Citrus Sinensis ID: 034135

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100---
Protein Sequence
MSNPQLSSRRTTSFPSSSSFLEKNLFSINGVPKQLSFGRDRVKVRFSKKIVRVHALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKGVIHR
Secondary Structure (PSIPRED)
cccccccccccccccccHHHHHHcccccccccccccccccEEEEEEEccEEEEEEEEcccccccEEcccEEEEEEEccEEEEEEEEEccEEEHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccEEEcccccccccccccEEEEccHHHHHEEEccccccccEEEcccHHEEEEcccccEEEEEEcccHEEHHHHHcccEcc
Coil and Loop (DISEMBL)
msnpqlssrrttsfpssssfleknlfsingvpkqlsfgrdrvkvrFSKKIVRVHALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKGVIHR
Flexible Loop (DISEMBL)
msnpqlssrrttsfpssssFLEKNLFSIngvpkqlsfgrdrvkVRFSKKIVrvhalssnsnsylKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKGVIHR
Low Complexity Region (SEG)
MSNPQLssrrttsfpssssfLEKNLFSINGVPKQLSFGRDRVKVRFSKKIVRVHALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKGVIHR
Disordered region (IsUnstruct)
***********************NLFSINGVPKQLSFGRDRVKVRFSKKIVRVHALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKGVI**
Disordered Region (DISOPRED)
******************SFLEKNLFSINGVPKQLSFGRDRVKVRFSKKIVRVHAL*SN**SYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKGVI**
Disordered Region (DISEMBL)
*****************SSFLEKNLFSINGVPKQLSFGRDRVKVRFSKKIVRVHALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKGVIHR
Disordered Region (DISPRO)
******************SFLEKNLFSINGVPKQLSFGRDRVKVRFSKKIVRVHALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKGVIH*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSNPQLSSRRTTSFPSSSSFLEKNLFSINGVPKQLSFGRDRVKVRFSKKIVRVHALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKGVIHR
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

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	103	2.2.26 [Sep-21-2011]
F4J117	591	Phosphoglucan phosphatase	yes	no	0.427	0.074	0.777	2e-13

>sp|F4J117|LSF1_ARATH Phosphoglucan phosphatase LSF1, chloroplastic OS=Arabidopsis thaliana GN=LSF1 PE=1 SV=1

 Score = 74.7 bits (182), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 35/45 (77%), Positives = 41/45 (91%), Gaps = 1/45 (2%)

Query: 55  ALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKG 99
           A+SS+S  + KMNLNEYMVTLEKPLGIRFAL+ DGKIFVHA++KG
Sbjct: 62  AMSSSSTPF-KMNLNEYMVTLEKPLGIRFALSADGKIFVHAIKKG 105

Starch granule-associated phosphoglucan phosphatase involved in the control of starch accumulation. Participates to the regulation of the initial steps of starch degradation at the granule surface. May release a different set of phosphate groups from those removed by DSP4.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: 3EC: .EC: -

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	103
225452450	583	PREDICTED: uncharacterized protein LOC10	0.621	0.109	0.638	4e-16
449446666	589	PREDICTED: phosphoglucan phosphatase LSF	0.737	0.129	0.558	1e-15
147821809	538	hypothetical protein VITISV_037832 [Viti	0.485	0.092	0.76	3e-15
255567329	536	protein tyrosine, putative [Ricinus comm	0.524	0.100	0.714	3e-14
297828590	765	hypothetical protein ARALYDRAFT_340294 [	0.563	0.075	0.661	7e-14
6016710	716	unknown protein [Arabidopsis thaliana]	0.427	0.061	0.777	6e-12
18395843	591	protein like SEX4 1 [Arabidopsis thalian	0.427	0.074	0.777	6e-12
21592520	591	unknown [Arabidopsis thaliana]	0.427	0.074	0.777	8e-12
356573817	589	PREDICTED: uncharacterized protein LOC10	0.456	0.079	0.714	3e-10
356560597	585	PREDICTED: uncharacterized protein LOC10	0.456	0.080	0.693	6e-10

>gi|225452450|ref|XP_002274298.1| PREDICTED: uncharacterized protein LOC100252584 [Vitis vinifera] gi|296087660|emb|CBI34916.3| unnamed protein product [Vitis vinifera]

 Score = 88.6 bits (218), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 46/72 (63%), Positives = 55/72 (76%), Gaps = 8/72 (11%)

Query: 36 SFGRD-------RVKVRFSKK-IVRVHALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTV 87
          S+GRD          V  SKK I RV+A+SS+++S  KMNLNEYMVTLEKPLGIRFAL+ 
Sbjct: 27 SWGRDFLCFPNATAAVTSSKKAIARVYAMSSDTSSSFKMNLNEYMVTLEKPLGIRFALSA 86

Query: 88 DGKIFVHALRKG 99
          DGK+FVHAL+KG
Sbjct: 87 DGKVFVHALKKG 98

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449446666|ref|XP_004141092.1| PREDICTED: phosphoglucan phosphatase LSF1, chloroplastic-like [Cucumis sativus] gi|449489459|ref|XP_004158318.1| PREDICTED: LOW QUALITY PROTEIN: phosphoglucan phosphatase LSF1, chloroplastic-like [Cucumis sativus]

 Score = 87.4 bits (215), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 48/86 (55%), Positives = 62/86 (72%), Gaps = 10/86 (11%)

Query: 17  SSSFLEKNL-FSINGVPKQLSFGRD--RVKVRFSKKIVRVHALSSNSNSYLKMNLNEYMV 73
           SSSF  ++L F   GV       RD  R +  F+ ++V+V A+S  S+S  KMNLNEYMV
Sbjct: 25  SSSFWGRDLCFGNGGV-------RDGPRPRASFNGRLVKVFAMSDTSSSSFKMNLNEYMV 77

Query: 74  TLEKPLGIRFALTVDGKIFVHALRKG 99
           TLEKPLGIRFA++VDG+IFVH+L+KG
Sbjct: 78  TLEKPLGIRFAISVDGRIFVHSLKKG 103

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147821809|emb|CAN61666.1| hypothetical protein VITISV_037832 [Vitis vinifera]

 Score = 85.9 bits (211), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 38/50 (76%), Positives = 46/50 (92%)

Query: 50 IVRVHALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKG 99
          I RV+A+SS+++S  KMNLNEYMVTLEKPLGIRFAL+ DGK+FVHAL+KG
Sbjct: 4  IARVYAMSSDTSSSFKMNLNEYMVTLEKPLGIRFALSADGKVFVHALKKG 53

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255567329|ref|XP_002524644.1| protein tyrosine, putative [Ricinus communis] gi|223536005|gb|EEF37663.1| protein tyrosine, putative [Ricinus communis]

 Score = 82.4 bits (202), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 40/56 (71%), Positives = 46/56 (82%), Gaps = 2/56 (3%)

Query: 46  FSKKIVRVHALSSNSN--SYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKG 99
            SK+ ++VHA S N+N  S LKMNLNEYMV L+KP GIRFAL+VDGKI VHALRKG
Sbjct: 57  LSKRTLKVHATSDNTNNNSSLKMNLNEYMVNLDKPFGIRFALSVDGKIIVHALRKG 112

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297828590|ref|XP_002882177.1| hypothetical protein ARALYDRAFT_340294 [Arabidopsis lyrata subsp. lyrata] gi|297328017|gb|EFH58436.1| hypothetical protein ARALYDRAFT_340294 [Arabidopsis lyrata subsp. lyrata]

 Score = 81.3 bits (199), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 41/62 (66%), Positives = 53/62 (85%), Gaps = 4/62 (6%)

Query: 41  RVKVRFSKK---IVRVHALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALR 97
           R KV F+++   ++RV A+SS+S+ + KMNLNEYMVTLEKPLGIRFAL+ DGKIFVHA++
Sbjct: 220 REKVGFNRRSRLVLRVVAMSSSSSPF-KMNLNEYMVTLEKPLGIRFALSADGKIFVHAIK 278

Query: 98  KG 99
           KG
Sbjct: 279 KG 280

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|6016710|gb|AAF01536.1|AC009325_6 unknown protein [Arabidopsis thaliana]

 Score = 74.7 bits (182), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 35/45 (77%), Positives = 41/45 (91%), Gaps = 1/45 (2%)

Query: 55  ALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKG 99
           A+SS+S  + KMNLNEYMVTLEKPLGIRFAL+ DGKIFVHA++KG
Sbjct: 270 AMSSSSTPF-KMNLNEYMVTLEKPLGIRFALSADGKIFVHAIKKG 313

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18395843|ref|NP_566139.1| protein like SEX4 1 [Arabidopsis thaliana] gi|387942514|sp|F4J117.1|LSF1_ARATH RecName: Full=Phosphoglucan phosphatase LSF1, chloroplastic; AltName: Full=Phosphoglucan phosphatase like sex Four1; AltName: Full=Protein LIKE SEX4 1; Flags: Precursor gi|332640157|gb|AEE73678.1| protein like SEX4 1 [Arabidopsis thaliana]

 Score = 74.7 bits (182), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 35/45 (77%), Positives = 41/45 (91%), Gaps = 1/45 (2%)

Query: 55  ALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKG 99
           A+SS+S  + KMNLNEYMVTLEKPLGIRFAL+ DGKIFVHA++KG
Sbjct: 62  AMSSSSTPF-KMNLNEYMVTLEKPLGIRFALSADGKIFVHAIKKG 105

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21592520|gb|AAM64470.1| unknown [Arabidopsis thaliana]

 Score = 74.3 bits (181), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 35/45 (77%), Positives = 41/45 (91%), Gaps = 1/45 (2%)

Query: 55  ALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKG 99
           A+SS+S  + KMNLNEYMVTLEKPLGIRFAL+ DGKIFVHA++KG
Sbjct: 62  AMSSSSTPF-KMNLNEYMVTLEKPLGIRFALSADGKIFVHAVKKG 105

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356573817|ref|XP_003555052.1| PREDICTED: uncharacterized protein LOC100814503 [Glycine max]

 Score = 69.3 bits (168), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 35/49 (71%), Positives = 40/49 (81%), Gaps = 2/49 (4%)

Query: 51  VRVHALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKG 99
           +RV A+S +S    KMNLNEY+VTLEKPLGIRFALT DGKI VH+L KG
Sbjct: 57  LRVFAVSGSS--AFKMNLNEYLVTLEKPLGIRFALTSDGKIIVHSLTKG 103

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356560597|ref|XP_003548577.1| PREDICTED: uncharacterized protein LOC100806392 [Glycine max]

 Score = 68.2 bits (165), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 34/49 (69%), Positives = 40/49 (81%), Gaps = 2/49 (4%)

Query: 51 VRVHALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALRKG 99
          +RV A+S NS    KMNL+EY+VTLEKPLGIRFALT DG+I VH+L KG
Sbjct: 53 LRVFAVSGNS--AFKMNLSEYLVTLEKPLGIRFALTSDGRIIVHSLTKG 99

Source: Glycine max

Species: Glycine max

Genus: Glycine

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	103
TAIR|locus:2084133	591	LSF1 "AT3G01510" [Arabidopsis	0.563	0.098	0.645	5.4e-14

TAIR|locus:2084133 LSF1 "AT3G01510" [Arabidopsis thaliana (taxid:3702)]

 Score = 190 (71.9 bits), Expect = 5.4e-14, P = 5.4e-14
 Identities = 40/62 (64%), Positives = 51/62 (82%)

Query:    41 RVKVRFSKK---IVRVHALSSNSNSYLKMNLNEYMVTLEKPLGIRFALTVDGKIFVHALR 97
             R K  F+++   ++RV A+SS+S  + KMNLNEYMVTLEKPLGIRFAL+ DGKIFVHA++
Sbjct:    45 REKFGFNRRRRVVLRVVAMSSSSTPF-KMNLNEYMVTLEKPLGIRFALSADGKIFVHAIK 103

Query:    98 KG 99
             KG
Sbjct:   104 KG 105


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        0.323   0.138   0.384    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      103        89   0.00091  102 3  11 22  0.42    29
                                                     29  0.50    30


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:  451 (48 KB)
  Total size of DFA:  79 KB (2064 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:  9.61u 0.19s 9.80t   Elapsed:  00:00:00
  Total cpu time:  9.62u 0.19s 9.81t   Elapsed:  00:00:00
  Start:  Fri May 10 15:41:14 2013   End:  Fri May 10 15:41:14 2013

GO:0006470 "protein dephosphorylation" evidence=IEA;IBA

GO:0008138 "protein tyrosine/serine/threonine phosphatase activity" evidence=IEA;IBA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0005983 "starch catabolic process" evidence=IMP

GO:0043036 "starch grain" evidence=IDA

GO:0000023 "maltose metabolic process" evidence=RCA

GO:0019252 "starch biosynthetic process" evidence=RCA

GO:0043085 "positive regulation of catalytic activity" evidence=RCA

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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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
F4J117	LSF1_ARATH	3, ., 1, ., 3, ., -	0.7777	0.4271	0.0744	yes	no

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

No hit with probability above 80.00

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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

ID	Length	Definition	Probability
Query	103
d1uita_	117	Discs large 5 protein KIAA0583 {Human (Homo sapien	82.92

>d1uita_ b.36.1.1 (A:) Discs large 5 protein KIAA0583 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Discs large 5 protein KIAA0583
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.92  E-value=0.51  Score=29.01  Aligned_cols=29  Identities=34%  Similarity=0.579  Sum_probs=24.0

Q ss_pred             eeeecc---ceeeEEEEeeCCeEEeeeecccc
Q 034135           72 MVTLEK---PLGIRFALTVDGKIFVHALRKGV  100 (103)
Q Consensus        72 MVtleK---PLGIRFALtvdGKVfVHaLkKG~  100 (103)
                      .|+|+|   |||+++.-..|+-|||..+..|+
T Consensus        22 ~v~l~k~~~glG~~i~gg~~~gi~V~~V~~gs   53 (117)
T d1uita_          22 HVKVQKGSEPLGISIVSGEKGGIYVSKVTVGS   53 (117)
T ss_dssp             EEEEECSSCCCCEEEEECTTSCEEEEEECTTS
T ss_pred             EEEEEeCCCccCEEEEccCCCCEEEEEEecCC
Confidence            455554   89999988889999999998876