Citrus Sinensis ID: 031041

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------
Protein Sequence
MASASATMTIIPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTVSAVDSGVEVSITEPEDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWHWVFQQLKIVFE
Secondary Structure (PSIPRED)
cccccccEEEEcccccccccccccccccccccccccccccccEEEccccEEEEcccccccccHHHHcccEEEEEEEcccccccccccccccEEcccEEEEEcccccEEEEEEEEccHHHHHHHHHHHHHHHHccccccccccccccccccEEHHHHHHHHcccEEEc
Secondary Structure Prediction (SSPRO)
cccccccccEcccccccccccEcccccccEEcccccccccccccccccccEEEEccccccHHHHHHccccccEEEcccccEEEEccccccEEEEcEEEEEEEccccEEEEEEEcccHHHHHHHHHHHHHHHHccccccccccccccccccEEEEEHHHHEEEEEEEc
Coil and Loop (DISEMBL)
masasatmtiipskfqnielfsprscrnytlchpnapksvnffhfqnsscffvrpslycnplMRRVQHVLKTVSAvdsgvevsitepedlitvkdAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLarsappipgfrrekggkttkVSIFWHWVFQQLKIVFE
Flexible Loop (DISEMBL)
masasatmtiipskfqniELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTVsavdsgvevsitepedlitvkdakivvesqdedkiqvrvdltgdatqRVFDKVLtnlarsappipgfrrekggKTTKVSIFWHWVFQQLKIVFE
Low Complexity Region (SEG)
MASASATMTIIPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTVSAVDSGVEVSITEPEDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWHWVFQQLKIVFE
Disordered region (IsUnstruct)
********TIIPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTVSAVDSGVEVSITEPEDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSA**IPGF****GGKTTKVSIFWHWVFQQLKIVF*
Disordered Region (DISOPRED)
***********PSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTV*****************ITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRRE*GGKTTKVSIFWHWVFQQLKIVFE
Disordered Region (DISEMBL)
MASASATMTIIPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTVSAVDSGVEVSITEPEDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWHWVFQQLKIVFE
Disordered Region (DISPRO)
********TIIPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTVSAVDSGVEVSITEPEDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWHWVFQQLKIVFE
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASASATMTIIPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTVSAVDSGVEVSITEPEDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWHWVFQQLKIVFE
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	167
225434092	232	PREDICTED: uncharacterized protein LOC10	0.850	0.612	0.510	7e-27
296084278	440	unnamed protein product [Vitis vinifera]	0.850	0.322	0.496	6e-26
255636592	183	unknown [Glycine max]	0.898	0.819	0.421	2e-25
255579456	216	conserved hypothetical protein [Ricinus	0.718	0.555	0.512	1e-24
449445840	247	PREDICTED: uncharacterized protein LOC10	0.485	0.327	0.646	2e-22
449487317	165	PREDICTED: uncharacterized LOC101212225	0.712	0.721	0.516	2e-22
224122010	123	predicted protein [Populus trichocarpa]	0.425	0.577	0.722	1e-21
388492748	233	unknown [Lotus japonicus]	0.574	0.412	0.481	5e-21
388513321	221	unknown [Medicago truncatula]	0.514	0.389	0.505	1e-18
357473107	219	hypothetical protein MTR_4g068280 [Medic	0.485	0.369	0.524	6e-18

>gi|225434092|ref|XP_002275949.1| PREDICTED: uncharacterized protein LOC100247585 [Vitis vinifera]

 Score =  125 bits (314), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 76/149 (51%), Positives = 100/149 (67%), Gaps = 7/149 (4%)

Query: 6   ATMTI-IPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLY-CNPLM 63
           A MT+ I S+  N   F  R C ++ +   N   S++F H Q   C  +   LY CN   
Sbjct: 2   ACMTMAISSQSLNFNRFFVRCCHDHVISCQNT-TSISFPHRQQDLCGRL---LYPCNLHQ 57

Query: 64  RRVQHVLKTVSAVDSGVEVSITEPEDL-ITVKDAKIVVESQDEDKIQVRVDLTGDATQRV 122
             ++ + K +SAV SG + SI +P+D  IT+K+AKIVVESQ++D+IQ+RVD+ G  TQRV
Sbjct: 58  GSLRFLSKPISAVGSGSKASIIDPKDNDITIKNAKIVVESQEDDEIQLRVDVAGVDTQRV 117

Query: 123 FDKVLTNLARSAPPIPGFRREKGGKTTKV 151
           FD VLTNLARSAPPIPGFRR+KGGKT+ V
Sbjct: 118 FDHVLTNLARSAPPIPGFRRQKGGKTSNV 146

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296084278|emb|CBI24666.3| unnamed protein product [Vitis vinifera]

 Score =  122 bits (305), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 74/149 (49%), Positives = 98/149 (65%), Gaps = 7/149 (4%)

Query: 6   ATMTI-IPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLY-CNPLM 63
           A MT+ I S+  N   F  R C ++ +   N   S++F H Q   C  +   LY CN   
Sbjct: 210 ACMTMAISSQSLNFNRFFVRCCHDHVISCQNTT-SISFPHRQQDLCGRL---LYPCNLHQ 265

Query: 64  RRVQHVLKTVSAVDSGVEVSITEPEDL-ITVKDAKIVVESQDEDKIQVRVDLTGDATQRV 122
             ++ + K +SAV SG + SI +P+D  IT+K+AKIVVESQ++D+IQ+RVD+ G  TQRV
Sbjct: 266 GSLRFLSKPISAVGSGSKASIIDPKDNDITIKNAKIVVESQEDDEIQLRVDVAGVDTQRV 325

Query: 123 FDKVLTNLARSAPPIPGFRREKGGKTTKV 151
           FD VLTNLARSAPPIPGFRR+KGG +  V
Sbjct: 326 FDHVLTNLARSAPPIPGFRRQKGGNSLYV 354

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255636592|gb|ACU18634.1| unknown [Glycine max]

 Score =  120 bits (301), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 64/152 (42%), Positives = 98/152 (64%), Gaps = 2/152 (1%)

Query: 1   MASASATMTIIPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCN 60
           MAS S ++T   + F        ++C  + L  PNA KS   F    +    +   +  +
Sbjct: 3   MASKSNSLTFGAACFATCPFSRTKTCCIHFLAIPNA-KSRATFSLGPTLSKRMSLGILSS 61

Query: 61  PLMRRVQHVLKTVSAVDSGVEVSITEPEDLITV-KDAKIVVESQDEDKIQVRVDLTGDAT 119
           P+     H++  +SA++SG+E SIT+  D+  +  +AKIVV+S+DE+KIQ+R DLTGD T
Sbjct: 62  PIETTPTHLITPISALNSGLEASITDSNDISAILANAKIVVDSEDENKIQLRADLTGDQT 121

Query: 120 QRVFDKVLTNLARSAPPIPGFRREKGGKTTKV 151
           Q+VFD++LTNL R+APP+PGFR +KGGK++K+
Sbjct: 122 QKVFDRILTNLGRTAPPVPGFRMQKGGKSSKI 153

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255579456|ref|XP_002530571.1| conserved hypothetical protein [Ricinus communis] gi|223529870|gb|EEF31801.1| conserved hypothetical protein [Ricinus communis]

 Score =  118 bits (295), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 64/125 (51%), Positives = 85/125 (68%), Gaps = 5/125 (4%)

Query: 25  SCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCN--PLMRRVQHVLKTVSAVDSGVEV 82
           S +NY  C+ N     N  +   ++ F +R     N     R ++HV K +SAV SG+E 
Sbjct: 10  SLKNYCSCNYNCTLRNN--NITTTTSFKLRLPFSSNYKGKKRVLEHVFKPISAVGSGLET 67

Query: 83  SITEPED-LITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFR 141
           + T+P+D  IT+K+AK+VVES  E+KIQ+RVDL+GD T+ VF KVL NLAR+APPIPGFR
Sbjct: 68  TFTDPKDNAITLKNAKVVVESMQENKIQLRVDLSGDETEIVFSKVLANLARTAPPIPGFR 127

Query: 142 REKGG 146
           REKGG
Sbjct: 128 REKGG 132

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449445840|ref|XP_004140680.1| PREDICTED: uncharacterized protein LOC101212225 [Cucumis sativus]

 Score =  110 bits (275), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 53/82 (64%), Positives = 71/82 (86%), Gaps = 1/82 (1%)

Query: 71  KTVSAVDSGVEVSITEPE-DLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTN 129
           K  S   SG+E +IT+ + + IT+K+AK+VVES++E+KIQ+RVDLTGD TQ+VFD+VLTN
Sbjct: 88  KPTSIASSGLEAAITDYKGNPITLKNAKVVVESEEENKIQLRVDLTGDETQKVFDQVLTN 147

Query: 130 LARSAPPIPGFRREKGGKTTKV 151
           LARSAPP+PGFR++KGGKT+ V
Sbjct: 148 LARSAPPMPGFRKQKGGKTSNV 169

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449487317|ref|XP_004157567.1| PREDICTED: uncharacterized LOC101212225 [Cucumis sativus]

 Score =  110 bits (275), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 64/124 (51%), Positives = 85/124 (68%), Gaps = 5/124 (4%)

Query: 32  CHPNAPKSVNF--FHFQNSSCFFVRPSLYCNPLMRRVQHVL-KTVSAVDSGVEVSITEPE 88
           CH NA   +NF    F N      R S +     +     L K  S   SG+E +IT+ +
Sbjct: 33  CH-NALVCLNFGGVEFDNVRDGLCRRSSFSYSFHKIGSRFLSKPTSIASSGLEAAITDYK 91

Query: 89  -DLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGK 147
            + IT+K+AK+VVES++E+KIQ+RVDLTGD TQ+VFD+VLTNLARSAPP+PGFR++KGGK
Sbjct: 92  GNPITLKNAKVVVESEEENKIQLRVDLTGDETQKVFDQVLTNLARSAPPMPGFRKQKGGK 151

Query: 148 TTKV 151
           T+ V
Sbjct: 152 TSNV 155

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122010|ref|XP_002330708.1| predicted protein [Populus trichocarpa] gi|222872312|gb|EEF09443.1| predicted protein [Populus trichocarpa]

 Score =  108 bits (269), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 52/72 (72%), Positives = 62/72 (86%), Gaps = 1/72 (1%)

Query: 81  EVSITEP-EDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPG 139
           + SI E  E LI +K+ KIV+ESQ+EDK+QVRVDL+GD TQ+VF+K LT+LARSAPPIPG
Sbjct: 12  QASIAETNEKLIALKNVKIVIESQEEDKMQVRVDLSGDETQKVFNKALTDLARSAPPIPG 71

Query: 140 FRREKGGKTTKV 151
           FRREKGGKTT V
Sbjct: 72  FRREKGGKTTNV 83

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388492748|gb|AFK34440.1| unknown [Lotus japonicus]

 Score =  105 bits (263), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 53/110 (48%), Positives = 77/110 (70%), Gaps = 14/110 (12%)

Query: 56  SLYCNPLMRR-------------VQHVLKTVSAVDSGVEVSITEP-EDLITVKDAKIVVE 101
           SL   P +RR             ++H+   +SAV+SG+E SIT+  E+   + +A+IV+E
Sbjct: 47  SLSLGPPLRRKSLDILSSSTRTTLRHLNTPISAVNSGLEASITDSDENSAILTNAQIVLE 106

Query: 102 SQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKV 151
           S+DE KIQ+RVDLTGD T+RVFD+ L +L R+APP+PGFR +KGGK++K+
Sbjct: 107 SEDESKIQLRVDLTGDQTERVFDRTLISLGRTAPPVPGFRMQKGGKSSKI 156

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388513321|gb|AFK44722.1| unknown [Medicago truncatula]

 Score = 97.8 bits (242), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 44/87 (50%), Positives = 67/87 (77%), Gaps = 1/87 (1%)

Query: 66  VQHVLKTVSAVDSGVEVSITEPEDLIT-VKDAKIVVESQDEDKIQVRVDLTGDATQRVFD 124
           ++H+   +SAV+SG+E SIT+  D+   + DA +V E  D+++IQ+RVDLTG  TQ+VFD
Sbjct: 56  LRHLNTPISAVNSGLEASITDSNDISAFLTDATVVAEPGDDNRIQLRVDLTGVQTQKVFD 115

Query: 125 KVLTNLARSAPPIPGFRREKGGKTTKV 151
           ++  NL R+APP+PGFR +KGGK++K+
Sbjct: 116 RIPINLGRTAPPVPGFRMQKGGKSSKI 142

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357473107|ref|XP_003606838.1| hypothetical protein MTR_4g068280 [Medicago truncatula] gi|355507893|gb|AES89035.1| hypothetical protein MTR_4g068280 [Medicago truncatula]

 Score = 95.5 bits (236), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 43/82 (52%), Positives = 63/82 (76%), Gaps = 1/82 (1%)

Query: 66  VQHVLKTVSAVDSGVEVSITEPEDLIT-VKDAKIVVESQDEDKIQVRVDLTGDATQRVFD 124
           ++H+   +SAV+SG+E SIT+  D+   + DA +V E  D+++IQ+RVDLTG  TQ+VFD
Sbjct: 56  LRHLNTPISAVNSGLEASITDSNDISAFLTDATVVAEPGDDNRIQLRVDLTGVQTQKVFD 115

Query: 125 KVLTNLARSAPPIPGFRREKGG 146
           ++L NL R+APP+PGFR +KGG
Sbjct: 116 RILINLGRTAPPVPGFRMQKGG 137

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	167
TAIR|locus:505006279	199	AT2G30695 "AT2G30695" [Arabido	0.598	0.502	0.390	6.6e-10

TAIR|locus:505006279 AT2G30695 "AT2G30695" [Arabidopsis thaliana (taxid:3702)]

 Score = 142 (55.0 bits), Expect = 6.6e-10, P = 6.6e-10
 Identities = 43/110 (39%), Positives = 56/110 (50%)

Query:    45 FQNSSCFFVRPSLYC--NPLMRRVQH-VLKTVSAVDSGVEVSITEPEDLITVKDAKIVVE 101
             FQ SS F   P  Y     L  R  +     V A  S VE S  +   LIT    K+  E
Sbjct:    24 FQFSS-FLTLPPTYSVQQKLCTRATNRQFVAVCAAPSDVETSSKDESVLIT----KVETE 78

Query:   102 SQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKV 151
             + +E K+ V+V  +G+ TQ VF+ V   +  +A PIPGFRR KGGKT  +
Sbjct:    79 TSNEVKVHVQV--SGEKTQTVFNHVFEKMVAAAQPIPGFRRVKGGKTPNI 126


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        0.322   0.134   0.403    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      167       167   0.00075  108 3  11 22  0.48    31
                                                     30  0.46    34


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:  581 (62 KB)
  Total size of DFA:  147 KB (2090 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  17.91u 0.20s 18.11t   Elapsed:  00:00:01
  Total cpu time:  17.91u 0.20s 18.11t   Elapsed:  00:00:01
  Start:  Fri May 10 08:55:48 2013   End:  Fri May 10 08:55:49 2013

GO:0003674 "molecular_function" evidence=ND

GO:0006457 "protein folding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0015031 "protein transport" evidence=IEA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0006364 "rRNA processing" evidence=RCA

GO:0006399 "tRNA metabolic process" evidence=RCA

GO:0009073 "aromatic amino acid family biosynthetic process" evidence=RCA

GO:0009658 "chloroplast organization" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0016226 "iron-sulfur cluster assembly" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

---

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	167
PF05697	145	Trigger_N: Bacterial trigger factor protein (TF);	98.21
PRK01490	435	tig trigger factor; Provisional	96.87
COG0544	441	Tig FKBP-type peptidyl-prolyl cis-trans isomerase	96.05
TIGR00115	408	tig trigger factor. Trigger factor is a ribosome-a	92.81

>PF05697 Trigger_N: Bacterial trigger factor protein (TF); InterPro: IPR008881 In the Escherichia coli cytosol, a fraction of the newly synthesised proteins requires the activity of molecular chaperones for folding to the native state

Probab=98.21  E-value=3.6e-06  Score=63.38  Aligned_cols=53  Identities=30%  Similarity=0.633  Sum_probs=45.2

Q ss_pred             eEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcccccchhHH
Q 031041           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWH  156 (167)
Q Consensus        97 ~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGGkt~~IPk~iL  156 (167)
                      +|.+...++.++++.|+|++...+..+++++.++++.+. |||||.   ||   +|.+++
T Consensus         2 ~v~~~~~~~~~~~~~v~v~~~~~~~~~~~~l~~~~k~~~-ipGFRk---GK---~P~~vi   54 (145)
T PF05697_consen    2 KVTVEKIEDSKVKLEVEVPAEEVEKAYEKALKELAKKVK-IPGFRK---GK---APRNVI   54 (145)
T ss_dssp             EEEEEEESTTEEEEEEEE-HHHHHHHHHHHHHHHHTTTT-BTTS-T---TS---S-HHHH
T ss_pred             ccEEEECCCcEEEEEEEECHHHHHHHHHHHHHHHHhhCC-CCCCCC---CC---CCHHHH
Confidence            577888999999999999999999999999999999996 999998   56   677664

The major chaperones implicated in this folding process are the ribosome-associated Trigger Factor (TF), and the DnaK and GroEL chaperones with their respective co-chaperones. Trigger Factor is an ATP-independent chaperone and displays chaperone and peptidyl-prolyl-cis-trans-isomerase (PPIase) activities in vitro. It is composed of at least three domains, an N-terminal domain which mediates association with the large ribosomal subunit, a central substrate binding and PPIase domain with homology to FKBP proteins, and a C-terminal domain of unknown function. The positioning of TF at the peptide exit channel, together with its ability to interact with nascent chains as short as 57 residues renders TF a prime candidate for being the first chaperone that binds to the nascent polypeptide chains []. This group of sequences contain the ribosomal subunit association domain.; GO: 0006457 protein folding, 0015031 protein transport; PDB: 2D3O_1 1W26_A 1P9Y_A 1OMS_C 1T11_A 3GU0_A 2NSB_A 2NSC_A 3GTY_X.

>PRK01490 tig trigger factor; Provisional

Probab=96.87  E-value=0.0023  Score=55.84  Aligned_cols=53  Identities=28%  Similarity=0.513  Sum_probs=46.4

Q ss_pred             eEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcccccchhHH
Q 031041           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWH  156 (167)
Q Consensus        97 ~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGGkt~~IPk~iL  156 (167)
                      ++.++..++.+.++.|+|++...+..+++++.++++.+ -|||||+  | |   +|..++
T Consensus         2 ~v~~~~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~k~~-~ipGFRk--G-k---vP~~ii   54 (435)
T PRK01490          2 QVTVEKLEGLERRLTITVPAEEIEKAVDKALKKLAKTV-RIPGFRK--G-K---VPRKIV   54 (435)
T ss_pred             cceEEEcCCcEEEEEEEEcHHHHHHHHHHHHHHHHhhC-cCCCccC--C-C---CCHHHH
Confidence            46788889999999999999999999999999999998 5999997  3 3   676654

>COG0544 Tig FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]

Probab=96.05  E-value=0.014  Score=53.16  Aligned_cols=53  Identities=30%  Similarity=0.528  Sum_probs=46.1

Q ss_pred             eEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcccccchhHH
Q 031041           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWH  156 (167)
Q Consensus        97 ~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGGkt~~IPk~iL  156 (167)
                      +|.++..++..+.|.|.|+....+.-+|++|.++++.+. |||||+=   |   +|..++
T Consensus         2 ~v~~e~~~~~~~~l~v~vp~~~~~~~~~~~~~~~~k~v~-IpGFRkG---K---vP~~ii   54 (441)
T COG0544           2 KVTVEKLEGLEVRLTVEVPAEEIKKALDKALKKLAKKVK-IPGFRKG---K---VPRKVI   54 (441)
T ss_pred             CeeeeecCCcEEEEEEEECHHHHHHHHHHHHHHHHhhCc-CCCCCCC---C---CCHHHH
Confidence            367889999999999999999999999999999999987 9999963   3   565553

>TIGR00115 tig trigger factor

Probab=92.81  E-value=0.13  Score=44.56  Aligned_cols=33  Identities=33%  Similarity=0.696  Sum_probs=31.1

Q ss_pred             EEEEEecChhhHHHHHHHHHHhhhcCCCCCCcee
Q 031041          109 QVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRR  142 (167)
Q Consensus       109 kirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr  142 (167)
                      +|.|+|+....+..+|+++.++++.+ -|||||+
T Consensus         2 ~l~v~v~~~~~~~~~~k~~~~~~k~~-~ipGFRk   34 (408)
T TIGR00115         2 KLTVEVPAEEVEEEVDKALKELAKKV-KIPGFRK   34 (408)
T ss_pred             eEEEEECHHHHHHHHHHHHHHHHhhC-CCCCccC
Confidence            58899999999999999999999999 5999997

Trigger factor is a ribosome-associated molecular chaperone and is the first chaperone to interact with nascent polypeptide. Trigger factor can bind at the same time as the signal recognition particle (SRP), but is excluded by the SRP receptor (FtsY). The central domain of trigger factor has peptidyl-prolyl cis/trans isomerase activity. This protein is found in a single copy in virtually every bacterial genome.

---

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	167
2nsc_A	109	Trigger factor, TF; chaperone; 2.20A {Thermotoga m	98.25
1p9y_A	121	Trigger factor, TF; alpha-beta protein, isomerase;	98.21
2d3o_1	112	Trigger factor, TF; ribosome, nascent chain, prote	98.11
3gty_X	433	Trigger factor, TF; chaperone-client complex, cell	97.04
1t11_A	392	Trigger factor, TF; helix-turn-helix, four-helix-b	96.85
1w26_A	432	Trigger factor, TF; chaperone, protein folding, ri	96.55

>2nsc_A Trigger factor, TF; chaperone; 2.20A {Thermotoga maritima} PDB: 2nsb_A

Probab=98.25  E-value=1.6e-06  Score=62.71  Aligned_cols=53  Identities=17%  Similarity=0.330  Sum_probs=47.0

Q ss_pred             eEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcccccchhHH
Q 031041           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWH  156 (167)
Q Consensus        97 ~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGGkt~~IPk~iL  156 (167)
                      +++++..+..+.+|.|+|+....+.-+|+++.++++.+ -|||||+-|      +|..++
T Consensus         2 ~v~~e~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~k~~-~ipGFRkGK------vP~~vi   54 (109)
T 2nsc_A            2 EVKELERDKNRVVLEYVFGAEEIAQAEDKAVRYLNQRV-EIPGFRKGR------IPKNVL   54 (109)
T ss_dssp             EEEEEEEETTEEEEEEECCHHHHHHHHHHHHHHHHTTC-CCTTSCTTC------CCHHHH
T ss_pred             ceEEEEcCCCEEEEEEEECHHHHHHHHHHHHHHHhccC-CCCCcCCCC------CCHHHH
Confidence            46788889999999999999999999999999999998 599999733      788764

>1p9y_A Trigger factor, TF; alpha-beta protein, isomerase; 2.15A {Escherichia coli} SCOP: d.241.2.1 PDB: 1oms_A*

Probab=98.21  E-value=2.9e-06  Score=62.45  Aligned_cols=54  Identities=24%  Similarity=0.395  Sum_probs=47.9

Q ss_pred             eeEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcccccchhHH
Q 031041           96 AKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWH  156 (167)
Q Consensus        96 ~~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGGkt~~IPk~iL  156 (167)
                      .+++++..+..+.+|.|+|+....+.-+|+++.++++.+ -|||||+  | |   +|..++
T Consensus         4 M~v~~e~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~k~v-~ipGFRk--G-K---vP~~vi   57 (121)
T 1p9y_A            4 MQVSVETTQGLGRRVTITIAADSIETAVKSELVNVAKKV-RIDGLRK--G-K---VPMNIV   57 (121)
T ss_dssp             CEEEEEECSTTEEEEEEEECHHHHHHHHHHHHHHHHTTC-CCTTSCT--T-C---SCHHHH
T ss_pred             ceEEEEECCCcEEEEEEEECHHHHHHHHHHHHHHHHhhC-ccCCcCC--C-C---CCHHHH
Confidence            467889999999999999999999999999999999998 5999996  3 3   788764

>2d3o_1 Trigger factor, TF; ribosome, nascent chain, protein folding, SRP; 3.35A {Deinococcus radiodurans} PDB: 2aar_7

Probab=98.11  E-value=1.8e-06  Score=62.78  Aligned_cols=52  Identities=27%  Similarity=0.528  Sum_probs=39.2

Q ss_pred             eEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcccccchhHH
Q 031041           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWH  156 (167)
Q Consensus        97 ~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGGkt~~IPk~iL  156 (167)
                      +++++. +..+.+|.|+|+....+.-+|+++.++++.+ -|||||+  | |   +|..++
T Consensus         2 ~v~~e~-~~~~~~l~v~v~~~~~~~~~~~~~~~~~k~~-~ipGFRk--G-K---vP~~vi   53 (112)
T 2d3o_1            2 AELISK-EGNKVEFKVSVPAAEVNRAYDQVWAGLARDV-RVPGFRP--G-K---APRKVI   53 (112)
T ss_dssp             ---------CCEEEEECCCGGGTHHHHHHHHHHHHTTS-CBTTBCT--T-C---CCSTTH
T ss_pred             ceEEEc-CCcEEEEEEEECHHHHHHHHHHHHHHHHhhC-CCCCcCC--C-C---CCHHHH
Confidence            467888 8899999999999999999999999999998 4999996  3 3   777654

>3gty_X Trigger factor, TF; chaperone-client complex, cell cycle, cell division, chapero isomerase, rotamase, ribonucleoprotein, binding; 3.40A {Thermotoga maritima} PDB: 3gu0_A

Probab=97.04  E-value=0.00091  Score=58.01  Aligned_cols=53  Identities=19%  Similarity=0.377  Sum_probs=44.8

Q ss_pred             eEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcccccchhHH
Q 031041           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWH  156 (167)
Q Consensus        97 ~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGGkt~~IPk~iL  156 (167)
                      +|+++..+.++.++.|+|+...-+.-+|+++.++++.+. |||||+  | |   +|..++
T Consensus         2 ~v~~~~~e~~~~~l~i~v~~~~~~~~~~~~~k~~~k~v~-ipGFRk--G-K---vP~~vi   54 (433)
T 3gty_X            2 EVKELERDKNRVVLEYVFGAEEIAQAEDKAVRYLNQRVE-IPGFRK--G-R---IPKNVL   54 (433)
T ss_dssp             EEEEEEEETTEEEEEEECCTTHHHHHHHHHHHHHHTSCC-CCC--C--C-C---CCSHHH
T ss_pred             ceEEEEcCCCEEEEEEEEcHHHHHHHHHHHHHHHHHhCC-CCCCCC--C-C---CcHHHH
Confidence            467888899999999999999999999999999999997 999995  4 3   776654

>1t11_A Trigger factor, TF; helix-turn-helix, four-helix-bundle, ppiase, chaperone; 2.50A {Vibrio cholerae} SCOP: a.223.1.1 d.241.2.1 d.26.1.1 PDB: 1l1p_A

Probab=96.85  E-value=0.0021  Score=55.07  Aligned_cols=54  Identities=20%  Similarity=0.376  Sum_probs=47.9

Q ss_pred             eeEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcccccchhHH
Q 031041           96 AKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWH  156 (167)
Q Consensus        96 ~~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGGkt~~IPk~iL  156 (167)
                      .+++++.-+..+.+|.|+|+....+.-+|+++.++++.+ -|||||+  | |   +|..++
T Consensus         4 M~v~~e~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~k~~-~ipGFRk--G-K---vP~~~i   57 (392)
T 1t11_A            4 MQVTVETLEGLQRRLNITVPAANIEDAVAAELRNIAKNR-RFDGFRK--G-K---VPMKMV   57 (392)
T ss_dssp             CEEEEEECSTTEEEEEEEECHHHHHHHHHHHHHHHHTTC-CCTTSCS--S-C---CCHHHH
T ss_pred             ceEEEEEcCCcEEEEEEEEcHHHHHHHHHHHHHHHhccC-CCCCCCC--C-C---CCHHHH
Confidence            467899999999999999999999999999999999998 6999996  3 3   787764

>1w26_A Trigger factor, TF; chaperone, protein folding, ribosome associated protein, nascent chain, cell division, isomerase; 2.7A {Escherichia coli} SCOP: a.223.1.1 d.241.2.1 d.26.1.1 PDB: 2vrh_A 1w2b_5

Probab=96.55  E-value=0.0027  Score=54.93  Aligned_cols=53  Identities=26%  Similarity=0.438  Sum_probs=46.5

Q ss_pred             eEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcccccchhHH
Q 031041           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWH  156 (167)
Q Consensus        97 ~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGGkt~~IPk~iL  156 (167)
                      +++++.-+..+.+|.|+|+....+.-+|+++.++++.+ -|||||+  | |   +|..++
T Consensus         2 ~v~~e~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~k~~-~ipGFRk--G-K---vP~~vi   54 (432)
T 1w26_A            2 QVSVETTQGLGRRVTITIAADSIETAVKSELVNVAKKV-RIDGFRK--G-K---VPMNIV   54 (432)
T ss_dssp             EEECCBCSTTEEEEEEEECHHHHHHHHHHHHHHHHHHT-TCGGGCC--S-S---SCHHHH
T ss_pred             ceEEEEcCCcEEEEEEEEcHHHHHHHHHHHHHHHhhhC-CCCCcCC--C-C---CCHHHH
Confidence            46778888999999999999999999999999999998 5999997  3 3   777764

---

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	167
d1p9ya_	117	Trigger factor ribosome-binding domain {Escherichi	97.85
d1t11a2	129	Trigger factor ribosome-binding domain {Vibrio cho	97.4

>d1p9ya_ d.241.2.1 (A:) Trigger factor ribosome-binding domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Ribosome binding domain-like
superfamily: Trigger factor ribosome-binding domain
family: Trigger factor ribosome-binding domain
domain: Trigger factor ribosome-binding domain
species: Escherichia coli [TaxId: 562]

Probab=97.85  E-value=1.8e-05  Score=56.10  Aligned_cols=53  Identities=23%  Similarity=0.361  Sum_probs=47.5

Q ss_pred             eEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcccccchhHH
Q 031041           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWH  156 (167)
Q Consensus        97 ~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGGkt~~IPk~iL  156 (167)
                      +|++++.++.+.++.|+|+.+.-+.-+|+++.++++.| -|||||+-|      +|.+++
T Consensus         2 ~v~v~~~~~~~~~l~i~v~~~~v~~~~~~~~~~~~k~~-~ipGFRkGK------vP~~vi   54 (117)
T d1p9ya_           2 QVSVETTQGLGRRVTITIAADSIETAVKSELVNVAKKV-RIDGLRKGK------VPMNIV   54 (117)
T ss_dssp             EEEEEECSTTEEEEEEEECHHHHHHHHHHHHHHHHTTC-CCTTSCTTC------SCHHHH
T ss_pred             ceEEEecCCCEEEEEEEECHHHHHHHHHHHHHHHHhcC-CCCCcCCCC------ccHHHH
Confidence            57899999999999999999999999999999999999 699999644      777764

>d1t11a2 d.241.2.1 (A:1-129) Trigger factor ribosome-binding domain {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a+b)
fold: Ribosome binding domain-like
superfamily: Trigger factor ribosome-binding domain
family: Trigger factor ribosome-binding domain
domain: Trigger factor ribosome-binding domain
species: Vibrio cholerae [TaxId: 666]

Probab=97.40  E-value=0.0002  Score=51.14  Aligned_cols=53  Identities=21%  Similarity=0.387  Sum_probs=46.6

Q ss_pred             eEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcccccchhHH
Q 031041           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWH  156 (167)
Q Consensus        97 ~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGGkt~~IPk~iL  156 (167)
                      +++++..++.+.++.|+|+...-+.-+++++.++++.+. |||||+   ||   +|.+++
T Consensus         2 ~~~~~~~~~~~~~l~v~v~~~e~~~~~~~~~~~~~k~~~-ipGFRk---GK---vP~~ii   54 (129)
T d1t11a2           2 QVTVETLEGLQRRLNITVPAANIEDAVAAELRNIAKNRR-FDGFRK---GK---VPMKMV   54 (129)
T ss_dssp             EEEEEECSTTEEEEEEEECHHHHHHHHHHHHHHHHTTCC-CTTSCS---SC---CCHHHH
T ss_pred             ceEEEEcCCcEEEEEEEECHHHHHHHHHHHHHHHHHhCC-CCCCCC---CC---CcHHHH
Confidence            578888999999999999999999999999999999775 999997   33   777764