Citrus Sinensis ID: 047987

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150---
Protein Sequence
MAGMMSSSLRRSIAPTNSLSLLRKPHLLLQSFYSSKSSPAFSSSPETLNDENDAVPTSGISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSGEVRNITYSVDGKTVSVVYRVTIYGTDAEVTSNSVNILLLIEN
Secondary Structure (PSIPRED)
cccccHHHHHHHcccccccccccccccccccHHccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHcccccEEEEEEEEEEccccEEEEEEEEEEEEccccEEEEEccEEEcccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHcccccccccccccccHHEccccHHccccccccccccccccccccccccccccHHHHHHHHHccccccHEEEEcccccccccEccHHHHHHHHHHccccccEEEEEEEEEccccEEEEEEEEEEEccccHEEEHcccccccccc
Coil and Loop (DISEMBL)
magmmssslrrsiaptnslsllrkphLLLQSfyssksspafssspetlndendavptsgisrPLSEILKELNKNVPNSLIKIRVedgfsmkyiPWHIVNRIMnlhapewsgevrnitysvdgkTVSVVYRVTIYGTDAEVTSNSVNILLLIEN
Flexible Loop (DISEMBL)
MAGMMSSSLRRSIAPTNSLSLLRKPHLLLQSFYSSKSSPAFssspetlndendavpTSGISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSGEVRNITYSVDGKTVSVVYRVTIygtdaevtsnsvnilllien
Low Complexity Region (SEG)
MAGMMSSSLRRSIAPTNslsllrkphlllqsfyssksspafssspETLNDENDAVPTSGISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSGEVRNITYSVDGKTVSVVYRVTIYGTDAEVTSNSVNILLLIEN
Disordered region (IsUnstruct)
*********************************************************************ELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSGEVRNITYSVDGKTVSVVYRVTIYGTDAEVTSNSVNILLLI**
Disordered Region (DISOPRED)
**********************************************************GISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSGEVRNITYSVDGKTVSVVYRVTIYGTDAEVTSNSVNI******
Disordered Region (DISEMBL)
***********SIAPTNSLSLLRKPHLLLQSFYS****************ENDAVPTSGISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSGEVRNITYSVDGKTVSVVYRVTIYGTDAEVTSNSVNILLLIEN
Disordered Region (DISPRO)
*****************SLSLLRKP*LLL*S************************PTSGISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSGEVRNITYSVDGKTVSVVYRVTIYGTDAEVTSNSV********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAGMMSSSLRRSIAPTNSLSLLRKPHLLLQSFYSSKSSPAFSSSPETLNDENDAVPTSGISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSGEVRNITYSVDGKTVSVVYRVTIYGTDAEVTSNSVNILLLIEN
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	153
225459957	188	PREDICTED: uncharacterized protein LOC10	0.647	0.526	0.767	4e-40
147821083	227	hypothetical protein VITISV_030205 [Viti	0.666	0.449	0.678	6e-40
224127742	146	predicted protein [Populus trichocarpa]	0.679	0.712	0.740	7e-39
255539424	183	conserved hypothetical protein [Ricinus	0.849	0.710	0.617	1e-38
357470733	186	SnRK1-interacting protein [Medicago trun	0.725	0.596	0.669	3e-37
15224018	176	cobalt ion binding protein [Arabidopsis	0.647	0.562	0.728	3e-37
42572065	165	cobalt ion binding protein [Arabidopsis	0.607	0.563	0.773	8e-37
115441385	188	Os01g0876900 [Oryza sativa Japonica Grou	0.862	0.702	0.517	4e-35
294463247	184	unknown [Picea sitchensis]	0.941	0.782	0.520	1e-34
9367245	188	SnRK1-interacting protein 1 [Hordeum vul	0.745	0.606	0.564	3e-34

>gi|225459957|ref|XP_002266658.1| PREDICTED: uncharacterized protein LOC100261996 [Vitis vinifera] gi|297734753|emb|CBI16987.3| unnamed protein product [Vitis vinifera]

 Score =  169 bits (428), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 76/99 (76%), Positives = 88/99 (88%)

Query: 52  NDAVPTSGISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSG 111
           +D VPTSGISRPLSEILKEL+K VP++L+K+R EDGFS+KYIPWHIVNRIMNLHAPEWSG
Sbjct: 54  DDVVPTSGISRPLSEILKELSKKVPDTLVKVRTEDGFSIKYIPWHIVNRIMNLHAPEWSG 113

Query: 112 EVRNITYSVDGKTVSVVYRVTIYGTDAEVTSNSVNILLL 150
           EVR+ITYS DGK+VSVVYRVT+YGTDAE+   S    L+
Sbjct: 114 EVRSITYSADGKSVSVVYRVTLYGTDAEMYRESTGTALV 152

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147821083|emb|CAN77692.1| hypothetical protein VITISV_030205 [Vitis vinifera]

 Score =  168 bits (426), Expect = 6e-40,   Method: Compositional matrix adjust.
 Identities = 76/112 (67%), Positives = 93/112 (83%), Gaps = 10/112 (8%)

Query: 52  NDAVPTSGISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSG 111
           +D VPTSGISRPLSEILKEL+K VP++L+K+R EDGFS+KYIPWHIVNRIMNLHAPEWSG
Sbjct: 54  DDVVPTSGISRPLSEILKELSKKVPDTLVKVRTEDGFSIKYIPWHIVNRIMNLHAPEWSG 113

Query: 112 EVRNITYSVDGKTVSVVYRVTIYGTDAEV----------TSNSVNILLLIEN 153
           EVR+ITYS DGK+VSVVYRVT+YGTDAE+           +N + + +++E 
Sbjct: 114 EVRSITYSADGKSVSVVYRVTLYGTDAEIFIGLLLKSRWNNNDIKVFMILEG 165

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127742|ref|XP_002329166.1| predicted protein [Populus trichocarpa] gi|222870947|gb|EEF08078.1| predicted protein [Populus trichocarpa]

 Score =  165 bits (417), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 77/104 (74%), Positives = 89/104 (85%)

Query: 49  NDENDAVPTSGISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPE 108
           N END+VPTSGISRPLSEILKELNK VP++L+  RV++GFS+KY+PWH+VNRIMNLHAPE
Sbjct: 10  NAENDSVPTSGISRPLSEILKELNKKVPDTLVSQRVDNGFSIKYVPWHLVNRIMNLHAPE 69

Query: 109 WSGEVRNITYSVDGKTVSVVYRVTIYGTDAEVTSNSVNILLLIE 152
           WSGEVRNITYS D K+VSVVYRVT+YGTDAE+   S     L E
Sbjct: 70  WSGEVRNITYSPDSKSVSVVYRVTLYGTDAELYRESTGTAALDE 113

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255539424|ref|XP_002510777.1| conserved hypothetical protein [Ricinus communis] gi|223551478|gb|EEF52964.1| conserved hypothetical protein [Ricinus communis]

 Score =  164 bits (414), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 84/136 (61%), Positives = 104/136 (76%), Gaps = 6/136 (4%)

Query: 10  RRSIAPTNSLSLLRKPHLLLQSFYSSKSSPAFSSSPETLNDEND-AVPTSGISRPLSEIL 68
           RRS++  + L + +  +     +YS   S AF  + E  +  ND  +PTSGISRPLSEIL
Sbjct: 11  RRSLSDASPLKMKQSSYY----YYSKFLSNAFGET-ELESSRNDIDIPTSGISRPLSEIL 65

Query: 69  KELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSGEVRNITYSVDGKTVSVV 128
           K+L+K VP+SL++ R+EDG S+KYIPWHIVNRIMNLHAPEWSGEVRNITYS DGK+VSVV
Sbjct: 66  KQLHKKVPDSLVRQRLEDGCSVKYIPWHIVNRIMNLHAPEWSGEVRNITYSPDGKSVSVV 125

Query: 129 YRVTIYGTDAEVTSNS 144
           YRVT+YGTDAE+   S
Sbjct: 126 YRVTLYGTDAEIYRES 141

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357470733|ref|XP_003605651.1| SnRK1-interacting protein [Medicago truncatula] gi|355506706|gb|AES87848.1| SnRK1-interacting protein [Medicago truncatula]

 Score =  159 bits (403), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 75/112 (66%), Positives = 85/112 (75%), Gaps = 1/112 (0%)

Query: 36  KSSPAFSSSPETLNDENDAVPTSGISRPLSEILKELNKNVPNSLIKIRVE-DGFSMKYIP 94
           K +   SSS        D VPTSGI RPLSEILKELNK VP+SL+K RVE DGF ++YIP
Sbjct: 35  KHAKTTSSSAADFEKVADDVPTSGICRPLSEILKELNKKVPDSLVKTRVEKDGFHIRYIP 94

Query: 95  WHIVNRIMNLHAPEWSGEVRNITYSVDGKTVSVVYRVTIYGTDAEVTSNSVN 146
           WH VNR++NLHAPEWSGEVRNI YS D K+VSVVYRVT+YGTDAE+   S  
Sbjct: 95  WHTVNRVLNLHAPEWSGEVRNIAYSADAKSVSVVYRVTLYGTDAEIFRESTG 146

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15224018|ref|NP_177287.1| cobalt ion binding protein [Arabidopsis thaliana] gi|30698791|ref|NP_849876.1| cobalt ion binding protein [Arabidopsis thaliana] gi|12323832|gb|AAG51886.1|AC016162_7 hypothetical protein; 63020-64147 [Arabidopsis thaliana] gi|22135986|gb|AAM91575.1| unknown protein [Arabidopsis thaliana] gi|23198344|gb|AAN15699.1| unknown protein [Arabidopsis thaliana] gi|332197065|gb|AEE35186.1| cobalt ion binding protein [Arabidopsis thaliana] gi|332197066|gb|AEE35187.1| cobalt ion binding protein [Arabidopsis thaliana]

 Score =  159 bits (402), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 75/103 (72%), Positives = 86/103 (83%), Gaps = 4/103 (3%)

Query: 44  SPETLNDENDAVPTSGISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMN 103
           S ET ND    VPTSGISRPL+EILKELNK VP+S+I+ RVEDG S+KYIPWHIVNRIMN
Sbjct: 38  STETEND----VPTSGISRPLAEILKELNKKVPDSVIRTRVEDGCSIKYIPWHIVNRIMN 93

Query: 104 LHAPEWSGEVRNITYSVDGKTVSVVYRVTIYGTDAEVTSNSVN 146
           +HAPEWSGEVR++TYS DG TV+V YRVT+YGTDAE+   S  
Sbjct: 94  MHAPEWSGEVRSVTYSPDGNTVTVAYRVTLYGTDAEIFRESTG 136

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42572065|ref|NP_974123.1| cobalt ion binding protein [Arabidopsis thaliana] gi|332197067|gb|AEE35188.1| cobalt ion binding protein [Arabidopsis thaliana]

 Score =  158 bits (399), Expect = 8e-37,   Method: Compositional matrix adjust.
 Identities = 75/97 (77%), Positives = 85/97 (87%), Gaps = 4/97 (4%)

Query: 44  SPETLNDENDAVPTSGISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMN 103
           S ET ND    VPTSGISRPL+EILKELNK VP+S+I+ RVEDG S+KYIPWHIVNRIMN
Sbjct: 38  STETEND----VPTSGISRPLAEILKELNKKVPDSVIRTRVEDGCSIKYIPWHIVNRIMN 93

Query: 104 LHAPEWSGEVRNITYSVDGKTVSVVYRVTIYGTDAEV 140
           +HAPEWSGEVR++TYS DG TV+V YRVT+YGTDAEV
Sbjct: 94  MHAPEWSGEVRSVTYSPDGNTVTVAYRVTLYGTDAEV 130

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115441385|ref|NP_001044972.1| Os01g0876900 [Oryza sativa Japonica Group] gi|20804775|dbj|BAB92460.1| putative SnRK1-interacting protein 1 [Oryza sativa Japonica Group] gi|22202660|dbj|BAC07318.1| putative SnRK1-interacting protein 1 [Oryza sativa Japonica Group] gi|113534503|dbj|BAF06886.1| Os01g0876900 [Oryza sativa Japonica Group] gi|125572839|gb|EAZ14354.1| hypothetical protein OsJ_04274 [Oryza sativa Japonica Group]

 Score =  152 bits (384), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 76/147 (51%), Positives = 98/147 (66%), Gaps = 15/147 (10%)

Query: 4   MMSSSLRRSIAPTNSLS--LLRKPHLLLQSFYSSKSSPAFSSSPETLNDEND-------- 53
           M S +L R +    + +  LL +P             PAF S      DE+D        
Sbjct: 1   MASGALARLLLGRRAAATPLLARPFAAKARASRRPQEPAFPS-----EDEDDFAGGEVAA 55

Query: 54  AVPTSGISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSGEV 113
             PT GIS+PL+E+L+EL K VP +L+K RVEDGFS+KYIPWHIVN+I+N+HAPEWSGEV
Sbjct: 56  PAPTEGISKPLAEVLRELGKRVPEALVKTRVEDGFSLKYIPWHIVNKILNIHAPEWSGEV 115

Query: 114 RNITYSVDGKTVSVVYRVTIYGTDAEV 140
           R+I YS DGK+VSV+YRVT++GTDAE+
Sbjct: 116 RSIVYSSDGKSVSVIYRVTLHGTDAEI 142

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|294463247|gb|ADE77159.1| unknown [Picea sitchensis]

 Score =  150 bits (379), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 76/146 (52%), Positives = 100/146 (68%), Gaps = 2/146 (1%)

Query: 1   MAGMMSSSLRRSIAPTNSLSLLRKPHLLLQSFYSSKSSPAFSSSPETLNDENDAVPTSGI 60
           MA +M + LR S A   S   + +      ++ + +     S +P   + E   +P+S I
Sbjct: 1   MALLMRALLRSSCASQPSFESIHRVVATTPAWATRRLQ--HSGAPGETDSEIPEIPSSTI 58

Query: 61  SRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSGEVRNITYSV 120
           SRPL++IL+ELN+ VP+ L+KIRVE+GF+ KY+PWHIVNRIMNLHA EWSGEVR+ITYS 
Sbjct: 59  SRPLADILRELNRRVPDRLVKIRVEEGFTTKYVPWHIVNRIMNLHAQEWSGEVRSITYSN 118

Query: 121 DGKTVSVVYRVTIYGTDAEVTSNSVN 146
           DG +VSVVYRVTIYG DAE+   S  
Sbjct: 119 DGNSVSVVYRVTIYGVDAEIHRESTG 144

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9367245|emb|CAB97356.1| SnRK1-interacting protein 1 [Hordeum vulgare subsp. vulgare]

 Score =  149 bits (377), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 70/124 (56%), Positives = 90/124 (72%), Gaps = 10/124 (8%)

Query: 27  LLLQSFYSSKSSPAFSSSPETLNDEND---------AVPTSGISRPLSEILKELNKNVPN 77
           LL + F +   +      PE L++E+D          +PT GIS+PL+ ILKEL K VP 
Sbjct: 19  LLARPFAAKARASQRPKEPEPLSEEDDDFTSGGEAAPIPTEGISKPLAGILKELGKKVPE 78

Query: 78  SLIKIRVED-GFSMKYIPWHIVNRIMNLHAPEWSGEVRNITYSVDGKTVSVVYRVTIYGT 136
           SL+K R+ED GF++KYIPWH+ N+++N HAPEWSGEVRNI YS DGK+VSVVYRVT+YGT
Sbjct: 79  SLLKTRLEDNGFTLKYIPWHLANKVLNAHAPEWSGEVRNIVYSSDGKSVSVVYRVTLYGT 138

Query: 137 DAEV 140
           DAE+
Sbjct: 139 DAEI 142

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

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)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	153
TAIR|locus:2032313	176	RAD52-1 "radiation sensitive 5	0.607	0.528	0.776	4.4e-36
TAIR|locus:2160967	199	RAD52-2 "AT5G47870" [Arabidops	0.568	0.437	0.428	1.3e-15

TAIR|locus:2032313 RAD52-1 "radiation sensitive 51-1" [Arabidopsis thaliana (taxid:3702)]

 Score = 389 (142.0 bits), Expect = 4.4e-36, P = 4.4e-36
 Identities = 73/94 (77%), Positives = 84/94 (89%)

Query:    51 ENDAVPTSGISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWS 110
             END VPTSGISRPL+EILKELNK VP+S+I+ RVEDG S+KYIPWHIVNRIMN+HAPEWS
Sbjct:    42 END-VPTSGISRPLAEILKELNKKVPDSVIRTRVEDGCSIKYIPWHIVNRIMNMHAPEWS 100

Query:   111 GEVRNITYSVDGKTVSVVYRVTIYGTDAEVTSNS 144
             GEVR++TYS DG TV+V YRVT+YGTDAE+   S
Sbjct:   101 GEVRSVTYSPDGNTVTVAYRVTLYGTDAEIFRES 134

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0050897 "cobalt ion binding" evidence=IDA

GO:0000724 "double-strand break repair via homologous recombination" evidence=IMP

GO:0005634 "nucleus" evidence=IDA

GO:0003690 "double-stranded DNA binding" evidence=IDA

GO:0003697 "single-stranded DNA binding" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0006281 "DNA repair" evidence=IMP

TAIR|locus:2160967 RAD52-2 "AT5G47870" [Arabidopsis thaliana (taxid:3702)]

 Score = 196 (74.1 bits), Expect = 1.3e-15, P = 1.3e-15
 Identities = 39/91 (42%), Positives = 61/91 (67%)

Query:    57 TSGISRPLSEILKELNKNVPNSLIKIRVEDGFSMK---YIPWHIVNRIMNLHAPEWSGEV 113
             +S I+RPL EIL++LNK +P++++K       S     +IPW+  NR+++ +AP W GEV
Sbjct:    71 SSSITRPLIEILRDLNKKIPDNIVKSHDPPSTSAATSGFIPWYHANRMLSFYAPGWCGEV 130

Query:   114 RNITYSVDGKTVSVVYRVTIYGTDAEVTSNS 144
             R++ +S +G  V+VVYR+TI G+D E    S
Sbjct:   131 RDVIFSENGN-VTVVYRLTIRGSDGEAHRES 160


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   0.130   0.366    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      153       125   0.00091  102 3  11 23  0.42    31
                                                     29  0.39    33


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  536 (57 KB)
  Total size of DFA:  114 KB (2077 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:  12.01u 0.12s 12.13t   Elapsed:  00:00:01
  Total cpu time:  12.01u 0.12s 12.13t   Elapsed:  00:00:01
  Start:  Fri May 10 04:26:19 2013   End:  Fri May 10 04:26:20 2013

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0000724 "double-strand break repair via homologous recombination" evidence=IMP

---

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	153
PF04098	154	Rad52_Rad22: Rad52/22 family double-strand break r	97.54
PF06378	164	DUF1071: Protein of unknown function (DUF1071); In	96.66
TIGR00607	161	rad52 recombination protein rad52. This family is	96.66

>PF04098 Rad52_Rad22: Rad52/22 family double-strand break repair protein; InterPro: IPR007232 The DNA single-strand annealing proteins (SSAPs), such as RecT, Red-beta, ERF and Rad52, function in RecA-dependent and RecA-independent DNA recombination pathways

Probab=97.54  E-value=0.00066  Score=52.10  Aligned_cols=84  Identities=21%  Similarity=0.298  Sum_probs=58.0

Q ss_pred             HHHHHHHhcccCCcccccccccCCc--cccccchhhhhhhhhhcc--CceeeeeeeEEE--ee-CCc----E--EEEEEE
Q 047987           64 LSEILKELNKNVPNSLIKIRVEDGF--SMKYIPWHIVNRIMNLHA--PEWSGEVRNITY--SV-DGK----T--VSVVYR  130 (153)
Q Consensus        64 LaEILrdLnKrVPD~lvktr~~~g~--s~~yIPWy~anRiL~fyA--PgW~gEVR~i~y--s~-dGk----s--VsVvyR  130 (153)
                      ..+|.+.|.++.|..-|+.|...+.  .+.||+.+.+-..+|-..  .||+-||.++..  .. ++.    +  +++..|
T Consensus         2 ~~~i~~~L~~~~~~~~i~~R~~~~~~~~~~yl~~~~vi~~aN~vfGfngWs~~i~~~~~~~~~~~~~~~~~~~~~~~~vr   81 (154)
T PF04098_consen    2 IGEIQEKLEKPLPPEEISWRPGSGGKSKLPYLESRKVIELANEVFGFNGWSSEIISLEQDFVEEEPGEGKYSVGYSAIVR   81 (154)
T ss_dssp             HHHHHHHHH--B-TTTEEEEE-TTS--EEEEE-HHHHHHHHHHHH-TTTEEEEEEEEEEEEEEESSS--SEEEEEEEEEE
T ss_pred             HHHHHHHHhCccCHHHhEecccCCCCccccccCHHHHHHHHHHHhCcCCCceEEEeeEeeeeeccCCceeEEEEEEEEEE
Confidence            4689999999999999999987643  688999999999998776  889999998877  21 122    2  344445


Q ss_pred             EEEEecccceeeeccceecc
Q 047987          131 VTIYGTDAEVTSNSVNILLL  150 (153)
Q Consensus       131 VTi~GtDge~~REATGT~~l  150 (153)
                      |||  .||. +||.+|....
T Consensus        82 itL--kdg~-~~e~~G~g~~   98 (154)
T PF04098_consen   82 ITL--KDGT-YREDIGYGWS   98 (154)
T ss_dssp             EEE--TTS--EEEEEEEEEE
T ss_pred             EEE--eCCc-eeeecceEEE
Confidence            554  4777 7788887543

This family includes proteins related to Rad52. These proteins contain two helix-hairpin-helix motifs [].; GO: 0006281 DNA repair, 0006310 DNA recombination; PDB: 1KN0_I 1H2I_U.

>PF06378 DUF1071: Protein of unknown function (DUF1071); InterPro: IPR009425 This entry is represented by Bacteriophage bIL285, Orf14

Probab=96.66  E-value=0.0025  Score=51.59  Aligned_cols=49  Identities=20%  Similarity=0.295  Sum_probs=40.3

Q ss_pred             ccccccchhhhhhhhhhccCceeeeeeeEE------------EeeCCcEEEEEEEEEEEec
Q 047987           88 FSMKYIPWHIVNRIMNLHAPEWSGEVRNIT------------YSVDGKTVSVVYRVTIYGT  136 (153)
Q Consensus        88 ~s~~yIPWy~anRiL~fyAPgW~gEVR~i~------------ys~dGksVsVvyRVTi~Gt  136 (153)
                      ..++|++|.+|-.+|.-+.|.|.++|..-.            |...+....|-..|||.|.
T Consensus        20 ~~l~YLSWA~Aw~~lk~~~P~at~~i~~f~~~~~~~~~~~~p~~~t~~g~~V~v~vti~g~   80 (164)
T PF06378_consen   20 NGLSYLSWAWAWALLKKIYPDATYEIVEFPEYDITGLPYGVPYLDTNTGYMVEVSVTIEGQ   80 (164)
T ss_pred             CCCCeehHHHHHHHHHHhCCCCeEEEEECCCCCCCCCccccceecCCceEEEEEEEEECCE
Confidence            467999999999999999999999997632            5555556778999999664

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical bacterial and phage proteins of unknown function.

>TIGR00607 rad52 recombination protein rad52

Probab=96.66  E-value=0.0052  Score=49.89  Aligned_cols=80  Identities=25%  Similarity=0.311  Sum_probs=57.8

Q ss_pred             HHHHhcccCCcccccccccC-Cccccccchhhhhhhhh--hccCceeeeeeeEEEe----eCCc---EEEEEEEEEEEec
Q 047987           67 ILKELNKNVPNSLIKIRVED-GFSMKYIPWHIVNRIMN--LHAPEWSGEVRNITYS----VDGK---TVSVVYRVTIYGT  136 (153)
Q Consensus        67 ILrdLnKrVPD~lvktr~~~-g~s~~yIPWy~anRiL~--fyAPgW~gEVR~i~ys----~dGk---sVsVvyRVTi~Gt  136 (153)
                      |-..|+|+++.-.|.+|... |..+.|||++.+-.+-|  |=-.||+-+|.++...    .+|+   .++++.|||+.  
T Consensus         2 iq~~l~~~lgpe~is~R~g~gg~kv~Yieg~k~i~lANeiFGFnGWSs~I~~~~vd~~de~~~k~~vg~saiVRVtLk--   79 (161)
T TIGR00607         2 IQKALRQKLGPEYISSRSGGGGQKVCYIEGWKVINLANEIFGYNGWSHSITQQNVDFVDENNGKFSVGVCAIVRVTLK--   79 (161)
T ss_pred             hhHHhhcccCchheeeccCCCCceEEeccHHHHHHHHHHhcCCCCceeeeeecccceecccCCcEEEEEEEEEEEEEc--
Confidence            45679999999999999775 67899999997654444  3347999999877431    1222   25667777774  


Q ss_pred             ccceeeeccceec
Q 047987          137 DAEVTSNSVNILL  149 (153)
Q Consensus       137 Dge~~REATGT~~  149 (153)
                      || .+||..|.-.
T Consensus        80 DG-t~~EdiG~G~   91 (161)
T TIGR00607        80 DG-SYHEDVGYGV   91 (161)
T ss_pred             CC-cEeeccccee
Confidence            88 5899988643

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

---

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	153
1h2i_A	209	RAD52, DNA repair protein RAD52 homolog; DNA-bindi	4e-06

>1h2i_A RAD52, DNA repair protein RAD52 homolog; DNA-binding protein, DNA recombination; HET: DNA; 2.7A {Homo sapiens} SCOP: d.50.1.3 PDB: 1kn0_A Length = 209

 Score = 43.6 bits (102), Expect = 4e-06
 Identities = 16/110 (14%), Positives = 27/110 (24%), Gaps = 17/110 (15%)

Query: 42  SSSPETLNDENDAVPTSGISRP-----------LSEILKELNKNVPNSLIKIRVE-DGFS 89
            +    L   +      G S                I K L + +    I  R+   G  
Sbjct: 3   GTEEAILGGRDSHPAAGGGSVLCFGQCQYTAEEYQAIQKALRQRLGPEYISSRMAGGGQK 62

Query: 90  MKYIPWHIVNRIMN--LHAPEWSGEVRNITYSV---DGKTVSVVYRVTIY 134
           + YI  H V  + N       W+  +          +     V     + 
Sbjct: 63  VCYIEGHRVINLANEMFGYNGWAHSITQQNVDFVDLNNGKFYVGVCAFVR 112

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	153
1h2i_A	209	RAD52, DNA repair protein RAD52 homolog; DNA-bindi	96.07

>1h2i_A RAD52, DNA repair protein RAD52 homolog; DNA-binding protein, DNA recombination; HET: DNA; 2.7A {Homo sapiens} SCOP: d.50.1.3 PDB: 1kn0_A

Probab=96.07  E-value=0.029  Score=45.76  Aligned_cols=84  Identities=23%  Similarity=0.311  Sum_probs=63.5

Q ss_pred             hhHHHHHHHhcccCCcccccccccC-Cccccccchhhhhhhhh--hccCceeeeeeeEEE--e--eCCcEEEE----EEE
Q 047987           62 RPLSEILKELNKNVPNSLIKIRVED-GFSMKYIPWHIVNRIMN--LHAPEWSGEVRNITY--S--VDGKTVSV----VYR  130 (153)
Q Consensus        62 RPLaEILrdLnKrVPD~lvktr~~~-g~s~~yIPWy~anRiL~--fyAPgW~gEVR~i~y--s--~dGksVsV----vyR  130 (153)
                      +-.+.|=+-|++++|...|++|... |..+.||+.+.+....|  |--.||+-+|.++..  -  .+|+ .+|    +.|
T Consensus        34 ee~~~iq~~L~~~lgpe~is~R~g~gg~kv~YIeg~kvI~lANeiFGFNGWSs~I~~~~vd~~d~~~gk-~~v~~~aiVR  112 (209)
T 1h2i_A           34 EEYQAIQKALRQRLGPEYISSRMAGGGQKVCYIEGHRVINLANEMFGYNGWAHSITQQNVDFVDLNNGK-FYVGVCAFVR  112 (209)
T ss_dssp             HHHHHHHHHHHCCBCTTTEEEEECTTSCEEEEECHHHHHHHHHHHHCTTTEEEEEEEEEEEEEEESSSS-EEEEEEEEEE
T ss_pred             HHHHHHHHHHhcccCchhheeccCCCCceEEEeeHHHHHHHHHhccCCCCCeeEEEEeeceeEeccCCe-EEEEEEEEEE
Confidence            4467788999999999999999874 67789999999888887  677899999987643  1  2343 433    344


Q ss_pred             EEEEecccceeeeccceec
Q 047987          131 VTIYGTDAEVTSNSVNILL  149 (153)
Q Consensus       131 VTi~GtDge~~REATGT~~  149 (153)
                      |||  .||. +||..|...
T Consensus       113 VtL--kDGt-~~EdiG~G~  128 (209)
T 1h2i_A          113 VQL--KDGS-YHEDVGYGV  128 (209)
T ss_dssp             EEE--TTSC-EEEEEEEEE
T ss_pred             EEE--CCCC-EecceeeEE
Confidence            444  6885 799988753

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	153
d1kn0a_	184	d.50.1.3 (A:) The homologous-pairing domain of Rad	3e-10

>d1kn0a_ d.50.1.3 (A:) The homologous-pairing domain of Rad52 recombinase {Human (Homo sapiens) [TaxId: 9606]} Length = 184

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: The homologous-pairing domain of Rad52 recombinase
domain: The homologous-pairing domain of Rad52 recombinase
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.8 bits (129), Expect = 3e-10
 Identities = 17/79 (21%), Positives = 26/79 (32%), Gaps = 10/79 (12%)

Query: 65  SEILKELNKNVPNSLIKIRVED-GFSMKYIPWHIVNRIMN--LHAPEWSGEVRNITYSV- 120
             I K L + +    I  R+   G  + YI  H V  + N       W+  +        
Sbjct: 13  QAIQKALRQRLGPEYISSRMAGGGQKVCYIEGHRVINLANEMFGYNGWAHSITQQNVDFV 72

Query: 121 ---DGK---TVSVVYRVTI 133
              +GK    V    RV +
Sbjct: 73  DLNNGKFYVGVCAFVRVQL 91

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	153
d1kn0a_	184	The homologous-pairing domain of Rad52 recombinase	98.89

>d1kn0a_ d.50.1.3 (A:) The homologous-pairing domain of Rad52 recombinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: The homologous-pairing domain of Rad52 recombinase
domain: The homologous-pairing domain of Rad52 recombinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.89  E-value=2.5e-09  Score=83.06  Aligned_cols=84  Identities=23%  Similarity=0.266  Sum_probs=65.6

Q ss_pred             HHHHHHHhcccCCccccccccc-CCccccccchhhhhhhhh--hccCceeeeeeeEEEe----eCCc-EEEEEEEEEEEe
Q 047987           64 LSEILKELNKNVPNSLIKIRVE-DGFSMKYIPWHIVNRIMN--LHAPEWSGEVRNITYS----VDGK-TVSVVYRVTIYG  135 (153)
Q Consensus        64 LaEILrdLnKrVPD~lvktr~~-~g~s~~yIPWy~anRiL~--fyAPgW~gEVR~i~ys----~dGk-sVsVvyRVTi~G  135 (153)
                      ..+|.+.|+|++|...|++|.. .|..+.||||+.+.+.||  |-..||+.||.+++..    .+|+ +|.|.+.|.|.-
T Consensus        12 ~~~lq~~L~k~~~~e~Is~R~g~gg~~~~YI~~~~vi~~aNeVFGfdGWs~~i~~~~~d~~d~~~~~~~v~v~a~Vrvtl   91 (184)
T d1kn0a_          12 YQAIQKALRQRLGPEYISSRMAGGGQKVCYIEGHRVINLANEMFGYNGWAHSITQQNVDFVDLNNGKFYVGVCAFVRVQL   91 (184)
T ss_dssp             HHHHHHHTTCCBCTTTEEEEECSSSCEEEEECHHHHHHHHHHHHCTTTEEEEEEEEEEEEEEEETTEEEEEEEEEEEEEE
T ss_pred             HHHHHHHHhcccCHHHheeeeCCCCcceeeccHHHHHHHHHHHhCCCCceeEEEEEEeecccccCCceeEEEEEEEEEEE
Confidence            4679999999999999999986 467899999999999999  8889999999998753    2232 244444444444


Q ss_pred             cccceeeecccee
Q 047987          136 TDAEVTSNSVNIL  148 (153)
Q Consensus       136 tDge~~REATGT~  148 (153)
                      .||. +||.+|..
T Consensus        92 kDGt-~~e~~G~G  103 (184)
T d1kn0a_          92 KDGS-YHEDVGYG  103 (184)
T ss_dssp             TTSC-EEEEEEEE
T ss_pred             ECCE-EEeccccc
Confidence            7884 88888764