Citrus Sinensis ID: 031255

---

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
MASASATMTIIPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTVSAVDSGVEVSITEPEDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGNALYLGIFSYKSLVKSG
Secondary Structure (PSIPRED)
cccccccEEEEcccccccccccccccccccccccccccccccEEEEcccEEEEccccccccccEEEEcEEEEEEEEEcccEEcccccccccEEcccEEEEEcccccEEEEEEEcccHHHHHHHHHHHHHHHHccccccccEEcccccEEEEEEEcccEEEccc
Secondary Structure Prediction (SSPRO)
cccccccccEcccccccccccEcccccccEEcccccccccccccccccccEEEEccccccHHHHHHHcccccEEEcccccEEEEccccccEEEEcEEEEEEEccccEEEEEEEcccHHHHHHHHHHHHHHHHcccccccccEcccccccEEEEEEHHHHcccc
Coil and Loop (DISEMBL)
masasatmtiipskfqnielfsprscrnytlchpnapksvnffhfqnsscffvrpslycnplMRRVQHVLKTVSAvdsgvevsitepedlitvkdAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLarsappipgfrrekggnaLYLGIFSYKSLVKSG
Flexible Loop (DISEMBL)
masasatmtiipskfqniELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTVsavdsgvevsitepedlitvkdakivvesqdedkiqvrvdltgdatqRVFDKVLTnlarsappipgfrrekggnalYLGIFSykslvksg
Low Complexity Region (SEG)
MASASATMTIIPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTVSAVDSGVEVSITEPEDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGNALYLGIFSYKSLVKSG
Disordered region (IsUnstruct)
********TIIPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTVSAVDSGVEVSITEPEDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGNALYLGIFSYKSL****
Disordered Region (DISOPRED)
***********PSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTV*****************ITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGNALYLGIFSYKSLVK**
Disordered Region (DISEMBL)
MASASATMTIIPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTVSAVDSGVEVSITEPEDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGNALYLGIFSYKSLVKSG
Disordered Region (DISPRO)
********TIIPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTVSAVDSGVEVSITEPEDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGNALYLGIFSYKSLVKS*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MASASATMTIIPSKFQNIELFSPRSCRNYTLCHPNAPKSVNFFHFQNSSCFFVRPSLYCNPLMRRVQHVLKTVSAVDSGVEVSITEPEDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGNALYLGIFSYKSLVKSG
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	163
296084278	440	unnamed protein product [Vitis vinifera]	0.871	0.322	0.510	9e-28
225434092	232	PREDICTED: uncharacterized protein LOC10	0.840	0.590	0.506	4e-25
255579456	216	conserved hypothetical protein [Ricinus	0.742	0.560	0.507	2e-24
255636592	183	unknown [Glycine max]	0.901	0.803	0.416	1e-23
449487317	165	PREDICTED: uncharacterized LOC101212225	0.699	0.690	0.512	9e-21
449445840	247	PREDICTED: uncharacterized protein LOC10	0.466	0.307	0.649	1e-20
224122010	123	predicted protein [Populus trichocarpa]	0.404	0.536	0.716	9e-20
388492748	233	unknown [Lotus japonicus]	0.570	0.399	0.476	3e-19
357473107	219	hypothetical protein MTR_4g068280 [Medic	0.503	0.374	0.530	2e-18
388513321	221	unknown [Medicago truncatula]	0.509	0.375	0.5	7e-17

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

 Score =  128 bits (321), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 76/149 (51%), Positives = 101/149 (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: 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 FDKVLTNLARSAPPIPGFRREKGGNALYL 151
           FD VLTNLARSAPPIPGFRR+KGGN+LY+
Sbjct: 326 FDHVLTNLARSAPPIPGFRRQKGGNSLYV 354

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  119 bits (298), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 73/144 (50%), Positives = 96/144 (66%), Gaps = 7/144 (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 FDKVLTNLARSAPPIPGFRREKGG 146
           FD VLTNLARSAPPIPGFRR+KGG
Sbjct: 118 FDHVLTNLARSAPPIPGFRRQKGG 141

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  117 bits (293), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 64/126 (50%), Positives = 86/126 (68%), Gaps = 5/126 (3%)

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 REKGGN 147
           REKGG+
Sbjct: 128 REKGGD 133

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  114 bits (286), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 62/149 (41%), Positives = 94/149 (63%), Gaps = 2/149 (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 QRVFDKVLTNLARSAPPIPGFRREKGGNA 148
           Q+VFD++LTNL R+APP+PGFR +KGG +
Sbjct: 122 QKVFDRILTNLGRTAPPVPGFRMQKGGKS 150

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  105 bits (261), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 61/119 (51%), Positives = 81/119 (68%), Gaps = 5/119 (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  -DLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGG 146
            + IT+K+AK+VVES++E+KIQ+RVDLTGD TQ+VFD+VLTNLARSAPP+PGFR++KGG
Sbjct: 92  GNPITLKNAKVVVESEEENKIQLRVDLTGDETQKVFDQVLTNLARSAPPMPGFRKQKGG 150

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  104 bits (260), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 50/77 (64%), Positives = 67/77 (87%), Gaps = 1/77 (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 LARSAPPIPGFRREKGG 146
           LARSAPP+PGFR++KGG
Sbjct: 148 LARSAPPMPGFRKQKGG 164

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 =  101 bits (252), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 48/67 (71%), Positives = 58/67 (86%), Gaps = 1/67 (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 FRREKGG 146
           FRREKGG
Sbjct: 72  FRREKGG 78

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 = 99.8 bits (247), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 51/107 (47%), Positives = 73/107 (68%), Gaps = 14/107 (13%)

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

Query: 102 SQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGNA 148
           S+DE KIQ+RVDLTGD T+RVFD+ L +L R+APP+PGFR +KGG +
Sbjct: 107 SEDESKIQLRVDLTGDQTERVFDRTLISLGRTAPPVPGFRMQKGGKS 153

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

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 = 97.4 bits (241), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 44/83 (53%), Positives = 64/83 (77%), Gaps = 1/83 (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 KVLTNLARSAPPIPGFRREKGGN 147
           ++L NL R+APP+PGFR +KGGN
Sbjct: 116 RILINLGRTAPPVPGFRMQKGGN 138

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score = 92.0 bits (227), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 42/84 (50%), Positives = 63/84 (75%), Gaps = 1/84 (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 KVLTNLARSAPPIPGFRREKGGNA 148
           ++  NL R+APP+PGFR +KGG +
Sbjct: 116 RIPINLGRTAPPVPGFRMQKGGKS 139

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	163
TAIR|locus:505006279	199	AT2G30695 "AT2G30695" [Arabido	0.582	0.477	0.390	1.2e-08

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

 Score = 130 (50.8 bits), Expect = 1.2e-08, P = 1.2e-08
 Identities = 41/105 (39%), Positives = 53/105 (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 SQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGG 146
             + +E K+ V+V  +G+ TQ VF+ V   +  +A PIPGFRR KGG
Sbjct:    79 TSNEVKVHVQV--SGEKTQTVFNHVFEKMVAAAQPIPGFRRVKGG 121


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        0.320   0.134   0.389    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      163       163   0.00084  107 3  11 22  0.49    31
                                                     30  0.44    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:  553 (59 KB)
  Total size of DFA:  132 KB (2084 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:  17.49u 0.10s 17.59t   Elapsed:  00:00:00
  Total cpu time:  17.49u 0.10s 17.59t   Elapsed:  00:00:00
  Start:  Mon May 20 21:01:42 2013   End:  Mon May 20 21:01:42 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!

---

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	163
PF05697	145	Trigger_N: Bacterial trigger factor protein (TF);	98.12
PRK01490	435	tig trigger factor; Provisional	96.89
COG0544	441	Tig FKBP-type peptidyl-prolyl cis-trans isomerase	95.71
TIGR00115	408	tig trigger factor. Trigger factor is a ribosome-a	93.53
PRK02103	105	malonate decarboxylase subunit delta; Provisional	80.73

>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=98.12  E-value=5.5e-06  Score=61.90  Aligned_cols=48  Identities=33%  Similarity=0.766  Sum_probs=42.4

Q ss_pred             EEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcc
Q 031255           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGNA  148 (163)
Q Consensus        97 kV~v~s~dd~~IqiRVdlsG~~Tq~VFd~Vf~klvraAqPIPGFRR~KGGKT  148 (163)
                      +|.++..++.++++.|++++...+..+++++.++++.+. |||||.   ||.
T Consensus         2 ~v~~~~~~~~~~~~~v~v~~~~~~~~~~~~l~~~~k~~~-ipGFRk---GK~   49 (145)
T PF05697_consen    2 KVTVEKIEDSKVKLEVEVPAEEVEKAYEKALKELAKKVK-IPGFRK---GKA   49 (145)
T ss_dssp             EEEEEEESTTEEEEEEEE-HHHHHHHHHHHHHHHHTTTT-BTTS-T---TSS
T ss_pred             ccEEEECCCcEEEEEEEECHHHHHHHHHHHHHHHHhhCC-CCCCCC---CCC
Confidence            577888999999999999999999999999999999996 999998   563

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=96.89  E-value=0.0018  Score=56.03  Aligned_cols=45  Identities=27%  Similarity=0.574  Sum_probs=41.9

Q ss_pred             EEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCcee
Q 031255           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRR  142 (163)
Q Consensus        97 kV~v~s~dd~~IqiRVdlsG~~Tq~VFd~Vf~klvraAqPIPGFRR  142 (163)
                      +|.++..++.+.++.|+|+....+..+|+++.++++.+ -|||||+
T Consensus         2 ~v~~~~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~k~~-~ipGFRk   46 (435)
T PRK01490          2 QVTVEKLEGLERRLTITVPAEEIEKAVDKALKKLAKTV-RIPGFRK   46 (435)
T ss_pred             cceEEEcCCcEEEEEEEEcHHHHHHHHHHHHHHHHhhC-cCCCccC
Confidence            46788889999999999999999999999999999998 5999997

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

Probab=95.71  E-value=0.018  Score=52.07  Aligned_cols=45  Identities=31%  Similarity=0.654  Sum_probs=42.2

Q ss_pred             EEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCcee
Q 031255           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRR  142 (163)
Q Consensus        97 kV~v~s~dd~~IqiRVdlsG~~Tq~VFd~Vf~klvraAqPIPGFRR  142 (163)
                      +|+++..++..+.|.|.|+....+.-+|++|.++++.+. |||||+
T Consensus         2 ~v~~e~~~~~~~~l~v~vp~~~~~~~~~~~~~~~~k~v~-IpGFRk   46 (441)
T COG0544           2 KVTVEKLEGLEVRLTVEVPAEEIKKALDKALKKLAKKVK-IPGFRK   46 (441)
T ss_pred             CeeeeecCCcEEEEEEEECHHHHHHHHHHHHHHHHhhCc-CCCCCC
Confidence            367888999999999999999999999999999999987 999996

>TIGR00115 tig trigger factor

Probab=93.53  E-value=0.082  Score=45.38  Aligned_cols=35  Identities=34%  Similarity=0.679  Sum_probs=32.1

Q ss_pred             EEEEEecChhhHHHHHHHHHHhhhcCCCCCCceecc
Q 031255          109 QVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREK  144 (163)
Q Consensus       109 qiRVdlsG~~Tq~VFd~Vf~klvraAqPIPGFRR~K  144 (163)
                      ++.|+|+....+..||+++.++++.+ -|||||+=|
T Consensus         2 ~l~v~v~~~~~~~~~~k~~~~~~k~~-~ipGFRkGK   36 (408)
T TIGR00115         2 KLTVEVPAEEVEEEVDKALKELAKKV-KIPGFRKGK   36 (408)
T ss_pred             eEEEEECHHHHHHHHHHHHHHHHhhC-CCCCccCCC
Confidence            58899999999999999999999999 599999854

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.

>PRK02103 malonate decarboxylase subunit delta; Provisional

Probab=80.73  E-value=9.1  Score=29.63  Aligned_cols=56  Identities=16%  Similarity=0.243  Sum_probs=44.9

Q ss_pred             eeEEEEEcCC-CCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceec--cCCccCCc
Q 031255           95 DAKIVVESQD-EDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRRE--KGGNALYL  151 (163)
Q Consensus        95 dfkV~v~s~d-d~~IqiRVdlsG~~Tq~VFd~Vf~klvraAqPIPGFRR~--KGGKT~~I  151 (163)
                      |..|-++..+ +++++|+|+-|=+--+.+++.||+..+... |.||-|-.  -+|-||.+
T Consensus        30 dLEVL~ep~~~~~~~~v~I~Tsv~Gf~~~WqaVl~~f~~r~-~~~~~~i~InD~GATP~V   88 (105)
T PRK02103         30 NLEVLVERVLPGGECEVEIRTAAVGFGAVWQAVVADFVERR-SPGGLRISINDGGARPDT   88 (105)
T ss_pred             ceEEEEeccCCCCeEEEEEEecccCcHHHHHHHHHHHHhhC-CCCccEEEEeCCCCCchh
Confidence            7788888886 899999999998889999999999999888 77776643  35555543

---

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	163
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-05

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 42.1 bits (98), Expect = 4e-05
 Identities = 23/146 (15%), Positives = 44/146 (30%), Gaps = 35/146 (23%)

Query: 30  TLCH-------------PNAPKSVNFFHFQNSSCFFVRPSLYCNPL--MRRVQHVLKTVS 74
            L +              N    ++    +       +P  Y N L  +  VQ+  K  +
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP--YENCLLVLLNVQNA-KAWN 260

Query: 75  AVDSGVEVSITEPEDLITVKDAKIVVESQDEDKIQVRVD-----LTGDATQRVFDKVLTN 129
           A +   ++       L+T +  ++           + +D     LT D  + +  K L  
Sbjct: 261 AFNLSCKI-------LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC 313

Query: 130 LARSAPPIPGFRREKGGNALYLGIFS 155
             +  P     R     N   L I +
Sbjct: 314 RPQDLP-----REVLTTNPRRLSIIA 334

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	163
2d3o_1	112	Trigger factor, TF; ribosome, nascent chain, prote	98.11
2nsc_A	109	Trigger factor, TF; chaperone; 2.20A {Thermotoga m	98.09
1p9y_A	121	Trigger factor, TF; alpha-beta protein, isomerase;	98.06
3gty_X	433	Trigger factor, TF; chaperone-client complex, cell	96.8
1t11_A	392	Trigger factor, TF; helix-turn-helix, four-helix-b	96.57
1w26_A	432	Trigger factor, TF; chaperone, protein folding, ri	96.2

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

Probab=98.11  E-value=2.1e-06  Score=61.97  Aligned_cols=44  Identities=27%  Similarity=0.625  Sum_probs=34.7

Q ss_pred             EEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCcee
Q 031255           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRR  142 (163)
Q Consensus        97 kV~v~s~dd~~IqiRVdlsG~~Tq~VFd~Vf~klvraAqPIPGFRR  142 (163)
                      +++++. +..+.+|.|+|+.+..+.-+|++|.++++.+ -|||||+
T Consensus         2 ~v~~e~-~~~~~~l~v~v~~~~~~~~~~~~~~~~~k~~-~ipGFRk   45 (112)
T 2d3o_1            2 AELISK-EGNKVEFKVSVPAAEVNRAYDQVWAGLARDV-RVPGFRP   45 (112)
T ss_dssp             ---------CCEEEEECCCGGGTHHHHHHHHHHHHTTS-CBTTBCT
T ss_pred             ceEEEc-CCcEEEEEEEECHHHHHHHHHHHHHHHHhhC-CCCCcCC
Confidence            467888 8999999999999999999999999999998 4999997

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

Probab=98.09  E-value=4.1e-06  Score=60.16  Aligned_cols=46  Identities=20%  Similarity=0.406  Sum_probs=42.3

Q ss_pred             EEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceec
Q 031255           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRRE  143 (163)
Q Consensus        97 kV~v~s~dd~~IqiRVdlsG~~Tq~VFd~Vf~klvraAqPIPGFRR~  143 (163)
                      +++++..++.+.+|.|+|+.+..+.-+|+++.++++.+ -|||||+-
T Consensus         2 ~v~~e~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~k~~-~ipGFRkG   47 (109)
T 2nsc_A            2 EVKELERDKNRVVLEYVFGAEEIAQAEDKAVRYLNQRV-EIPGFRKG   47 (109)
T ss_dssp             EEEEEEEETTEEEEEEECCHHHHHHHHHHHHHHHHTTC-CCTTSCTT
T ss_pred             ceEEEEcCCCEEEEEEEECHHHHHHHHHHHHHHHhccC-CCCCcCCC
Confidence            46788889999999999999999999999999999998 59999973

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

Probab=98.06  E-value=7e-06  Score=60.02  Aligned_cols=46  Identities=22%  Similarity=0.397  Sum_probs=43.1

Q ss_pred             eEEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCcee
Q 031255           96 AKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRR  142 (163)
Q Consensus        96 fkV~v~s~dd~~IqiRVdlsG~~Tq~VFd~Vf~klvraAqPIPGFRR  142 (163)
                      .+++++..+..+.+|.|+|+.+..+.-+|++|.++++.+ -|||||+
T Consensus         4 M~v~~e~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~k~v-~ipGFRk   49 (121)
T 1p9y_A            4 MQVSVETTQGLGRRVTITIAADSIETAVKSELVNVAKKV-RIDGLRK   49 (121)
T ss_dssp             CEEEEEECSTTEEEEEEEECHHHHHHHHHHHHHHHHTTC-CCTTSCT
T ss_pred             ceEEEEECCCcEEEEEEEECHHHHHHHHHHHHHHHHhhC-ccCCcCC
Confidence            567889999999999999999999999999999999998 5999996

>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=96.80  E-value=0.0016  Score=55.98  Aligned_cols=45  Identities=20%  Similarity=0.420  Sum_probs=40.1

Q ss_pred             EEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCcee
Q 031255           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRR  142 (163)
Q Consensus        97 kV~v~s~dd~~IqiRVdlsG~~Tq~VFd~Vf~klvraAqPIPGFRR  142 (163)
                      +|+++..+.++..+.|+|+...-+.-+|++|.++++.+. |||||+
T Consensus         2 ~v~~~~~e~~~~~l~i~v~~~~~~~~~~~~~k~~~k~v~-ipGFRk   46 (433)
T 3gty_X            2 EVKELERDKNRVVLEYVFGAEEIAQAEDKAVRYLNQRVE-IPGFRK   46 (433)
T ss_dssp             EEEEEEEETTEEEEEEECCTTHHHHHHHHHHHHHHTSCC-CCC--C
T ss_pred             ceEEEEcCCCEEEEEEEEcHHHHHHHHHHHHHHHHHhCC-CCCCCC
Confidence            467888899999999999999999999999999999997 999996

>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=96.57  E-value=0.0035  Score=53.28  Aligned_cols=46  Identities=17%  Similarity=0.370  Sum_probs=43.2

Q ss_pred             eEEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCcee
Q 031255           96 AKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRR  142 (163)
Q Consensus        96 fkV~v~s~dd~~IqiRVdlsG~~Tq~VFd~Vf~klvraAqPIPGFRR  142 (163)
                      .+|+++.-+..+.+|.|+|+....+.-+|+++.++++.+ -|||||+
T Consensus         4 M~v~~e~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~k~~-~ipGFRk   49 (392)
T 1t11_A            4 MQVTVETLEGLQRRLNITVPAANIEDAVAAELRNIAKNR-RFDGFRK   49 (392)
T ss_dssp             CEEEEEECSTTEEEEEEEECHHHHHHHHHHHHHHHHTTC-CCTTSCS
T ss_pred             ceEEEEEcCCcEEEEEEEEcHHHHHHHHHHHHHHHhccC-CCCCCCC
Confidence            568889999999999999999999999999999999998 6999996

>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=96.20  E-value=0.0045  Score=53.14  Aligned_cols=45  Identities=24%  Similarity=0.448  Sum_probs=41.8

Q ss_pred             EEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCcee
Q 031255           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRR  142 (163)
Q Consensus        97 kV~v~s~dd~~IqiRVdlsG~~Tq~VFd~Vf~klvraAqPIPGFRR  142 (163)
                      +|+++.-+..+.+|.|+|+....+.-+|+++.++++.+ -|||||+
T Consensus         2 ~v~~e~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~k~~-~ipGFRk   46 (432)
T 1w26_A            2 QVSVETTQGLGRRVTITIAADSIETAVKSELVNVAKKV-RIDGFRK   46 (432)
T ss_dssp             EEECCBCSTTEEEEEEEECHHHHHHHHHHHHHHHHHHT-TCGGGCC
T ss_pred             ceEEEEcCCcEEEEEEEEcHHHHHHHHHHHHHHHhhhC-CCCCcCC
Confidence            46778889999999999999999999999999999998 5999997

---

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	163
d1p9ya_	117	Trigger factor ribosome-binding domain {Escherichi	97.66
d1t11a2	129	Trigger factor ribosome-binding domain {Vibrio cho	97.39

>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=97.66  E-value=4.1e-05  Score=53.75  Aligned_cols=47  Identities=23%  Similarity=0.410  Sum_probs=43.4

Q ss_pred             EEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceecc
Q 031255           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREK  144 (163)
Q Consensus        97 kV~v~s~dd~~IqiRVdlsG~~Tq~VFd~Vf~klvraAqPIPGFRR~K  144 (163)
                      +|+++..++-+.++.|+|+.+..+.-||+++.++++.+ -|||||+-|
T Consensus         2 ~v~v~~~~~~~~~l~i~v~~~~v~~~~~~~~~~~~k~~-~ipGFRkGK   48 (117)
T d1p9ya_           2 QVSVETTQGLGRRVTITIAADSIETAVKSELVNVAKKV-RIDGLRKGK   48 (117)
T ss_dssp             EEEEEECSTTEEEEEEEECHHHHHHHHHHHHHHHHTTC-CCTTSCTTC
T ss_pred             ceEEEecCCCEEEEEEEECHHHHHHHHHHHHHHHHhcC-CCCCcCCCC
Confidence            57889999999999999999999999999999999999 699999743

>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=97.39  E-value=0.00018  Score=51.03  Aligned_cols=45  Identities=18%  Similarity=0.383  Sum_probs=41.8

Q ss_pred             EEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCcee
Q 031255           97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRR  142 (163)
Q Consensus        97 kV~v~s~dd~~IqiRVdlsG~~Tq~VFd~Vf~klvraAqPIPGFRR  142 (163)
                      +++++..++.+.++.|+|+.+.-+.-+|+++.++++.+. |||||+
T Consensus         2 ~~~~~~~~~~~~~l~v~v~~~e~~~~~~~~~~~~~k~~~-ipGFRk   46 (129)
T d1t11a2           2 QVTVETLEGLQRRLNITVPAANIEDAVAAELRNIAKNRR-FDGFRK   46 (129)
T ss_dssp             EEEEEECSTTEEEEEEEECHHHHHHHHHHHHHHHHTTCC-CTTSCS
T ss_pred             ceEEEEcCCcEEEEEEEECHHHHHHHHHHHHHHHHHhCC-CCCCCC
Confidence            577888899999999999999999999999999999775 999997