Citrus Sinensis ID: 035469

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--
Protein Sequence
MMDHEHEEAQRKGGKRKCSMCARGFARTKKKGNDRSFIEGCLFALCCCWICDACFDVTVVAG
Secondary Structure (PSIPRED)
cccccHHHHHccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHcEEEEEEc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHcccccEcccccccccccccccccccHHHHHHHHHHHHHHHHHcccEEEEEc
Coil and Loop (DISEMBL)
MMDHEHEEAqrkggkrkcsmcargfartkkkgndrsfIEGCLFALCccwicdacfdvTVVAG
Flexible Loop (DISEMBL)
mmdheheeaqrkggkrkcsmcargfartkkkgndrSFIEGCLFALCCCWICDACFDVTVVAG
Low Complexity Region (SEG)
MMDHEHEEAQRKGGKRKCSMCARGFARTKKKGNDRSFIEGCLFALCCCWICDACFDVTVVAG
Disordered region (IsUnstruct)
*********************************DRSFIEGCLFALCCCWICDACFDVTVV**
Disordered Region (DISOPRED)
************************************FIEGCLFALCCCWICDACFDVTVVAG
Disordered Region (DISEMBL)
*****************CSMCARGFARTKKKGNDRSFIEGCLFALCCCWICDACFDVTVVAG
Disordered Region (DISPRO)
**********************RG*********DRSFIEGCLFALCCCWICDACFDVTVVAG
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MMDHEHEEAQRKGGKRKCSMCARGFARTKKKGNDRSFIEGCLFALCCCWICDACFDVTVVAG
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	62
255581387	56	conserved hypothetical protein [Ricinus	0.870	0.964	0.526	8e-06
297806383	64	hypothetical protein ARALYDRAFT_908293 [	0.483	0.468	0.806	2e-05
297739898	56	unnamed protein product [Vitis vinifera]	0.677	0.75	0.56	2e-05
30680382	63	uncharacterized protein [Arabidopsis tha	0.758	0.746	0.571	3e-05

>gi|255581387|ref|XP_002531502.1| conserved hypothetical protein [Ricinus communis] gi|223528889|gb|EEF30889.1| conserved hypothetical protein [Ricinus communis]

 Score = 54.7 bits (130), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 30/57 (52%), Positives = 35/57 (61%), Gaps = 3/57 (5%)

Query: 1  MMDHEHEEAQRKGGKRKCSMCARGF--ARTKKKGNDRSFIEGCLFALCCCWICDACF 55
          M   E +E Q   G    +  A+      TKKKG DR FIEGCLFALCCCW+C+ACF
Sbjct: 1  MPKSEKQENQPPPGYPTDTPTAKKKCCPNTKKKG-DRGFIEGCLFALCCCWLCEACF 56

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297806383|ref|XP_002871075.1| hypothetical protein ARALYDRAFT_908293 [Arabidopsis lyrata subsp. lyrata] gi|297316912|gb|EFH47334.1| hypothetical protein ARALYDRAFT_908293 [Arabidopsis lyrata subsp. lyrata]

 Score = 53.5 bits (127), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/31 (80%), Positives = 26/31 (83%), Gaps = 1/31 (3%)

Query: 25 FARTKKKGNDRSFIEGCLFALCCCWICDACF 55
          F  TKKKG DR FIEGCLFALCCCWIC+ CF
Sbjct: 35 FFETKKKG-DRGFIEGCLFALCCCWICEMCF 64

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297739898|emb|CBI30080.3| unnamed protein product [Vitis vinifera]

 Score = 53.1 bits (126), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 28/50 (56%), Positives = 31/50 (62%), Gaps = 8/50 (16%)

Query: 6  HEEAQRKGGKRKCSMCARGFARTKKKGNDRSFIEGCLFALCCCWICDACF 55
          +  A    GK  C        R+K KG DR FIEGCLFALCCCWIC+ACF
Sbjct: 15 YPPANPPTGKNCC-------PRSKSKG-DRGFIEGCLFALCCCWICEACF 56

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30680382|ref|NP_196028.2| uncharacterized protein [Arabidopsis thaliana] gi|38603900|gb|AAR24695.1| At5g04080 [Arabidopsis thaliana] gi|41349906|gb|AAS00338.1| At5g04080 [Arabidopsis thaliana] gi|332003311|gb|AED90694.1| uncharacterized protein [Arabidopsis thaliana]

 Score = 52.4 bits (124), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 28/49 (57%), Positives = 33/49 (67%), Gaps = 2/49 (4%)

Query: 7  EEAQRKGGKRKCSMCARGFARTKKKGNDRSFIEGCLFALCCCWICDACF 55
          E+   + G+ K     R F  TK+KG DR FIEGCLFALCCCWIC+ CF
Sbjct: 17 EQVSEQPGQDKKKKKPR-FFETKQKG-DRGFIEGCLFALCCCWICEMCF 63

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	62
TAIR|locus:2150685	63	AT5G04080 "AT5G04080" [Arabido	0.758	0.746	0.571	2e-10
TAIR|locus:2045522	71	AT2G32190 "AT2G32190" [Arabido	0.419	0.366	0.571	6.3e-05
TAIR|locus:2045492	71	AT2G32210 "AT2G32210" [Arabido	0.419	0.366	0.571	6.3e-05
TAIR|locus:2207195	72	AT1G05340 "AT1G05340" [Arabido	0.516	0.444	0.5	0.00013
TAIR|locus:2040332	98	WIH2 "WINDHOSE 2" [Arabidopsis	0.306	0.193	0.736	0.00027
TAIR|locus:2158631	82	WIH1 "WINDHOSE 1" [Arabidopsis	0.5	0.378	0.419	0.00045
TAIR|locus:2091623	72	AT3G22240 "AT3G22240" [Arabido	0.419	0.361	0.535	0.00073
TAIR|locus:4515103232	124	WIH3 "AT3G49845" [Arabidopsis	0.435	0.217	0.518	0.00093

TAIR|locus:2150685 AT5G04080 "AT5G04080" [Arabidopsis thaliana (taxid:3702)]

 Score = 147 (56.8 bits), Expect = 2.0e-10, P = 2.0e-10
 Identities = 28/49 (57%), Positives = 33/49 (67%)

Query:     7 EEAQRKGGKRKCSMCARGFARTKKKGNDRSFIEGCLFALCCCWICDACF 55
             E+   + G+ K     R F  TK+KG DR FIEGCLFALCCCWIC+ CF
Sbjct:    17 EQVSEQPGQDKKKKKPR-FFETKQKG-DRGFIEGCLFALCCCWICEMCF 63

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0005886 "plasma membrane" evidence=IDA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

TAIR|locus:2045522 AT2G32190 "AT2G32190" [Arabidopsis thaliana (taxid:3702)]

 Score = 95 (38.5 bits), Expect = 6.3e-05, P = 6.3e-05
 Identities = 16/28 (57%), Positives = 21/28 (75%)

Query:    28 TKKKGNDRSFIEGCLFALCCCWICDACF 55
             TK KG+   F++GCL A+CCC + DACF
Sbjct:    46 TKSKGD--GFLKGCLAAMCCCCVLDACF 71

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0010200 "response to chitin" evidence=RCA

TAIR|locus:2045492 AT2G32210 "AT2G32210" [Arabidopsis thaliana (taxid:3702)]

 Score = 95 (38.5 bits), Expect = 6.3e-05, P = 6.3e-05
 Identities = 16/28 (57%), Positives = 21/28 (75%)

Query:    28 TKKKGNDRSFIEGCLFALCCCWICDACF 55
             TK KG+   F++GCL A+CCC + DACF
Sbjct:    46 TKSKGD--GFLKGCLAAMCCCCVLDACF 71

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2207195 AT1G05340 "AT1G05340" [Arabidopsis thaliana (taxid:3702)]

 Score = 92 (37.4 bits), Expect = 0.00013, P = 0.00013
 Identities = 17/34 (50%), Positives = 21/34 (61%)

Query:    22 ARGFARTKKKGNDRSFIEGCLFALCCCWICDACF 55
             A+G   TK KG+   F +GCL A+CCC   D CF
Sbjct:    41 AQGKVETKSKGD--GFFKGCLAAMCCCCALDICF 72

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

GO:0005737 "cytoplasm" evidence=IDA

GO:0010200 "response to chitin" evidence=RCA

TAIR|locus:2040332 WIH2 "WINDHOSE 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 89 (36.4 bits), Expect = 0.00027, P = 0.00027
 Identities = 14/19 (73%), Positives = 16/19 (84%)

Query:    37 FIEGCLFALCCCWICDACF 55
             F+EGCL ALCCC + DACF
Sbjct:    80 FLEGCLAALCCCCLLDACF 98

GO:0005886 "plasma membrane" evidence=IDA

GO:0009554 "megasporogenesis" evidence=IGI

TAIR|locus:2158631 WIH1 "WINDHOSE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 87 (35.7 bits), Expect = 0.00045, P = 0.00045
 Identities = 13/31 (41%), Positives = 21/31 (67%)

Query:    25 FARTKKKGNDRSFIEGCLFALCCCWICDACF 55
             +++  ++  +   +EGCL ALCCC + DACF
Sbjct:    52 YSQAPQQKQNAGMLEGCLAALCCCCLLDACF 82

GO:0005886 "plasma membrane" evidence=IDA

GO:0009554 "megasporogenesis" evidence=IGI

TAIR|locus:2091623 AT3G22240 "AT3G22240" [Arabidopsis thaliana (taxid:3702)]

 Score = 85 (35.0 bits), Expect = 0.00073, P = 0.00072
 Identities = 15/28 (53%), Positives = 19/28 (67%)

Query:    28 TKKKGNDRSFIEGCLFALCCCWICDACF 55
             TK KG+   F +GC  A+CCC + DACF
Sbjct:    47 TKSKGD--GFWKGCCAAICCCCVLDACF 72

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:4515103232 WIH3 "AT3G49845" [Arabidopsis thaliana (taxid:3702)]

 Score = 84 (34.6 bits), Expect = 0.00093, P = 0.00093
 Identities = 14/27 (51%), Positives = 18/27 (66%)

Query:    29 KKKGNDRSFIEGCLFALCCCWICDACF 55
             K K +   F+EGCL  LCCC + +ACF
Sbjct:    98 KDKKDSGGFMEGCLAMLCCCVLLEACF 124


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        0.330   0.139   0.497    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       62        62   0.00091  102 3  11 21  0.46    27
                                                     29  0.41    28


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:  8
  No. of states in DFA:  513 (55 KB)
  Total size of DFA:  103 KB (2072 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:  8.71u 0.12s 8.83t   Elapsed:  00:00:00
  Total cpu time:  8.71u 0.12s 8.83t   Elapsed:  00:00:00
  Start:  Thu May  9 16:47:32 2013   End:  Thu May  9 16:47:32 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

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

Your Input: scaffold_600350.1 annotation not avaliable (64 aa) (Arabidopsis lyrata)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	62
pfam12734	37	pfam12734, CYSTM, Cysteine-rich TM module stress t	0.003

>gnl|CDD|221742 pfam12734, CYSTM, Cysteine-rich TM module stress tolerance

 Score = 31.1 bits (71), Expect = 0.003
 Identities = 11/27 (40%), Positives = 13/27 (48%)

Query: 29 KKKGNDRSFIEGCLFALCCCWICDACF 55
            +       EGCL ALCCC + D C 
Sbjct: 11 PPQSGGGGCCEGCLAALCCCCLLDECC 37

The members of this family are short cysteine-rich membrane proteins that most probably dimerise together to form a transmembrane sulfhydryl-lined pore. The CYSTM module is always present at the extreme C-terminus of the protein in which it is present. Furthermore, like the yeast prototypes, the majority of the proteins also possess a proline/glutamine-rich segment upstream of the CYSTM module that is likely to form a polar, disordered head in the cytoplasm. The presence of an atypical well-conserved acidic residue at the C-terminal end of the TM helix suggests that this might interact with a positively charged moiety in the lipid head group. Consistently across the eukaryotes, the different versions of the CYSTM module appear to have roles in stress-response or stress-tolerance, and, more specifically, in resistance to deleterious substances, implying that thes might be general functions of the whole family. Length = 37

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	62
PF12734	37	CYSTM: Cysteine-rich TM module stress tolerance	99.2

>PF12734 CYSTM: Cysteine-rich TM module stress tolerance

Probab=99.20  E-value=1.2e-11  Score=68.36  Aligned_cols=21  Identities=48%  Similarity=1.244  Sum_probs=19.8

Q ss_pred             cchHHHHHHHHHHHhhhhccc
Q 035469           35 RSFIEGCLFALCCCWICDACF   55 (62)
Q Consensus        35 ~GcL~gCLAALCCCCllD~Cf   55 (62)
                      .|||+||||||||||++|+||
T Consensus        17 ~g~l~gClaaLcCCc~ld~cc   37 (37)
T PF12734_consen   17 DGCLAGCLAALCCCCLLDECC   37 (37)
T ss_pred             CChHHHHHHHHHHHHHHHHhC
Confidence            389999999999999999987

---

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

No hit with probability above 80.00

---

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

No hit with probability above 80.00