Citrus Sinensis ID: 040093

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------
Protein Sequence
MWMQTKKLFPTGFYAAISAAMLCFYSYVVASGGNPPPKKLKSSAAAVS
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHcHHHHHHHHHHHHHHHHHHHHHHccccccHHcHHHccccc
Coil and Loop (DISEMBL)
mwmqtkklfptGFYAAISAAMLCFYSYVvasggnpppkklkssaaavs
Flexible Loop (DISEMBL)
mwmqtkklFPTGFYAAISAAMLCFYSYVVASggnpppkklkssaaavs
Low Complexity Region (SEG)
MWMQTKKLFPTGFYAAISAAMLCFYSYVVASGGNPPPKKLKSSAAAVS
Disordered region (IsUnstruct)
*****KKLFPTGFYAAISAAMLCFYSYVVA******************
Disordered Region (DISOPRED)
**M*TKKLFPTGFYAAISAAMLCFYSYVVASG****************
Disordered Region (DISEMBL)
MWMQTKKLFPTGFYAAISAAMLCFYSYVVASGGN**************
Disordered Region (DISPRO)
MWMQTKKLFPTGFYAAISAAMLCFYSYVVASGGNPPP***********
Transmembrane Helix (TMHMM)
iiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSiiHHHHHHHHHHHHHHHHoooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MWMQTKKLFPTGFYAAISAAMLCFYSYVVASGGNPPPKKLKSSAAAVS
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	48
224074301	217	predicted protein [Populus trichocarpa]	0.916	0.202	0.795	9e-12
133711807	230	hypothetical protein LYC_68t000010 [Sola	0.875	0.182	0.785	1e-11
359496051	229	PREDICTED: uncharacterized protein LOC10	0.812	0.170	0.846	2e-11
255583841	222	transmembrane protein 14, putative [Rici	0.875	0.189	0.785	4e-11
224138968	219	predicted protein [Populus trichocarpa]	0.916	0.200	0.75	6e-11
6735307	239	hypothetical protein [Arabidopsis thalia	0.979	0.196	0.723	2e-10
18410685	226	Transmembrane proteins 14C [Arabidopsis	0.979	0.207	0.723	2e-10
108936786	231	hypothetical protein 11 [Plantago major]	0.833	0.173	0.8	3e-10
297817046	239	hypothetical protein ARALYDRAFT_324236 [	0.979	0.196	0.680	5e-10
388520441	229	unknown [Lotus japonicus]	0.833	0.174	0.8	7e-10

>gi|224074301|ref|XP_002304345.1| predicted protein [Populus trichocarpa] gi|222841777|gb|EEE79324.1| predicted protein [Populus trichocarpa]

 Score = 74.3 bits (181), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 35/44 (79%), Positives = 39/44 (88%)

Query: 5   TKKLFPTGFYAAISAAMLCFYSYVVASGGNPPPKKLKSSAAAVS 48
           TKKL PTGF+A ISAAMLCFYSYV+ SGGNPPPKKL+SSA+  S
Sbjct: 174 TKKLIPTGFFAVISAAMLCFYSYVMISGGNPPPKKLQSSASVSS 217

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|133711807|gb|ABO36625.1| hypothetical protein LYC_68t000010 [Solanum lycopersicum]

 Score = 73.6 bits (179), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 33/42 (78%), Positives = 37/42 (88%)

Query: 5   TKKLFPTGFYAAISAAMLCFYSYVVASGGNPPPKKLKSSAAA 46
           T KLFPTGF+AAISAAM CFYSYV+ SGGNPPPKKLK+S + 
Sbjct: 187 TGKLFPTGFFAAISAAMFCFYSYVILSGGNPPPKKLKASTSG 228

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496051|ref|XP_002284565.2| PREDICTED: uncharacterized protein LOC100255501 [Vitis vinifera] gi|296087051|emb|CBI33378.3| unnamed protein product [Vitis vinifera]

 Score = 73.6 bits (179), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 33/39 (84%), Positives = 37/39 (94%)

Query: 5   TKKLFPTGFYAAISAAMLCFYSYVVASGGNPPPKKLKSS 43
           TKKLFPTGF+A ISAAMLCFYSYV+ SGGNPPPKKLK++
Sbjct: 186 TKKLFPTGFFAIISAAMLCFYSYVMISGGNPPPKKLKAT 224

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255583841|ref|XP_002532672.1| transmembrane protein 14, putative [Ricinus communis] gi|223527605|gb|EEF29719.1| transmembrane protein 14, putative [Ricinus communis]

 Score = 72.0 bits (175), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 33/42 (78%), Positives = 36/42 (85%)

Query: 5   TKKLFPTGFYAAISAAMLCFYSYVVASGGNPPPKKLKSSAAA 46
           TKKL PTGFYA ISAAMLCF+SYV+ SGGNPPPKKL+SS   
Sbjct: 180 TKKLIPTGFYAVISAAMLCFFSYVMISGGNPPPKKLQSSTVG 221

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224138968|ref|XP_002326735.1| predicted protein [Populus trichocarpa] gi|222834057|gb|EEE72534.1| predicted protein [Populus trichocarpa]

 Score = 71.6 bits (174), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 33/44 (75%), Positives = 37/44 (84%)

Query: 5   TKKLFPTGFYAAISAAMLCFYSYVVASGGNPPPKKLKSSAAAVS 48
           TKK+ PTGF+A ISAAMLCFYSYV+ SGGNPPPKKL+ SA   S
Sbjct: 176 TKKVIPTGFFAVISAAMLCFYSYVMISGGNPPPKKLQESAGVNS 219

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|6735307|emb|CAB68134.1| hypothetical protein [Arabidopsis thaliana]

 Score = 70.1 bits (170), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 34/47 (72%), Positives = 37/47 (78%)

Query: 2   WMQTKKLFPTGFYAAISAAMLCFYSYVVASGGNPPPKKLKSSAAAVS 48
           +  TKKLFP G +A ISA MLCFYSYVV SGGNPPPKKLK SA + S
Sbjct: 192 YSMTKKLFPAGVFAVISACMLCFYSYVVLSGGNPPPKKLKPSATSPS 238

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18410685|ref|NP_567046.1| Transmembrane proteins 14C [Arabidopsis thaliana] gi|14517381|gb|AAK62581.1| AT3g57280/F28O9_130 [Arabidopsis thaliana] gi|15450539|gb|AAK96447.1| AT3g57280/F28O9_130 [Arabidopsis thaliana] gi|21553454|gb|AAM62547.1| unknown [Arabidopsis thaliana] gi|332646114|gb|AEE79635.1| Transmembrane proteins 14C [Arabidopsis thaliana]

 Score = 70.1 bits (170), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 34/47 (72%), Positives = 37/47 (78%)

Query: 2   WMQTKKLFPTGFYAAISAAMLCFYSYVVASGGNPPPKKLKSSAAAVS 48
           +  TKKLFP G +A ISA MLCFYSYVV SGGNPPPKKLK SA + S
Sbjct: 179 YSMTKKLFPAGVFAVISACMLCFYSYVVLSGGNPPPKKLKPSATSPS 225

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|108936786|emb|CAJ34819.1| hypothetical protein 11 [Plantago major]

 Score = 69.3 bits (168), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 32/40 (80%), Positives = 33/40 (82%)

Query: 7   KLFPTGFYAAISAAMLCFYSYVVASGGNPPPKKLKSSAAA 46
           KLFPTGF   +SAAMLCFY YVV SGGNPPPKKLKSSA  
Sbjct: 189 KLFPTGFNIVVSAAMLCFYCYVVLSGGNPPPKKLKSSAVG 228

Source: Plantago major

Species: Plantago major

Genus: Plantago

Family: Plantaginaceae

Order: Lamiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297817046|ref|XP_002876406.1| hypothetical protein ARALYDRAFT_324236 [Arabidopsis lyrata subsp. lyrata] gi|297322244|gb|EFH52665.1| hypothetical protein ARALYDRAFT_324236 [Arabidopsis lyrata subsp. lyrata]

 Score = 68.2 bits (165), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 32/47 (68%), Positives = 36/47 (76%)

Query: 2   WMQTKKLFPTGFYAAISAAMLCFYSYVVASGGNPPPKKLKSSAAAVS 48
           +  TKKLFP G +  ISA MLCFY+YVV SGGNPPPKKLK SA + S
Sbjct: 192 YSMTKKLFPAGLFTVISACMLCFYTYVVLSGGNPPPKKLKPSATSPS 238

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388520441|gb|AFK48282.1| unknown [Lotus japonicus]

 Score = 67.8 bits (164), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 32/40 (80%), Positives = 35/40 (87%)

Query: 6   KKLFPTGFYAAISAAMLCFYSYVVASGGNPPPKKLKSSAA 45
           KKLFPTGF A IS+AMLCFY YV+ SGGNPPPKKLK SA+
Sbjct: 188 KKLFPTGFTAIISSAMLCFYLYVLISGGNPPPKKLKPSAS 227

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

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	48
TAIR|locus:2082578	226	AT3G57280 "AT3G57280" [Arabido	0.979	0.207	0.723	1e-13
TAIR|locus:2033177	119	AT1G50740 "AT1G50740" [Arabido	0.770	0.310	0.526	5.5e-06
TAIR|locus:2085780	119	AT3G20510 [Arabidopsis thalian	0.791	0.319	0.5	1.9e-05

TAIR|locus:2082578 AT3G57280 "AT3G57280" [Arabidopsis thaliana (taxid:3702)]

 Score = 178 (67.7 bits), Expect = 1.0e-13, P = 1.0e-13
 Identities = 34/47 (72%), Positives = 37/47 (78%)

Query:     2 WMQTKKLFPTGFYAAISAAMLCFYSYVVASGGNPPPKKLKSSAAAVS 48
             +  TKKLFP G +A ISA MLCFYSYVV SGGNPPPKKLK SA + S
Sbjct:   179 YSMTKKLFPAGVFAVISACMLCFYSYVVLSGGNPPPKKLKPSATSPS 225

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0016020 "membrane" evidence=IEA

GO:0009706 "chloroplast inner membrane" evidence=IDA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009627 "systemic acquired resistance" evidence=RCA

GO:0034976 "response to endoplasmic reticulum stress" evidence=RCA

GO:0009536 "plastid" evidence=IDA

TAIR|locus:2033177 AT1G50740 "AT1G50740" [Arabidopsis thaliana (taxid:3702)]

 Score = 105 (42.0 bits), Expect = 5.5e-06, P = 5.5e-06
 Identities = 20/38 (52%), Positives = 26/38 (68%)

Query:     2 WMQTKKLFPTGFYAAISAAMLCFYSYVVASGGNP-PPK 38
             ++QT+K+ P    A ISA M CFY Y +A+GGN  PPK
Sbjct:    80 FLQTQKIMPAALVAGISALMTCFYVYKIATGGNHIPPK 117

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

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

GO:0010200 "response to chitin" evidence=RCA

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

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=RCA

GO:0050832 "defense response to fungus" evidence=RCA

TAIR|locus:2085780 AT3G20510 [Arabidopsis thaliana (taxid:3702)]

 Score = 100 (40.3 bits), Expect = 1.9e-05, P = 1.9e-05
 Identities = 19/38 (50%), Positives = 24/38 (63%)

Query:     2 WMQTKKLFPTGFYAAISAAMLCFYSYVVASGGNPPPKK 39
             ++ T K+ P G  A ISA M CFY Y +A+GGN  P K
Sbjct:    80 YLLTGKIMPAGLVAGISALMTCFYVYKIATGGNKFPAK 117


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   0.128   0.396    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       48        48   0.00091  102 3  11 22  0.47    26
                                                     29  0.36    26


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:  3
  No. of states in DFA:  380 (41 KB)
  Total size of DFA:  68 KB (2062 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:  6.58u 0.17s 6.75t   Elapsed:  00:00:00
  Total cpu time:  6.58u 0.17s 6.75t   Elapsed:  00:00:00
  Start:  Fri May 10 02:22:31 2013   End:  Fri May 10 02:22:31 2013

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" 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	48
KOG4267	110	consensus Predicted membrane protein [Function unk	99.4
PF03647	96	Tmemb_14: Transmembrane proteins 14C; InterPro: IP	98.46

>KOG4267 consensus Predicted membrane protein [Function unknown]

Probab=99.40  E-value=2.9e-13  Score=85.27  Aligned_cols=36  Identities=53%  Similarity=1.103  Sum_probs=34.9

Q ss_pred             cccccccchhHHHHHHHHHHHHHHHHHHhcCCCCCC
Q 040093            2 WMQTKKLFPTGFYAAISAAMLCFYSYVVASGGNPPP   37 (48)
Q Consensus         2 y~~T~kifPaG~va~iS~~M~~FY~y~l~~ggNp~p   37 (48)
                      |+.|+|+||+|+++.+|++|+|||.|++++++||+|
T Consensus        75 ~~~s~K~mPaglva~~s~~m~~~Y~y~~~~~~~~~~  110 (110)
T KOG4267|consen   75 FYRSRKIMPAGLVAGISLLMTCFYLYVVLRGGNPPP  110 (110)
T ss_pred             hhccCCccchHHHHHHHHHHHHHHHHHHHhccCCCC
Confidence            789999999999999999999999999999999986

>PF03647 Tmemb_14: Transmembrane proteins 14C; InterPro: IPR005349 This family of short membrane proteins is as yet uncharacterised

Probab=98.46  E-value=9.3e-08  Score=57.25  Aligned_cols=26  Identities=46%  Similarity=0.964  Sum_probs=23.4

Q ss_pred             cccccccchhHHHHHHHHHHHHHHHH
Q 040093            2 WMQTKKLFPTGFYAAISAAMLCFYSY   27 (48)
Q Consensus         2 y~~T~kifPaG~va~iS~~M~~FY~y   27 (48)
                      |.+|+|+||+|+++++|++|++||.|
T Consensus        71 ~~~t~k~~Pagl~~~~s~~~~~~y~Y   96 (96)
T PF03647_consen   71 YIKTRKFMPAGLMALLSGAMLAFYYY   96 (96)
T ss_dssp             S-SSSSSCCCHHHHHHHHHHHHHHC-
T ss_pred             HHHcCCCccHHHHHHHHHHHHHHhcC
Confidence            78999999999999999999999987

; GO: 0016020 membrane; PDB: 2LOS_A 2LOO_A 2LOP_A.

---

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	48
2loo_A	108	Transmembrane protein 14A; helical bundle; NMR {Ho	98.36
2los_A	121	Transmembrane protein 14C; paramagnetic relaxation	98.31

>2loo_A Transmembrane protein 14A; helical bundle; NMR {Homo sapiens} PDB: 2lop_A

Probab=98.36  E-value=3e-10  Score=69.44  Aligned_cols=29  Identities=24%  Similarity=0.478  Sum_probs=27.5

Q ss_pred             cccccccchhHHHHHHHHHHHHHHHHHHh
Q 040093            2 WMQTKKLFPTGFYAAISAAMLCFYSYVVA   30 (48)
Q Consensus         2 y~~T~kifPaG~va~iS~~M~~FY~y~l~   30 (48)
                      |.+|+|+||+|+++++|++|+|||+|+++
T Consensus        80 ~~~t~K~mPaGl~a~lS~~m~~~y~~~l~  108 (108)
T 2loo_A           80 FKRSKKIMPAGLVAGLSLMMILRLVLLLL  108 (108)
Confidence            67899999999999999999999999985

>2los_A Transmembrane protein 14C; paramagnetic relaxation enhancement, helic; NMR {Homo sapiens}

Probab=98.31  E-value=4.7e-10  Score=69.92  Aligned_cols=31  Identities=19%  Similarity=0.319  Sum_probs=29.2

Q ss_pred             cccccccchhHHHHHHHHHHHHHHHHHHhcC
Q 040093            2 WMQTKKLFPTGFYAAISAAMLCFYSYVVASG   32 (48)
Q Consensus         2 y~~T~kifPaG~va~iS~~M~~FY~y~l~~g   32 (48)
                      |.+|+|+||+|+++++|++|+|||.|++++.
T Consensus        89 ~~~t~K~mPaGlva~lS~~m~~~~~~~ll~~  119 (121)
T 2los_A           89 FYHSGKFMPAGLIAGASLLMVAKVGVSMFNR  119 (121)
Confidence            6789999999999999999999999999973

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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