Citrus Sinensis ID: 034556

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-
Protein Sequence
MRHRRNTAPPAVNQPPKLTAVQATHHHNTLPLPTNTPQNLLKISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLICYLAGCHPAL
Secondary Structure (PSIPRED)
ccccccccccccccccccccEEEEEEcccccccccccccccccccccHHHHHEEEcccccccHHHHHHHHHHHccccEEEEEEEccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccEEEEEccccccccccccHHHHHHHHHcccHHEEEEEEccccccHHHHHHHHHHHcccccEEEEEEccccccc
Coil and Loop (DISEMBL)
mrhrrntappavnqppkltavqathhhntlplptntpqnllkISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLICYLAGCHPAL
Flexible Loop (DISEMBL)
mrhrrntappavnqppKLTAVQATHHHNTLPLPTNTPQNLLKISSHSVQTLTKLlfsrnafkredkekfeklrkdddfYLICYLAGCHPAL
Low Complexity Region (SEG)
MRHRRNTAPPAVNQPPKLTAVQAthhhntlplptntpqnllKISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLICYLAGCHPAL
Disordered region (IsUnstruct)
**********************************************SVQTLTKLLFSRNAF********EKLRKDDDFYLICYLAGCH***
Disordered Region (DISOPRED)
**********************ATHHHNTLPLPTNTPQNLLKISSHSVQTLTKLLFSRNAF*****EKFEKLRKDDDFYLICYLAGCHP**
Disordered Region (DISEMBL)
***********VNQPPKLTAVQATHHHNTLPLPTNTPQNLLKISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLICYLAGCHPAL
Disordered Region (DISPRO)
**************PPKLTAVQATHHHNTLPLPTNTPQNLLKISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLICYLAGCHPA*
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRHRRNTAPPAVNQPPKLTAVQATHHHNTLPLPTNTPQNLLKISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLICYLAGCHPAL
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	91
147792793	366	hypothetical protein VITISV_000357 [Viti	0.450	0.112	0.707	5e-07
225430906	322	PREDICTED: UPF0510 protein INM02-like [V	0.450	0.127	0.707	6e-07
297735243	318	unnamed protein product [Vitis vinifera]	0.450	0.128	0.707	7e-07
224144967	291	predicted protein [Populus trichocarpa]	0.549	0.171	0.54	7e-06
449485326	300	PREDICTED: ER membrane protein complex s	0.868	0.263	0.355	6e-05
357507827	299	hypothetical protein MTR_7g080350 [Medic	0.450	0.137	0.609	8e-05
388516347	299	unknown [Medicago truncatula]	0.450	0.137	0.609	8e-05
388514339	299	unknown [Medicago truncatula]	0.450	0.137	0.609	9e-05
388507674	299	unknown [Medicago truncatula]	0.450	0.137	0.609	9e-05
195624498	297	hypothetical protein [Zea mays]	0.857	0.262	0.378	0.0002

>gi|147792793|emb|CAN71035.1| hypothetical protein VITISV_000357 [Vitis vinifera]

 Score = 58.5 bits (140), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 29/41 (70%), Positives = 31/41 (75%)

Query: 41  LKISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLI 81
           LK SSH  QTLTKL FSRNAF   +KEKFEKL + DDFY I
Sbjct: 102 LKTSSHGAQTLTKLRFSRNAFTEAEKEKFEKLLQGDDFYRI 142

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225430906|ref|XP_002276581.1| PREDICTED: UPF0510 protein INM02-like [Vitis vinifera]

 Score = 58.2 bits (139), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 29/41 (70%), Positives = 31/41 (75%)

Query: 41  LKISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLI 81
           LK SSH  QTLTKL FSRNAF   +KEKFEKL + DDFY I
Sbjct: 120 LKTSSHGAQTLTKLRFSRNAFTEAEKEKFEKLLQGDDFYRI 160

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297735243|emb|CBI17605.3| unnamed protein product [Vitis vinifera]

 Score = 58.2 bits (139), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 29/41 (70%), Positives = 31/41 (75%)

Query: 41  LKISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLI 81
           LK SSH  QTLTKL FSRNAF   +KEKFEKL + DDFY I
Sbjct: 116 LKTSSHGAQTLTKLRFSRNAFTEAEKEKFEKLLQGDDFYRI 156

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224144967|ref|XP_002325478.1| predicted protein [Populus trichocarpa] gi|118481091|gb|ABK92499.1| unknown [Populus trichocarpa] gi|222862353|gb|EEE99859.1| predicted protein [Populus trichocarpa]

 Score = 54.7 bits (130), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 27/50 (54%), Positives = 33/50 (66%)

Query: 32  LPTNTPQNLLKISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLI 81
            P  T    LK  SH  QTLTKL FSRN+F   +K+KF+KL +DD+FY I
Sbjct: 83  FPAATFSARLKTWSHGAQTLTKLRFSRNSFTEVEKQKFQKLLEDDEFYRI 132

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449485326|ref|XP_004157134.1| PREDICTED: ER membrane protein complex subunit 10-like [Cucumis sativus]

 Score = 51.6 bits (122), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 32/90 (35%), Positives = 46/90 (51%), Gaps = 11/90 (12%)

Query: 3   HRRNTAPPA--------VNQPPKLTAVQATHHH---NTLPLPTNTPQNLLKISSHSVQTL 51
           H R+T PP+         + P   + VQ    H   ++   P       LK SSH  Q+L
Sbjct: 45  HTRSTPPPSRPTSTRRRFSDPDSDSKVQFQLEHSFGDSDFAPAGLFTARLKTSSHGGQSL 104

Query: 52  TKLLFSRNAFKREDKEKFEKLRKDDDFYLI 81
           TK+ FSR+AF  ED++KF  L ++D FY +
Sbjct: 105 TKMRFSRDAFTEEDRKKFTTLLQEDGFYTV 134

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357507827|ref|XP_003624202.1| hypothetical protein MTR_7g080350 [Medicago truncatula] gi|355499217|gb|AES80420.1| hypothetical protein MTR_7g080350 [Medicago truncatula]

 Score = 51.2 bits (121), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 25/41 (60%), Positives = 30/41 (73%)

Query: 41  LKISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLI 81
           LK  SH  QTLTKL FSR+AF  ++K KF++L K DDFY I
Sbjct: 97  LKTWSHGAQTLTKLRFSRDAFTEDEKNKFQELLKRDDFYRI 137

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388516347|gb|AFK46235.1| unknown [Medicago truncatula]

 Score = 51.2 bits (121), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 25/41 (60%), Positives = 30/41 (73%)

Query: 41  LKISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLI 81
           LK  SH  QTLTKL FSR+AF  ++K KF++L K DDFY I
Sbjct: 97  LKTWSHGAQTLTKLRFSRDAFTEDEKNKFQELLKRDDFYRI 137

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388514339|gb|AFK45231.1| unknown [Medicago truncatula]

 Score = 51.2 bits (121), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 25/41 (60%), Positives = 30/41 (73%)

Query: 41  LKISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLI 81
           LK  SH  QTLTKL FSR+AF  ++K KF++L K DDFY I
Sbjct: 97  LKTWSHGAQTLTKLRFSRDAFTEDEKNKFQELLKRDDFYRI 137

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388507674|gb|AFK41903.1| unknown [Medicago truncatula]

 Score = 51.2 bits (121), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 25/41 (60%), Positives = 30/41 (73%)

Query: 41  LKISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLI 81
           LK  SH  QTLTKL FSR+AF  ++K KF++L K DDFY I
Sbjct: 97  LKTWSHGAQTLTKLRFSRDAFTEDEKNKFQELLKRDDFYRI 137

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|195624498|gb|ACG34079.1| hypothetical protein [Zea mays]

 Score = 50.1 bits (118), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 31/82 (37%), Positives = 42/82 (51%), Gaps = 4/82 (4%)

Query: 4   RRNTAPPAVNQPPKLTAVQATHHHNTLP----LPTNTPQNLLKISSHSVQTLTKLLFSRN 59
           RR +A   +    +  AVQ T  H+        P  T    LK  +H  QTLTKL F+RN
Sbjct: 60  RRRSADAPLPGAGESNAVQFTLEHDLGDGKGFAPAGTFSARLKTFAHGTQTLTKLRFTRN 119

Query: 60  AFKREDKEKFEKLRKDDDFYLI 81
            F  +DK  F+K+ ++D FY I
Sbjct: 120 DFTEDDKAAFKKVLQEDGFYTI 141

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	91
TAIR|locus:2206270	292	AT1G65270 "AT1G65270" [Arabido	0.439	0.136	0.575	9e-06

TAIR|locus:2206270 AT1G65270 "AT1G65270" [Arabidopsis thaliana (taxid:3702)]

 Score = 109 (43.4 bits), Expect = 9.0e-06, P = 9.0e-06
 Identities = 23/40 (57%), Positives = 27/40 (67%)

Query:    42 KISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLI 81
             K  SH  +TLTKL FSRN F  E+K+ F+ L K DDFY I
Sbjct:   100 KTWSHGGKTLTKLRFSRNDFSAEEKDAFKNLLKGDDFYRI 139


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   0.399    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       91        73   0.00091  102 3  11 22  0.46    28
                                                     29  0.45    29


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:  491 (52 KB)
  Total size of DFA:  88 KB (2066 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:  9.89u 0.12s 10.01t   Elapsed:  00:00:01
  Total cpu time:  9.89u 0.12s 10.01t   Elapsed:  00:00:01
  Start:  Thu May  9 19:27:33 2013   End:  Thu May  9 19:27:34 2013

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0005783 "endoplasmic reticulum" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

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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	91
KOG4827	279	consensus Uncharacterized conserved protein [Funct	99.76
PF08381	59	BRX: Transcription factor regulating root and shoo	85.03

>KOG4827 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.76  E-value=1e-19  Score=142.97  Aligned_cols=77  Identities=27%  Similarity=0.201  Sum_probs=71.4

Q ss_pred             CCCCC-CCceeEEeecCC---CCCCC-CccccccccccccccccceeEeecccCCHHHHHHHHHHhhcCCeEEEEeeccc
Q 034556           13 NQPPK-LTAVQATHHHNT---LPLPT-NTPQNLLKISSHSVQTLTKLLFSRNAFKREDKEKFEKLRKDDDFYLICYLAGC   87 (91)
Q Consensus        13 ~~~~e-~~~v~f~LEHs~---ef~~a-g~FsaRlk~~~~g~q~LtkLrlsRn~lse~ek~kfkeL~~~DgfYrIRvPsnv   87 (91)
                      ++|+. +.++||+|||+|   +|.++ |+||+|+|+|+|||++++|||+++|.|+.+||++|+.+++.|+||+||+|+++
T Consensus        58 ~dpTdldkk~QftlEhaFGdkdF~~anGtfSaR~ks~shgGkn~~klrf~~~dF~aeekdaF~n~lkgddf~kiqL~s~~  137 (279)
T KOG4827|consen   58 GDPTDLDKKAQFTLEHAFGDKDFEAANGTFSARAKSSSHGGKNFLKLRFDPCDFLAEEKDAFHNFLKGDDFEKIQLHSLT  137 (279)
T ss_pred             CCcccccchhhhhHHhhccccccccccceeEEEeecccCCCcceeeeccChhhhhhhHHHHHHHHHhcccHhhhccccce
Confidence            34444 789999999995   89999 99999999999999999999999999999999999999999999999999997


Q ss_pred             cC
Q 034556           88 HP   89 (91)
Q Consensus        88 l~   89 (91)
                      ..
T Consensus       138 i~  139 (279)
T KOG4827|consen  138 IF  139 (279)
T ss_pred             ec
Confidence            63

>PF08381 BRX: Transcription factor regulating root and shoot growth via Pin3; InterPro: IPR013591 This is a short domain, approximately 35 residues in length that is found near the C terminus in a number of plant proteins, being repeated in some members

Probab=85.03  E-value=0.7  Score=29.84  Aligned_cols=27  Identities=22%  Similarity=0.293  Sum_probs=23.1

Q ss_pred             ccccccccccceeEeecccCCHHHHHH
Q 034556           42 KISSHSVQTLTKLLFSRNAFKREDKEK   68 (91)
Q Consensus        42 k~~~~g~q~LtkLrlsRn~lse~ek~k   68 (91)
                      ...+.|+..|..+||||--|+|.+.++
T Consensus        19 ~~~p~G~~~LkRVRFSR~~F~e~qA~~   45 (59)
T PF08381_consen   19 VSLPDGGNDLKRVRFSRERFSEWQAER   45 (59)
T ss_pred             EECCCCCeeEEEEEEhhhhcCHHHHHH
Confidence            367788999999999999999877654

It is found in Brevis radix-like proteins. These may act as a regulator of cell proliferation and elongation in the root []. It is also found in proteins annotated as involved in disease resistance and in the regulation of chromosome condensation, which also contain other domains with varied functions, such as TIR (IPR000157 from INTERPRO) and FYVE (IPR000306 from INTERPRO) respectively.

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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

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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