Citrus Sinensis ID: 040345

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60-
Protein Sequence
LRAMNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLTVT
Secondary Structure (PSIPRED)
ccHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccHHEEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
Coil and Loop (DISEMBL)
LRAMNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLTVT
Flexible Loop (DISEMBL)
lramnwiqrkiHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLTVT
Low Complexity Region (SEG)
LRAMNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLTVT
Disordered region (IsUnstruct)
***MNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHL***
Disordered Region (DISOPRED)
****NWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHL***
Disordered Region (DISEMBL)
LRAMNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLTVT
Disordered Region (DISPRO)
***MNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLT**
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSiiHHHHHHHHHHHHHHHHooooHHHHHHHHHHHHHHHHiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
LRAMNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLTVT
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	61
224056911	56	predicted protein [Populus trichocarpa]	0.901	0.982	0.854	5e-20
118484601	56	unknown [Populus trichocarpa]	0.901	0.982	0.854	7e-20
118483697	64	unknown [Populus trichocarpa]	0.918	0.875	0.803	1e-19
145323760	56	uncharacterized protein [Arabidopsis tha	0.918	1.0	0.803	2e-19
297848928	56	predicted protein [Arabidopsis lyrata su	0.918	1.0	0.803	3e-19
359483982	63	PREDICTED: uncharacterized protein LOC10	0.901	0.873	0.818	3e-19
42570997	56	uncharacterized protein [Arabidopsis tha	0.918	1.0	0.75	5e-18
449447438	60	PREDICTED: uncharacterized protein LOC10	0.901	0.916	0.8	8e-18
33146931	77	unknown protein [Oryza sativa Japonica G	0.983	0.779	0.633	4e-17
242048340	79	hypothetical protein SORBIDRAFT_02g01062	0.934	0.721	0.666	9e-17

>gi|224056911|ref|XP_002299085.1| predicted protein [Populus trichocarpa] gi|118484350|gb|ABK94052.1| unknown [Populus trichocarpa] gi|222846343|gb|EEE83890.1| predicted protein [Populus trichocarpa]

 Score =  101 bits (252), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 47/55 (85%), Positives = 53/55 (96%)

Query: 4  MNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHL 58
          MNW+QRKI+LYNVTFGL+MLDWWER LFNILV+VLMWFIFYNGS+YVTDF +RHL
Sbjct: 1  MNWVQRKIYLYNVTFGLFMLDWWERCLFNILVIVLMWFIFYNGSRYVTDFCKRHL 55

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118484601|gb|ABK94174.1| unknown [Populus trichocarpa]

 Score =  101 bits (251), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 47/55 (85%), Positives = 53/55 (96%)

Query: 4  MNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHL 58
          MNW+QRKI+LYNVTFGL+MLDWWER LFNILV+VLMWFIFYNGS+YVTDF +RHL
Sbjct: 1  MNWVQRKIYLYNVTFGLFMLDWWERCLFNILVIVLMWFIFYNGSRYVTDFCKRHL 55

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118483697|gb|ABK93742.1| unknown [Populus trichocarpa]

 Score =  100 bits (249), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 45/56 (80%), Positives = 53/56 (94%)

Query: 4  MNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLT 59
          MNW+QRKI+LYNVTFGL+MLDWWER LFNILV+VLMWFIFYNGS+YVTDF +R++ 
Sbjct: 1  MNWVQRKIYLYNVTFGLFMLDWWERCLFNILVIVLMWFIFYNGSRYVTDFCKRYVA 56

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|145323760|ref|NP_001077469.1| uncharacterized protein [Arabidopsis thaliana] gi|145323762|ref|NP_001077470.1| uncharacterized protein [Arabidopsis thaliana] gi|332189877|gb|AEE27998.1| uncharacterized protein [Arabidopsis thaliana] gi|332189878|gb|AEE27999.1| uncharacterized protein [Arabidopsis thaliana]

 Score = 99.8 bits (247), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 45/56 (80%), Positives = 52/56 (92%)

Query: 4  MNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLT 59
          MNW+QRKI+LYNVTFGLYMLDWWERYLFN LVVVLMWF+ YNG++Y ++ FQRHLT
Sbjct: 1  MNWVQRKIYLYNVTFGLYMLDWWERYLFNSLVVVLMWFVLYNGTRYFSELFQRHLT 56

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297848928|ref|XP_002892345.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297338187|gb|EFH68604.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score = 99.4 bits (246), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 45/56 (80%), Positives = 52/56 (92%)

Query: 4  MNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLT 59
          MNW+QRKI+LYNVTFGLYMLDWWERYLFN LVVVLMWF+ YNG++Y ++ FQRHLT
Sbjct: 1  MNWVQRKIYLYNVTFGLYMLDWWERYLFNSLVVVLMWFVIYNGTRYFSELFQRHLT 56

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359483982|ref|XP_002277049.2| PREDICTED: uncharacterized protein LOC100264864 [Vitis vinifera] gi|296089242|emb|CBI39014.3| unnamed protein product [Vitis vinifera]

 Score = 99.4 bits (246), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 45/55 (81%), Positives = 52/55 (94%)

Query: 4  MNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHL 58
          MNWIQRKI LYNVTFGLYMLDWWERYLFN LV+VLMWF+FYNGS++ T+F++RHL
Sbjct: 1  MNWIQRKILLYNVTFGLYMLDWWERYLFNALVIVLMWFVFYNGSRHATEFYKRHL 55

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42570997|ref|NP_973572.1| uncharacterized protein [Arabidopsis thaliana] gi|330253371|gb|AEC08465.1| uncharacterized protein [Arabidopsis thaliana]

 Score = 95.1 bits (235), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 42/56 (75%), Positives = 51/56 (91%)

Query: 4  MNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLT 59
          MNW+QRKI+LYNVTFGLYMLDWWERYLFN LV++LMWFI YNGS+Y ++  +RHL+
Sbjct: 1  MNWVQRKIYLYNVTFGLYMLDWWERYLFNSLVLILMWFILYNGSRYFSELCKRHLS 56

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449447438|ref|XP_004141475.1| PREDICTED: uncharacterized protein LOC101207494 [Cucumis sativus] gi|449481395|ref|XP_004156170.1| PREDICTED: uncharacterized protein LOC101225058 [Cucumis sativus]

 Score = 94.4 bits (233), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 44/55 (80%), Positives = 50/55 (90%)

Query: 4  MNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHL 58
          MNWIQRKI+LYNVTFGLYMLDWWER LFN +VVVLMWF+FYNGS+YV D  +R+L
Sbjct: 1  MNWIQRKIYLYNVTFGLYMLDWWERILFNTMVVVLMWFMFYNGSRYVNDMCKRYL 55

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|33146931|dbj|BAC79952.1| unknown protein [Oryza sativa Japonica Group] gi|33146932|dbj|BAC79966.1| unknown protein [Oryza sativa Japonica Group]

 Score = 92.0 bits (227), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 38/60 (63%), Positives = 49/60 (81%)

Query: 1  LRAMNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLTV 60
          +  MNW+ RKIHLYNVT GLYMLDWWER LFNI+V++L+WFI +NGS++ +D F+ HL  
Sbjct: 1  MGEMNWVSRKIHLYNVTMGLYMLDWWERCLFNIMVLILLWFICFNGSRFASDVFESHLKA 60

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242048340|ref|XP_002461916.1| hypothetical protein SORBIDRAFT_02g010620 [Sorghum bicolor] gi|241925293|gb|EER98437.1| hypothetical protein SORBIDRAFT_02g010620 [Sorghum bicolor]

 Score = 90.9 bits (224), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 38/57 (66%), Positives = 48/57 (84%)

Query: 4  MNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLTV 60
          M+W+ +KIHLYNVT GLYMLDWWER LFNILV++L+WFI +NGS++ TD F+ HL  
Sbjct: 6  MSWVGKKIHLYNVTMGLYMLDWWERCLFNILVLILLWFICFNGSRFATDVFESHLKA 62

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

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	61
TAIR|locus:4010713417	56	AT1G06515 "AT1G06515" [Arabido	0.918	1.0	0.803	1.1e-23
TAIR|locus:1006230071	56	AT2G30942 "AT2G30942" [Arabido	0.918	1.0	0.75	5.5e-22
ASPGD|ASPL0000004122	119	AN6592 [Emericella nidulans (t	0.803	0.411	0.346	0.00013

TAIR|locus:4010713417 AT1G06515 "AT1G06515" [Arabidopsis thaliana (taxid:3702)]

 Score = 272 (100.8 bits), Expect = 1.1e-23, P = 1.1e-23
 Identities = 45/56 (80%), Positives = 52/56 (92%)

Query:     4 MNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLT 59
             MNW+QRKI+LYNVTFGLYMLDWWERYLFN LVVVLMWF+ YNG++Y ++ FQRHLT
Sbjct:     1 MNWVQRKIYLYNVTFGLYMLDWWERYLFNSLVVVLMWFVLYNGTRYFSELFQRHLT 56

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:1006230071 AT2G30942 "AT2G30942" [Arabidopsis thaliana (taxid:3702)]

 Score = 256 (95.2 bits), Expect = 5.5e-22, P = 5.5e-22
 Identities = 42/56 (75%), Positives = 51/56 (91%)

Query:     4 MNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHLT 59
             MNW+QRKI+LYNVTFGLYMLDWWERYLFN LV++LMWFI YNGS+Y ++  +RHL+
Sbjct:     1 MNWVQRKIYLYNVTFGLYMLDWWERYLFNSLVLILMWFILYNGSRYFSELCKRHLS 56

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

ASPGD|ASPL0000004122 AN6592 [Emericella nidulans (taxid:162425)]

 Score = 92 (37.4 bits), Expect = 0.00013, P = 0.00013
 Identities = 17/49 (34%), Positives = 30/49 (61%)

Query:     4 MNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTD 52
             + W++ KI+ Y VTF +YML   E+++FN +++ L+  I      Y+ D
Sbjct:    11 IRWVRLKIYQYEVTFAVYMLTPTEKFIFNSILLTLISMILTAAYVYLPD 59


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        0.337   0.146   0.524    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       61        61   0.00091  102 3  11 21  0.40    27
                                                     29  0.39    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:  3
  No. of states in DFA:  523 (56 KB)
  Total size of DFA:  110 KB (2075 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:  7.52u 0.09s 7.61t   Elapsed:  00:00:02
  Total cpu time:  7.52u 0.09s 7.61t   Elapsed:  00:00:02
  Start:  Fri May 10 15:01:20 2013   End:  Fri May 10 15:01:22 2013

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

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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

ID	Length	Definition	E-value
Query	61
pfam11779	58	pfam11779, DUF3317, Protein of unknown function (D	2e-11

>gnl|CDD|204741 pfam11779, DUF3317, Protein of unknown function (DUF3317)

 Score = 52.4 bits (126), Expect = 2e-11
 Identities = 17/49 (34%), Positives = 30/49 (61%)

Query: 2  RAMNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYV 50
              W+  K + Y VTFGLYML  WE+++FN ++++++  + Y    Y+
Sbjct: 1  GIKRWLSLKYYQYEVTFGLYMLTPWEKFVFNSVLLLILALLLYAVYLYL 49

This is a short family of proteins conserved from fungi and plants to human. One each of the human and mouse members is annotated as being androgen down-regulated protein expressed in mouse prostate, with a potential signal transduction function, and all appear to be membrane proteins. Length = 58

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	61
PF11779	58	DUF3317: Protein of unknown function (DUF3317); In	99.96

>PF11779 DUF3317: Protein of unknown function (DUF3317); InterPro: IPR024512 Serine palmitoyltransferase (SPT) catalyzes the first committed step in sphingolipid biosynthesis

Probab=99.96  E-value=4.2e-30  Score=149.29  Aligned_cols=57  Identities=40%  Similarity=0.826  Sum_probs=54.8

Q ss_pred             hhhHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHhhh
Q 040345            2 RAMNWIQRKIHLYNVTFGLYMLDWWERYLFNILVVVLMWFIFYNGSKYVTDFFQRHL   58 (61)
Q Consensus         2 ~~~~w~~~k~yqYeVT~glYML~pwEk~iFns~v~~ll~l~~~~~~~YlP~~~~~~~   58 (61)
                      |.+||++||+||||||||+||||||||++||++++++++++++|+++|+|+|++...
T Consensus         1 ~~~~~l~~~~~~Yevt~~lyMlepwEk~~fn~~~~~l~~l~~~~~~~ylP~h~~~~~   57 (58)
T PF11779_consen    1 GFMNWLSRKYYQYEVTFGLYMLEPWEKFLFNSFLLLLLSLILYATYLYLPSHIRFII   57 (58)
T ss_pred             CHHHHHHHHHHHHhheeeeeeccHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHh
Confidence            679999999999999999999999999999999999999999999999999998753

In mammals, two small subunits of serine palmitoyltransferase, ssSPTa and ssSPTb, substantially enhance the activity of SPT, conferring full enzyme activity upon it []. The 2 ssSPT isoforms share a conserved hydrophobic central domain, which is predicted to reside in the membrane. This entry represents the small subunits of serine palmitoyltransferase. It also includes a number of putative uncharacterised proteins from fungi and plants.

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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