Citrus Sinensis ID: 044145

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------7
Protein Sequence
MSFHSSSHILFLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCHLILPFLINGLGTKWFK
Secondary Structure (PSIPRED)
ccccccccEEEEEEEEccEEEEcccccccEEEEEEEEEEEEccccccccccccccccEEEEEccccccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHEEEEcccEEEEcccccccEEEEEEEEEccccHcccccccHHHHHHHHHHccccccccc
Coil and Loop (DISEMBL)
msfhssshILFLFWCKvdeielnfpssdmiNFQVGLINKrldagrfktvhsCHLILPFlinglgtkwfk
Flexible Loop (DISEMBL)
msfhssshILFLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCHLIlpflinglgtkwfk
Low Complexity Region (SEG)
MsfhssshilflfWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCHLILPFLINGLGTKWFK
Disordered region (IsUnstruct)
*******HILFLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCHLILPFLINGLGTKWF*
Disordered Region (DISOPRED)
*****SS*ILFLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCHLILPFLINGLGTKWFK
Disordered Region (DISEMBL)
MSFHSSSHILFLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCHLILPFLINGLGTKWFK
Disordered Region (DISPRO)
*****SSHILFLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCHLILPFLINGLGTKWFK
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSFHSSSHILFLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCHLILPFLINGLGTKWFK
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	69
224057098	176	predicted protein [Populus trichocarpa]	0.623	0.244	0.627	6e-08
297812169	181	hypothetical protein ARALYDRAFT_326382 [	0.623	0.237	0.604	1e-07
18420052	181	uncharacterized protein [Arabidopsis tha	0.623	0.237	0.581	2e-07
194466185	181	unknown [Arachis hypogaea]	0.623	0.237	0.604	4e-07
330318680	173	hypothetical protein [Camellia sinensis]	0.623	0.248	0.581	1e-06
356512477	175	PREDICTED: uncharacterized protein LOC10	0.666	0.262	0.571	1e-06
224076008	177	predicted protein [Populus trichocarpa]	0.623	0.242	0.581	1e-06
255580086	165	conserved hypothetical protein [Ricinus	0.623	0.260	0.558	2e-06
357518823	172	hypothetical protein MTR_8g085580 [Medic	0.579	0.232	0.575	6e-06
400131571	220	T4.10 [Malus x robusta]	0.608	0.190	0.547	7e-06

>gi|224057098|ref|XP_002299126.1| predicted protein [Populus trichocarpa] gi|222846384|gb|EEE83931.1| predicted protein [Populus trichocarpa]

 Score = 61.6 bits (148), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 27/43 (62%), Positives = 32/43 (74%)

Query: 11  FLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCH 53
           F  W  VDEI+++ P SD I FQVG INK+LDA +FKTVHSC 
Sbjct: 103 FFLWLDVDEIKVDLPPSDSIYFQVGWINKKLDADQFKTVHSCR 145

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297812169|ref|XP_002873968.1| hypothetical protein ARALYDRAFT_326382 [Arabidopsis lyrata subsp. lyrata] gi|297319805|gb|EFH50227.1| hypothetical protein ARALYDRAFT_326382 [Arabidopsis lyrata subsp. lyrata]

 Score = 60.8 bits (146), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 26/43 (60%), Positives = 32/43 (74%)

Query: 11  FLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCH 53
           F  W  VDEI+++ P SD I F+VG INK+LD  +FKTVHSCH
Sbjct: 107 FFIWLDVDEIKVDLPPSDSIYFKVGFINKKLDIDQFKTVHSCH 149

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18420052|ref|NP_568383.1| uncharacterized protein [Arabidopsis thaliana] gi|33589810|gb|AAQ22671.1| At5g19860 [Arabidopsis thaliana] gi|110740914|dbj|BAE98553.1| hypothetical protein [Arabidopsis thaliana] gi|332005375|gb|AED92758.1| uncharacterized protein [Arabidopsis thaliana]

 Score = 60.1 bits (144), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 25/43 (58%), Positives = 32/43 (74%)

Query: 11  FLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCH 53
           F  W  VDEI+++ P SD I F+VG INK+LD  +FKT+HSCH
Sbjct: 107 FFIWLDVDEIKVDLPPSDSIYFKVGFINKKLDIDQFKTIHSCH 149

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|194466185|gb|ACF74323.1| unknown [Arachis hypogaea]

 Score = 58.5 bits (140), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 26/43 (60%), Positives = 30/43 (69%)

Query: 11  FLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCH 53
           F  W  VDEI ++ P SD I FQVGLINK+LD  +FKTV SC 
Sbjct: 106 FFIWFNVDEIRVDLPPSDNIYFQVGLINKKLDVDQFKTVRSCR 148

Source: Arachis hypogaea

Species: Arachis hypogaea

Genus: Arachis

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|330318680|gb|AEC11000.1| hypothetical protein [Camellia sinensis]

 Score = 57.4 bits (137), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 25/43 (58%), Positives = 30/43 (69%)

Query: 11  FLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCH 53
            L W  VDEI+++ P SD I F VG INK+LD  +FKTVHSC 
Sbjct: 106 LLLWFDVDEIKVDLPPSDSIYFLVGFINKKLDVDQFKTVHSCR 148

Source: Camellia sinensis

Species: Camellia sinensis

Genus: Camellia

Family: Theaceae

Order: Ericales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356512477|ref|XP_003524945.1| PREDICTED: uncharacterized protein LOC100780285 [Glycine max]

 Score = 57.0 bits (136), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 28/49 (57%), Positives = 33/49 (67%), Gaps = 3/49 (6%)

Query: 14  WCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCHLIL---PFL 59
           W  VDEI ++ P SD I FQVG+INK+LD  +FKTV SC   L   PFL
Sbjct: 108 WFNVDEIRVDLPPSDSIYFQVGIINKKLDVDQFKTVRSCRKSLSCPPFL 156

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224076008|ref|XP_002304870.1| predicted protein [Populus trichocarpa] gi|222842302|gb|EEE79849.1| predicted protein [Populus trichocarpa]

 Score = 57.0 bits (136), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 25/43 (58%), Positives = 29/43 (67%)

Query: 11  FLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCH 53
           F  W  VD I ++ P SD I FQVG INK+LD  +FKTVHSC 
Sbjct: 103 FFLWLGVDNIRVDLPPSDSIYFQVGWINKKLDVDQFKTVHSCR 145

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255580086|ref|XP_002530876.1| conserved hypothetical protein [Ricinus communis] gi|223529565|gb|EEF31516.1| conserved hypothetical protein [Ricinus communis]

 Score = 56.6 bits (135), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/43 (55%), Positives = 31/43 (72%)

Query: 11  FLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCH 53
           F  W  VDEI+++ P SD I F+VG+INK+LD  +F TVHSC 
Sbjct: 106 FFLWFDVDEIKVDLPPSDSIYFKVGIINKKLDVDQFMTVHSCR 148

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357518823|ref|XP_003629700.1| hypothetical protein MTR_8g085580 [Medicago truncatula] gi|355523722|gb|AET04176.1| hypothetical protein MTR_8g085580 [Medicago truncatula] gi|388521935|gb|AFK49029.1| unknown [Medicago truncatula]

 Score = 54.7 bits (130), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 23/40 (57%), Positives = 30/40 (75%)

Query: 14  WCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCH 53
           W  VDEI ++ P S+ I FQVG+INK+L+  +FKTVHSC 
Sbjct: 104 WFNVDEIRVDLPPSNSIYFQVGIINKKLNVDQFKTVHSCR 143

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|400131571|emb|CCH50971.1| T4.10 [Malus x robusta]

 Score = 54.7 bits (130), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 23/42 (54%), Positives = 29/42 (69%)

Query: 11  FLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSC 52
           FLFW  V EI ++ P SD I F VG+INK+LD G+F+ V  C
Sbjct: 107 FLFWLGVGEIRVDLPPSDNIYFTVGIINKKLDIGQFQNVRPC 148

Source: Malus x robusta

Species: Malus x robusta

Genus: Malus

Family: Rosaceae

Order: Rosales

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	69
TAIR|locus:2147610	181	AT5G19860 "AT5G19860" [Arabido	0.579	0.220	0.6	1.4e-09

TAIR|locus:2147610 AT5G19860 "AT5G19860" [Arabidopsis thaliana (taxid:3702)]

 Score = 139 (54.0 bits), Expect = 1.4e-09, P = 1.4e-09
 Identities = 24/40 (60%), Positives = 31/40 (77%)

Query:    14 WCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCH 53
             W  VDEI+++ P SD I F+VG INK+LD  +FKT+HSCH
Sbjct:   110 WLDVDEIKVDLPPSDSIYFKVGFINKKLDIDQFKTIHSCH 149


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        0.329   0.144   0.484    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       69        57   0.00091  102 3  11 22  0.44    27
                                                     29  0.44    27


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:  506 (54 KB)
  Total size of DFA:  90 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:  6.82u 0.16s 6.98t   Elapsed:  00:00:00
  Total cpu time:  6.82u 0.16s 6.98t   Elapsed:  00:00:00
  Start:  Sat May 11 10:08:00 2013   End:  Sat May 11 10:08:00 2013

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0005773 "vacuole" 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

Your Input: grail3.0116008101 hypothetical protein (176 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

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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	69
PF04398	110	DUF538: Protein of unknown function, DUF538; Inter	99.65

>PF04398 DUF538: Protein of unknown function, DUF538; InterPro: IPR007493 This family consists of several plant proteins of unknown function

Probab=99.65  E-value=1e-17  Score=109.15  Aligned_cols=45  Identities=27%  Similarity=0.494  Sum_probs=32.2

Q ss_pred             ceeeeEEEEEEEEeEeeEEEEcCCCCCcEEEEEeeeeeeeeccccccC
Q 044145            2 SFHSSSHILFLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTV   49 (69)
Q Consensus         2 ~l~GVsvK~lflWl~I~eI~vd~p~~~~I~F~vG~isk~FP~s~Fe~~   49 (69)
                      +|+||++|+||+|++|+||.|+   +++|+|++|.++++||+++|++|
T Consensus        66 ~L~GVk~k~l~~W~~v~~i~~~---~~~i~F~~g~~s~sfp~~~F~~s  110 (110)
T PF04398_consen   66 NLTGVKVKELFLWVPVTEISVD---GDKIYFKVGGISKSFPVSAFEES  110 (110)
T ss_dssp             EEES-EEE-SSSEES---BEE----SSSEE-TTSSSS----TTTTSS-
T ss_pred             cccCEEEEEEEEEeeEEEEEEc---CCEEEEEEeeEeccCCHHHhccC
Confidence            6899999999999999999997   99999999999999999999986

; PDB: 1YDU_A.

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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

ID	Length	Definition	Probability
Query	69
1ydu_A	170	AT5G01610; DUF538, structural genomics, protein st	99.53

>1ydu_A AT5G01610; DUF538, structural genomics, protein structure initiative, center for eukaryotic structural genomics, CESG unknown function; NMR {Arabidopsis thaliana} SCOP: b.162.1.1

Probab=99.53  E-value=4.2e-16  Score=107.64  Aligned_cols=49  Identities=14%  Similarity=0.327  Sum_probs=46.2

Q ss_pred             ceeeeEEEEEEEEeEeeEEEEcCCCCCcEEEEEeeeeeeeeccccccCCCcccC
Q 044145            2 SFHSSSHILFLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCHLI   55 (69)
Q Consensus         2 ~l~GVsvK~lflWl~I~eI~vd~p~~~~I~F~vG~isk~FP~s~Fe~~P~C~~~   55 (69)
                      +|+||++|+| +|++|+||+|+   +|+|+|++| ++++||+++|+.+|.|...
T Consensus       119 ~L~GVk~K~L-lWv~V~eI~v~---~~kI~F~vG-i~ksfp~saFe~~~~c~~~  167 (170)
T 1ydu_A          119 DVEGIKTKVM-IWVKVTSISTD---ASKVYFTAG-MKKSRSRDAYGVQRNGLRV  167 (170)
T ss_dssp             EEESCEEESS-SEESCCCBEEC---SSSEECTTS-SSSCCCHHHHSSCCCCCCT
T ss_pred             cccCEEEEEE-EEeeEEEEEEe---CCEEEEEEc-CcccccHHHhcCCcCCccc
Confidence            6899999999 99999999997   999999999 5899999999999999864

---

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	69
d1ydua1	169	Hypothetical protein At5g01610 {Thale cress (Arabi	99.56

>d1ydua1 b.162.1.1 (A:2-170) Hypothetical protein At5g01610 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All beta proteins
fold: At5g01610-like
superfamily: At5g01610-like
family: At5g01610-like
domain: Hypothetical protein At5g01610
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.56  E-value=7.3e-17  Score=109.83  Aligned_cols=49  Identities=16%  Similarity=0.352  Sum_probs=43.5

Q ss_pred             ceeeeEEEEEEEEeEeeEEEEcCCCCCcEEEEEeeeeeeeeccccccCCCcccCc
Q 044145            2 SFHSSSHILFLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTVHSCHLIL   56 (69)
Q Consensus         2 ~l~GVsvK~lflWl~I~eI~vd~p~~~~I~F~vG~isk~FP~s~Fe~~P~C~~~~   56 (69)
                      +|+||++| +|+|++|+||.+|   +++|+|++| ++|+||+++||. |+|++..
T Consensus       118 ~L~GVkvK-lflWv~V~eI~vd---~~kI~F~vG-I~KsfP~daFE~-prdg~~v  166 (169)
T d1ydua1         118 DVEGIKTK-VMIWVKVTSISTD---ASKVYFTAG-MKKSRSRDAYGV-QRNGLRV  166 (169)
T ss_dssp             EEESCEEE-SSSEESCCCBEEC---SSSEECTTS-SSSCCCHHHHSS-CCCCCCT
T ss_pred             cccceEEE-EEEEEEEEEEEEc---CCeEEEEec-ccccCCHHHccC-Cccceee
Confidence            68999999 7899999999999   999999999 799999999955 6666653