Citrus Sinensis ID: 034099

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100----
Protein Sequence
MAATKSETYTKSYSLLLFALVCFIFLLFQFSTTDPIKASPSKPDSSVTTTSTRFLLNSPSSTSTSTSTVNLHNPKRTPNTPSNGQQLGADEHEVPSGPNPISNR
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHccccccccccccEEEcccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccEEEEcccccccccccEEEcccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
maatksetyTKSYSLLLFALVCFIFLLFqfsttdpikaspskpdssvtttstrfllnspsststststvnlhnpkrtpntpsngqqlgadehevpsgpnpisnr
Flexible Loop (DISEMBL)
maatksetytkSYSLLLFALVCFIFLLFQFSTTdpikaspskpdssvtttstrfllnspsststststvnlhnpkrtpntpsngqqlgadehevpsgpnpisnr
Low Complexity Region (SEG)
MAATKSETYTKSYSLLLFALVCFIFLLFQFSTTDPIKASPSKPDSSVTTTSTRFLLNspsststststVNLHNPKRTPNTPSNGQQLGADEHEVPSGPNPISNR
Disordered region (IsUnstruct)
********YTKSYSLLLFALVCFIFLLFQFST************************************************************************
Disordered Region (DISOPRED)
*********TKSYSLLLFALVCFIFLLFQFST************************************************************************
Disordered Region (DISEMBL)
********YTKSYSLLLFALVCFIFLLFQFSTTDP****************TRFLL***************HNPKRTPNTPSNGQQL*****************
Disordered Region (DISPRO)
*******TYTKSYSLLLFALVCFIFLLFQFSTT***********************************************************************
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAATKSETYTKSYSLLLFALVCFIFLLFQFSTTDPIKASPSKPDSSVTTTSTRFLLNSPSSTSTSTSTVNLHNPKRTPNTPSNGQQLGADEHEVPSGPNPISNR
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	104
359479878	128	PREDICTED: CLAVATA3/ESR (CLE)-related pr	0.615	0.5	0.493	0.0003

>gi|359479878|ref|XP_003632368.1| PREDICTED: CLAVATA3/ESR (CLE)-related protein TDIF-like [Vitis vinifera] gi|297744332|emb|CBI37302.3| unnamed protein product [Vitis vinifera]

 Score = 49.3 bits (116), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 38/77 (49%), Positives = 46/77 (59%), Gaps = 13/77 (16%)

Query: 37  KASPSKPDSSVTTTSTRFLLNSPSSTSTSTSTVNLHNPKRT---------PNTPSNGQQL 87
           ++ PS  DSS  T S R LL   SS S+ TSTVNLH PK+T          +  S+ ++ 
Sbjct: 56  QSRPSAMDSSNITPSQRLLL---SSDSSPTSTVNLH-PKQTHASSSPSSSSSAASSRREF 111

Query: 88  GADEHEVPSGPNPISNR 104
            A  HEVPSGPNPISNR
Sbjct: 112 KAGAHEVPSGPNPISNR 128

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	104
TAIR|locus:2087328	99	CLE41 "AT3G24770" [Arabidopsis	0.942	0.989	0.346	7.8e-07
TAIR|locus:505006439	112	CLE44 "AT4G13195" [Arabidopsis	0.990	0.919	0.312	3.4e-06
UNIPROTKB|A1EC31	132	TDIF "CLAVATA3/ESR (CLE)-relat	0.894	0.704	0.313	5.5e-06
TAIR|locus:4010713679	88	CLE42 "CLAVATA3/ESR-RELATED 42	0.288	0.340	0.6	8.1e-05

TAIR|locus:2087328 CLE41 "AT3G24770" [Arabidopsis thaliana (taxid:3702)]

 Score = 113 (44.8 bits), Expect = 7.8e-07, P = 7.8e-07
 Identities = 36/104 (34%), Positives = 48/104 (46%)

Query:     1 MAATKSETYTKS-YSLLLFALVCFIFLLFQFSTTDPIKASPSKPDSSVTTTSTRFLLNXX 59
             MA +  +T TKS +S  L  L  F+ LL   S T P+    S   +S+     R LL   
Sbjct:     1 MATSNDQTNTKSSHSRTLLLLFIFLSLLLFSSLTIPMTRHQS---TSMVAPFKRVLLESS 57

Query:    60 XXXXXXXXXVNLHNPKRTPNTPSNGQQLGADEHEVPSGPNPISN 103
                          + +R+    S  ++ G D HEVPSGPNPISN
Sbjct:    58 VPASSTMDLRPKASTRRSRT--SRRREFGNDAHEVPSGPNPISN 99

GO:0005102 "receptor binding" evidence=ISS

GO:0005739 "mitochondrion" evidence=ISM

GO:0007165 "signal transduction" evidence=ISS

GO:0048046 "apoplast" evidence=IDA;RCA

GO:0010087 "phloem or xylem histogenesis" evidence=IDA

GO:0010067 "procambium histogenesis" evidence=IDA

GO:0010089 "xylem development" evidence=IDA

GO:0033612 "receptor serine/threonine kinase binding" evidence=IPI

GO:0010223 "secondary shoot formation" evidence=IMP

GO:0090506 "axillary shoot meristem initiation" evidence=IDA

GO:0006995 "cellular response to nitrogen starvation" evidence=RCA

TAIR|locus:505006439 CLE44 "AT4G13195" [Arabidopsis thaliana (taxid:3702)]

 Score = 107 (42.7 bits), Expect = 3.4e-06, P = 3.4e-06
 Identities = 35/112 (31%), Positives = 51/112 (45%)

Query:     1 MAATKSETYTKS--YSLLLFALVCFIFLLFQFSTTDPIKASPSKPDSSVTTT---STRFL 55
             MA T  +T  KS  +  ++  ++  IFL F F        +    +SS   T   S RFL
Sbjct:     1 MATTIDQTSIKSLHFHQVIRLIITIIFLAFLFLIGPTSSMNHHLHESSSKNTMAPSKRFL 60

Query:    56 LNXXXXXXXXXXXVNLHNPKRTPNTPSNGQ----QLGADEHEVPSGPNPISN 103
             L                +P+R+  + S+ +    +  A+ HEVPSGPNPISN
Sbjct:    61 LQPSTPSSSTMKMRPTAHPRRSGTSSSSARKRRREFRAEAHEVPSGPNPISN 112

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0010087 "phloem or xylem histogenesis" evidence=IDA

GO:0010067 "procambium histogenesis" evidence=IDA

GO:0010089 "xylem development" evidence=IDA

GO:0033612 "receptor serine/threonine kinase binding" evidence=IPI

GO:0048046 "apoplast" evidence=IDA

GO:0090506 "axillary shoot meristem initiation" evidence=IDA

UNIPROTKB|A1EC31 TDIF "CLAVATA3/ESR (CLE)-related protein TDIF" [Zinnia violacea (taxid:34245)]

 Score = 105 (42.0 bits), Expect = 5.5e-06, P = 5.5e-06
 Identities = 31/99 (31%), Positives = 43/99 (43%)

Query:     8 TYTKSYSLLLFALVCFIFLLFQFSTTDPIKASPSKPDSSVTTTSTRFLLNXXXXXXXXXX 67
             T  +S S L F  +  I +L     +       S P    T++++    +          
Sbjct:    38 TNPRSCSSLFFVALLIITILITMLQSSTSMEVTSLPTHQPTSSNSH---DESSTSSTATT 94

Query:    68 XVNLHNPKRTPNT--PSNGQQLGADEHEVPSGPNPISNR 104
               +LH PKRT +   P   +   A  HEVPSGPNPISNR
Sbjct:    95 TTDLH-PKRTHHQSHPKPTRSFEAGAHEVPSGPNPISNR 132

GO:0010067 "procambium histogenesis" evidence=ISS

GO:0010087 "phloem or xylem histogenesis" evidence=ISS

GO:0010089 "xylem development" evidence=ISS

GO:0033612 "receptor serine/threonine kinase binding" evidence=ISS

GO:0045168 "cell-cell signaling involved in cell fate commitment" evidence=ISS

GO:0048046 "apoplast" evidence=ISS

TAIR|locus:4010713679 CLE42 "CLAVATA3/ESR-RELATED 42" [Arabidopsis thaliana (taxid:3702)]

 Score = 94 (38.1 bits), Expect = 8.1e-05, P = 8.1e-05
 Identities = 18/30 (60%), Positives = 22/30 (73%)

Query:    75 KRTPNTPSNGQQLGADEHEVPSGPNPISNR 104
             +R   T   G+ +GA+EH VPSGPNPISNR
Sbjct:    59 RRPMTTWLKGKMIGANEHGVPSGPNPISNR 88


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        0.313   0.128   0.369    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      104        93   0.00091  102 3  11 23  0.39    30
                                                     29  0.41    31


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:  4
  No. of states in DFA:  522 (56 KB)
  Total size of DFA:  99 KB (2070 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:  10.60u 0.13s 10.73t   Elapsed:  00:00:01
  Total cpu time:  10.60u 0.13s 10.73t   Elapsed:  00:00:01
  Start:  Fri May 10 14:35:14 2013   End:  Fri May 10 14:35:15 2013

GO:0005739 "mitochondrion" evidence=ISM

GO:0033612 "receptor serine/threonine kinase binding" evidence=IPI

GO:0010223 "secondary shoot formation" evidence=IMP

GO:0090506 "axillary shoot meristem initiation" evidence=IDA

---

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	104
PF07172	95	GRP: Glycine rich protein family; InterPro: IPR010	83.42
KOG3164	236	consensus Uncharacterized proteins of PilT N-term.	81.65

>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins

Probab=83.42  E-value=1.1  Score=31.14  Aligned_cols=18  Identities=22%  Similarity=0.168  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHhccC
Q 034099           16 LLFALVCFIFLLFQFSTT   33 (104)
Q Consensus        16 l~F~~l~fIlllli~~s~   33 (104)
                      ++||+|||..||||++..
T Consensus         6 ~llL~l~LA~lLlisSev   23 (95)
T PF07172_consen    6 FLLLGLLLAALLLISSEV   23 (95)
T ss_pred             HHHHHHHHHHHHHHHhhh
Confidence            455556666666665443

Some of them may be involved in resistance to environmental stress [].

>KOG3164 consensus Uncharacterized proteins of PilT N-term

Probab=81.65  E-value=0.74  Score=37.54  Aligned_cols=16  Identities=38%  Similarity=0.742  Sum_probs=12.9

Q ss_pred             CCccccCCCCCCCCCC
Q 034099           88 GADEHEVPSGPNPISN  103 (104)
Q Consensus        88 ~a~kHEVPSGPNPiSN  103 (104)
                      ..-+|.+|+||||+|=
T Consensus       192 ~~kk~k~~k~pNpLs~  207 (236)
T KOG3164|consen  192 KEKKRKGPKGPNPLSC  207 (236)
T ss_pred             hhhcCCCCCCCCCccc
Confidence            4457889999999983

/Vapc superfamily [General function prediction only]

---

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