCTTCCTTSCSSSCC
T ss_pred             CCeeeECCCCCcchhhCcCCcc
Confidence            3679999999999999999764

>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=96.41  E-value=0.0015  Score=39.35  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=19.3

Q ss_pred             CccccCCcccccCCCcCCCCCC
Q 046237          107 PDFCFQRGRIGHVFRECPYLKS  128 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~~~~  128 (137)
                      ..-|+.||..||-.++||....
T Consensus        23 ~~~C~~Cge~GH~ardCp~~~~   44 (56)
T 1u6p_A           23 RDQCAYCKEKGHWAKDCPKKPR   44 (56)
T ss_dssp             TTBCSSSCCBSSCGGGCTTCCC
T ss_pred             CCcceeCCCCCcccccCcCCcc
Confidence            3679999999999999998763

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

Probab=96.29  E-value=0.0015  Score=33.20  Aligned_cols=21  Identities=19%  Similarity=0.301  Sum_probs=17.9

Q ss_pred             CccccCCcccccCCCcCCCCC
Q 046237          107 PDFCFQRGRIGHVFRECPYLK  127 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~~~  127 (137)
                      ..||..|..+||...+|+...
T Consensus         3 RpYCe~CE~FGH~t~~C~d~e   23 (26)
T 2hqh_E            3 RPYCEICEMFGHWATNCNDDE   23 (26)
T ss_dssp             -CEETTTTEESSCGGGCCTTC
T ss_pred             CccchHHHHhCcccccCCccc
Confidence            479999999999999997653

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

Probab=96.17  E-value=0.0026  Score=41.23  Aligned_cols=24  Identities=29%  Similarity=0.587  Sum_probs=21.2

Q ss_pred             CccccCCcccccCCCcCCCCCCCC
Q 046237          107 PDFCFQRGRIGHVFRECPYLKSSP  130 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~~~~~~  130 (137)
                      ..+|++||.-||..++|+....+.
T Consensus        46 ~~~CYnCG~~GH~~rdC~~~r~s~   69 (83)
T 3nyb_B           46 TIYCYNCGGKGHFGDDCKEKRSSR   69 (83)
T ss_dssp             CCBCSSSSCBSSCGGGCSSCCSCS
T ss_pred             CCeecccCCCCcCcccCCccccCc
Confidence            379999999999999999987653

>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=95.53  E-value=0.0068  Score=35.15  Aligned_cols=20  Identities=30%  Similarity=0.554  Sum_probs=13.0

Q ss_pred             CccccCCcccccCCCcCCCC
Q 046237          107 PDFCFQRGRIGHVFRECPYL  126 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~~  126 (137)
                      +..|+.||..||..++|+.+
T Consensus         6 ~~~C~~Cg~~GH~a~~C~~~   25 (49)
T 2ec7_A            6 VIRCWNCGKEGHSARQCRAP   25 (49)
T ss_dssp             CCBCTTTCCBTCCTTTCCCS
T ss_pred             cCeeeecCCCCcChhhCcCC
Confidence            45577777777777777654

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

Probab=95.51  E-value=0.0059  Score=37.02  Aligned_cols=20  Identities=30%  Similarity=0.738  Sum_probs=10.5

Q ss_pred             CccccCCcccccCCCcCCCC
Q 046237          107 PDFCFQRGRIGHVFRECPYL  126 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~~  126 (137)
                      +..||.||..||..++|+..
T Consensus         4 ~~~C~~Cg~~GH~a~~C~~~   23 (61)
T 2ihx_A            4 RGLCYTCGSPGHYQAQCPKK   23 (61)
T ss_dssp             TTBCSSSCCBTCCGGGCTTT
T ss_pred             CCcccccCCCCeehhhCcCC
Confidence            34455555555555555543

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

Probab=95.40  E-value=0.0063  Score=33.55  Aligned_cols=18  Identities=39%  Similarity=0.761  Sum_probs=16.2

Q ss_pred             cccCCcccccCCCcCCCC
Q 046237          109 FCFQRGRIGHVFRECPYL  126 (137)
Q Consensus       109 fC~~Cg~iGH~~~~C~~~  126 (137)
                      .|++||..||..++|+.+
T Consensus         2 ~C~~Cg~~GH~a~~C~~~   19 (39)
T 2a51_A            2 TCFNCGKPGHTARMCRQP   19 (39)
T ss_dssp             BCTTTCCBSSCTTTCCSC
T ss_pred             eeeccCCCCcccccCCCC
Confidence            599999999999999875

>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=95.26  E-value=0.0087  Score=34.67  Aligned_cols=21  Identities=33%  Similarity=0.854  Sum_probs=18.4

Q ss_pred             ccccCCcccccCCCcCCCCCC
Q 046237          108 DFCFQRGRIGHVFRECPYLKS  128 (137)
Q Consensus       108 ~fC~~Cg~iGH~~~~C~~~~~  128 (137)
                      ..|+.||..||..++|+....
T Consensus        28 ~~C~~Cg~~GH~~~~C~~~~~   48 (49)
T 2ec7_A           28 QGCWKCGKTGHVMAKCPERQA   48 (49)
T ss_dssp             CSCSSSCCSSCCGGGCCSSCC
T ss_pred             CeeCcCCCcCCccCCCcCCCC
Confidence            579999999999999997653

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

Probab=95.25  E-value=0.0048  Score=37.01  Aligned_cols=19  Identities=37%  Similarity=0.873  Sum_probs=17.0

Q ss_pred             ccccCCcccccCCCcCCCC
Q 046237          108 DFCFQRGRIGHVFRECPYL  126 (137)
Q Consensus       108 ~fC~~Cg~iGH~~~~C~~~  126 (137)
                      ..|+.||.-||-.++||..
T Consensus         8 ~~C~kCGk~GH~~k~Cp~~   26 (55)
T 2ysa_A            8 YTCFRCGKPGHYIKNCPTN   26 (55)
T ss_dssp             CCCTTTCCTTSCGGGCSGG
T ss_pred             CccccCCCcCcccccCCCC
Confidence            4799999999999999943

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

Probab=95.22  E-value=0.007  Score=32.96  Aligned_cols=18  Identities=28%  Similarity=0.719  Sum_probs=15.7

Q ss_pred             cccCCcccccCCCcCCCC
Q 046237          109 FCFQRGRIGHVFRECPYL  126 (137)
Q Consensus       109 fC~~Cg~iGH~~~~C~~~  126 (137)
                      .|++||..||..++|+.+
T Consensus         2 ~C~~Cg~~GH~~~~C~~~   19 (37)
T 2bl6_A            2 TCYNCGKPGHLSSQCRAP   19 (37)
T ss_dssp             CBSSSCCSSCCTTTSSCB
T ss_pred             cccccCCCCcchhhCcCc
Confidence            599999999999999864

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

Probab=95.19  E-value=0.0085  Score=33.01  Aligned_cols=19  Identities=32%  Similarity=0.763  Sum_probs=17.0

Q ss_pred             CccccCCcccccCCCcCCC
Q 046237          107 PDFCFQRGRIGHVFRECPY  125 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~  125 (137)
                      ...|+.||..||..++||.
T Consensus        21 ~~~C~~Cg~~GH~~~~C~~   39 (39)
T 2a51_A           21 QEGCWNCGSKEHRFAQCPK   39 (39)
T ss_dssp             CSSCTTTCCSSSCTTTSCC
T ss_pred             CCccccCCCCCCccCcCcC
Confidence            3689999999999999984

>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=95.17  E-value=0.0077  Score=35.60  Aligned_cols=21  Identities=29%  Similarity=0.611  Sum_probs=15.5

Q ss_pred             cCccccCCcccccCCCcCCCC
Q 046237          106 LPDFCFQRGRIGHVFRECPYL  126 (137)
Q Consensus       106 lp~fC~~Cg~iGH~~~~C~~~  126 (137)
                      -+..|+.||..||..++|+.+
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            345788888888888888764

>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=95.16  E-value=0.012  Score=35.28  Aligned_cols=27  Identities=26%  Similarity=0.401  Sum_probs=22.1

Q ss_pred             cCccccCCcccccCCCcCCCCCCCCCc
Q 046237          106 LPDFCFQRGRIGHVFRECPYLKSSPTN  132 (137)
Q Consensus       106 lp~fC~~Cg~iGH~~~~C~~~~~~~~~  132 (137)
                      ....|+.||..||.+++|+.......+
T Consensus        29 ~~~~C~~Cg~~GH~ar~C~~~~~~~G~   55 (60)
T 1cl4_A           29 VPGLCPRCKRGKHWANECKSKTDNQGN   55 (60)
T ss_dssp             CCCSCSSCSSCSSCSTTCCCTTSSSSC
T ss_pred             CCcceeECCCCCCccCcCCCccccCCC
Confidence            457899999999999999988765444

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

Probab=94.97  E-value=0.0081  Score=32.72  Aligned_cols=19  Identities=32%  Similarity=0.821  Sum_probs=16.9

Q ss_pred             CccccCCcccccCCCcCCC
Q 046237          107 PDFCFQRGRIGHVFRECPY  125 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~  125 (137)
                      +..|+.||..||..++|+.
T Consensus        19 ~~~C~~Cg~~GH~a~~C~~   37 (37)
T 2bl6_A           19 PKVCFKCKQPGHFSKQCRS   37 (37)
T ss_dssp             BTTCSSCCCTTGGGGTTCC
T ss_pred             cCeEccCCCcCCccCcCcC
Confidence            3689999999999999973

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

Probab=94.80  E-value=0.013  Score=35.51  Aligned_cols=23  Identities=17%  Similarity=0.381  Sum_probs=19.0

Q ss_pred             CccccCCcccccCCCcCCCCCCC
Q 046237          107 PDFCFQRGRIGHVFRECPYLKSS  129 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~~~~~  129 (137)
                      ...|+.||..||.+++|+.....
T Consensus        30 ~~~C~~Cg~~GH~ar~C~~~~~~   52 (61)
T 2ihx_A           30 RERCQLCNGMGHNAKQCRKRDGN   52 (61)
T ss_dssp             CSBCTTTCCBSSCGGGCCCCC--
T ss_pred             CCeeCCCCCCCCCcCCCcCCCcC
Confidence            46799999999999999987643

>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=94.73  E-value=0.018  Score=35.07  Aligned_cols=18  Identities=28%  Similarity=0.619  Sum_probs=9.5

Q ss_pred             ccccCCcccccCCCcCCC
Q 046237          108 DFCFQRGRIGHVFRECPY  125 (137)
Q Consensus       108 ~fC~~Cg~iGH~~~~C~~  125 (137)
                      ..|+.||..||..++|+.
T Consensus        30 ~~C~~Cg~~GH~ar~Cp~   47 (63)
T 2cqf_A           30 KKCHFCQSISHMVASCPL   47 (63)
T ss_dssp             SCCTTTCCSSSCTTTCTG
T ss_pred             CccCCcCCcCCccCcCCC
Confidence            445555555555555554

>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=94.73  E-value=0.013  Score=34.62  Aligned_cols=21  Identities=24%  Similarity=0.694  Sum_probs=18.5

Q ss_pred             ccccCCcccccCCCcCCCCCC
Q 046237          108 DFCFQRGRIGHVFRECPYLKS  128 (137)
Q Consensus       108 ~fC~~Cg~iGH~~~~C~~~~~  128 (137)
                      ..|+.||..||..++|+....
T Consensus        34 ~~C~~Cg~~GH~~~~C~~~~~   54 (55)
T 1a1t_A           34 KGCWKCGKEGHQMKDCTERQA   54 (55)
T ss_dssp             CBCTTTCCBSSCGGGCSSSCC
T ss_pred             CEeCCCCCcCCccCCCcCcCC
Confidence            579999999999999997653

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

Probab=94.46  E-value=0.022  Score=35.96  Aligned_cols=21  Identities=29%  Similarity=0.604  Sum_probs=15.1

Q ss_pred             cCccccCCcccccCCCcCCCC
Q 046237          106 LPDFCFQRGRIGHVFRECPYL  126 (137)
Q Consensus       106 lp~fC~~Cg~iGH~~~~C~~~  126 (137)
                      .+..||+||..||..++|+..
T Consensus        23 r~~~C~~Cg~~GH~a~~C~~~   43 (74)
T 2li8_A           23 KGDRCYNCGGLDHHAKECKLP   43 (74)
T ss_dssp             TTSCCTTTCCSSSCTTTCSSC
T ss_pred             CCCcccccCCcCcCcccCCCC
Confidence            445788888888888878753

>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=93.87  E-value=0.01  Score=35.61  Aligned_cols=20  Identities=30%  Similarity=0.695  Sum_probs=0.0

Q ss_pred             ccccCCcccccCCCcCCCCC
Q 046237          108 DFCFQRGRIGHVFRECPYLK  127 (137)
Q Consensus       108 ~fC~~Cg~iGH~~~~C~~~~  127 (137)
                      ..||.||..||..++|+...
T Consensus         2 ~~Cf~Cg~~GH~a~~C~~~~   21 (60)
T 1cl4_A            2 GSCFKCGKKGHFAKNCHEHA   21 (60)
T ss_dssp             --------------------
T ss_pred             CccccCCCCCcCHhhCcCCC
Confidence            36999999999999999864

>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=93.48  E-value=0.032  Score=39.64  Aligned_cols=20  Identities=30%  Similarity=0.685  Sum_probs=15.2

Q ss_pred             ccccCCcccccCCCcCCCCC
Q 046237          108 DFCFQRGRIGHVFRECPYLK  127 (137)
Q Consensus       108 ~fC~~Cg~iGH~~~~C~~~~  127 (137)
                      .-|++||..||..++|+...
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            45888888888888887643

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

Probab=93.20  E-value=0.023  Score=36.67  Aligned_cols=22  Identities=18%  Similarity=0.209  Sum_probs=16.9

Q ss_pred             ccCccccCCcccccCCCcCCCC
Q 046237          105 RLPDFCFQRGRIGHVFRECPYL  126 (137)
Q Consensus       105 ~lp~fC~~Cg~iGH~~~~C~~~  126 (137)
                      |-..+|+.||..||..++||..
T Consensus         3 ~k~~~C~~Cg~~GH~~~~Cp~~   24 (83)
T 3nyb_B            3 WKKVQCTLCKSKKHSKERCPSI   24 (83)
T ss_dssp             ----CCSSSCCSSSCGGGCGGG
T ss_pred             cccCCCCCCCCCCCccccCCCc
Confidence            3457899999999999999875

>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=93.09  E-value=0.036  Score=33.71  Aligned_cols=19  Identities=32%  Similarity=0.707  Sum_probs=17.0

Q ss_pred             cCccccCCcccccCCCcCC
Q 046237          106 LPDFCFQRGRIGHVFRECP  124 (137)
Q Consensus       106 lp~fC~~Cg~iGH~~~~C~  124 (137)
                      .+..||.||..||..++|+
T Consensus         6 r~~~C~~Cg~~GH~a~~C~   24 (63)
T 2cqf_A            6 SGDRCYNCGGLDHHAKECK   24 (63)
T ss_dssp             SCCCCSSSCCSSSCTTTCC
T ss_pred             CCCcccccCCCCcChhhCC
Confidence            3568999999999999997

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

Probab=92.95  E-value=0.031  Score=35.23  Aligned_cols=22  Identities=27%  Similarity=0.587  Sum_probs=19.4

Q ss_pred             CccccCCcccccCCCcCCCCCC
Q 046237          107 PDFCFQRGRIGHVFRECPYLKS  128 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~~~~  128 (137)
                      +..|+.||..||..++|+...+
T Consensus        46 ~~~C~~Cg~~GH~ar~Cp~~~~   67 (74)
T 2li8_A           46 PKKCHFCQSISHMVASCPLKAQ   67 (74)
T ss_dssp             CCCCTTTCCTTSCGGGCTTGGG
T ss_pred             CCccCCcCCcCCccCcCcCCcC
Confidence            4689999999999999998654

>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=92.78  E-value=0.043  Score=38.96  Aligned_cols=24  Identities=25%  Similarity=0.519  Sum_probs=19.8

Q ss_pred             CccccCCcccccCCCcCCCCCCCC
Q 046237          107 PDFCFQRGRIGHVFRECPYLKSSP  130 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~~~~~~  130 (137)
                      +.-|+.||..||..++||.....+
T Consensus       119 ~~~C~~Cg~~GH~~r~Cp~~~~~~  142 (148)
T 3ts2_A          119 PKKCHFCQSINHMVASCPLKAQQG  142 (148)
T ss_dssp             CCCCTTTCCSSCCGGGCTTTTC--
T ss_pred             CCcccccCCcCCEeccCcCCCCCC
Confidence            568999999999999999876543

>3e2u_E CAP-Gly domain-containing linker protein 1; structural protein microtubule binding, dynactin, cytoskelet associated protein, P150glued; 2.60A {Homo sapiens}

Probab=91.27  E-value=0.083  Score=29.69  Aligned_cols=21  Identities=19%  Similarity=0.301  Sum_probs=19.1

Q ss_pred             CccccCCcccccCCCcCCCCC
Q 046237          107 PDFCFQRGRIGHVFRECPYLK  127 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~~~  127 (137)
                      ..+|-.|-++||...+|....
T Consensus        20 RpYCe~CEVFGH~t~eC~dde   40 (42)
T 3e2u_E           20 RPYCEICEMFGHWATNCNDDE   40 (42)
T ss_dssp             CCEETTTTEESSCGGGCCTTC
T ss_pred             CcccccceecccccccCCccc
Confidence            789999999999999998754

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

Probab=90.05  E-value=0.13  Score=34.97  Aligned_cols=20  Identities=25%  Similarity=0.604  Sum_probs=18.1

Q ss_pred             cCccccCCcccccCCCcCCC
Q 046237          106 LPDFCFQRGRIGHVFRECPY  125 (137)
Q Consensus       106 lp~fC~~Cg~iGH~~~~C~~  125 (137)
                      -...|++||..||..++||.
T Consensus       104 ~~~~Cy~Cg~~GH~a~dCp~  123 (124)
T 2lli_A          104 HTIYCYNCGGKGHFGDDCKE  123 (124)
T ss_dssp             CCCCTTTTSSSCTTTTTSCC
T ss_pred             CCCCcCCCCCCCcCcccCcC
Confidence            35799999999999999986

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

Probab=86.26  E-value=0.34  Score=32.84  Aligned_cols=21  Identities=19%  Similarity=0.222  Sum_probs=17.9

Q ss_pred             CccccCCcccccCCCcCCCCC
Q 046237          107 PDFCFQRGRIGHVFRECPYLK  127 (137)
Q Consensus       107 p~fC~~Cg~iGH~~~~C~~~~  127 (137)
                      ...|+.||..||..+.||...
T Consensus        64 ~~~C~~Cg~~GH~~~~Cp~~~   84 (124)
T 2lli_A           64 KVQCTLCKSKKHSKERCPSIW   84 (124)
T ss_dssp             CCSSSSSCSSCCCTTTCCCST
T ss_pred             CccCCCCCcCCcchhhCCCcc
Confidence            367999999999999999764

---

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	137
d1nc8a_	29	HIV nucleocapsid {Human immunodeficiency virus typ	97.3
d1dsqa_	26	Nucleic acid binding protein p14 {Mouse mammary tu	97.02
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	96.29
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	96.28
d1a6bb_	40	Zinc finger protein ncp10 {Moloney murine leukemia	91.2

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

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

Probab=97.30  E-value=6e-05  Score=37.74  Aligned_cols=23  Identities=30%  Similarity=0.559  Sum_probs=19.4

Q ss_pred             ccCccccCCcccccCCCcCCCCC
Q 046237          105 RLPDFCFQRGRIGHVFRECPYLK  127 (137)
Q Consensus       105 ~lp~fC~~Cg~iGH~~~~C~~~~  127 (137)
                      +-..-|++||.-||+.+.|.-+.
T Consensus         4 r~~ikCfNCGkeGH~ar~CrAPR   26 (29)
T d1nc8a_           4 RKVIRCWNCGKEGHSARQCRAPR   26 (29)
T ss_dssp             CCCCBCTTTSCBSSCGGGCCSSS
T ss_pred             cceeEeecCCccchhhhhccCcc
Confidence            34568999999999999998664

>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=96.29  E-value=0.00089  Score=36.61  Aligned_cols=18  Identities=28%  Similarity=0.752  Sum_probs=10.8

Q ss_pred             cccCCcccccCCCcCCCC
Q 046237          109 FCFQRGRIGHVFRECPYL  126 (137)
Q Consensus       109 fC~~Cg~iGH~~~~C~~~  126 (137)
                      .|+.||..||.+++||.+
T Consensus        24 ~C~~Cg~~GH~~~~Cp~r   41 (42)
T d2exfa1          24 GCWKCGKEGHQMKDCTER   41 (42)
T ss_dssp             SCSSSCCSSSCTTTCCSS
T ss_pred             ccccCCCCCeecccCCCC
Confidence            466666666666666543

>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=96.28  E-value=0.0009  Score=36.60  Aligned_cols=21  Identities=33%  Similarity=0.670  Sum_probs=18.4

Q ss_pred             ccccCCcccccCCCcCCCCCC
Q 046237          108 DFCFQRGRIGHVFRECPYLKS  128 (137)
Q Consensus       108 ~fC~~Cg~iGH~~~~C~~~~~  128 (137)
                      .-|++||..||...+||.+..
T Consensus         2 i~C~~Cg~~GH~~~~Cp~~~~   22 (42)
T d2exfa1           2 VKCFNCGKEGHTARNCRAPRK   22 (42)
T ss_dssp             CCCTTTCCSSSCTTTCSSCCC
T ss_pred             CccccCCCcCcCcccCcCCCc
Confidence            359999999999999998754

>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=91.20  E-value=0.066  Score=28.20  Aligned_cols=22  Identities=27%  Similarity=0.489  Sum_probs=19.0

Q ss_pred             ccccCCcccccCCCcCCCCCCC
Q 046237          108 DFCFQRGRIGHVFRECPYLKSS  129 (137)
Q Consensus       108 ~fC~~Cg~iGH~~~~C~~~~~~  129 (137)
                      .-|.+|..-||-.++||+....
T Consensus        11 DQCAyCke~GHW~~dCPkkprg   32 (40)
T d1a6bb_          11 DQCAYCKEKGHWAKDCPKKPRG   32 (40)
T ss_dssp             SSCSSSCCTTCCTTSCSSSCCC
T ss_pred             hhhHHHhhcCchhhhCccCCCC
Confidence            4699999999999999987643