Citrus Sinensis ID: 034746


Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80-----
MGGADHGHAGEGAHRDFRAKVWSMPGGPNCRPKHWKRNTAIAMAGIFLICIPIAMKSAELEQRPHHPVRPIPSQLWCKNFGTKDY
ccccccccccccccccccccEEccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHccccc
ccccccccccccccccccccEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHcccccc
mggadhghagegahrDFRAkvwsmpggpncrpkhwkrNTAIAMAGIFLICIPIAMksaeleqrphhpvrpipsqlwcknfgtkdy
mggadhghagegahrdfRAKVWSMPGGPNCRPKHWKRNTAIAMAGIFLICIPIAMKSAELEQRphhpvrpipsqlwcknfgtkdy
MggadhghagegahRDFRAKVWSMPGGPNCRPKHWKRNTAIAMAGIFLICIPIAMKSAELEQRPHHPVRPIPSQLWCKNFGTKDY
******************AKVWSMPGGPNCRPKHWKRNTAIAMAGIFLICIPIAMKS****************QLWCKN******
***************DFRAKVWSMPGGPNCRPKHWKRNTAIAMAGIFLICIPIAMKSAELEQRPHHPVRPIPSQLWCKN******
************AHRDFRAKVWSMPGGPNCRPKHWKRNTAIAMAGIFLICIPIAMKSAELEQRPHHPVRPIPSQLWCKNFGTKDY
************AHRDFRAKVWSMPGGPNCRPKHWKRNTAIAMAGIFLICIPIAMKSAELEQRPHHPVRPIPSQLWCKNFG****
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooo
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
MGGADHGHAGEGAHRDFRAKVWSMPGGPNCRPKHWKRNTAIAMAGIFLICIPIAMKSAELEQRPHHPVRPIPSQLWCKNFGTKDY
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST ?

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query85
25554150888 conserved hypothetical protein [Ricinus 0.976 0.943 0.891 3e-38
297745210185 unnamed protein product [Vitis vinifera] 0.976 0.448 0.858 3e-36
22545408583 PREDICTED: uncharacterized protein LOC10 0.976 1.0 0.858 1e-34
22547069080 PREDICTED: uncharacterized protein LOC10 0.941 1.0 0.835 1e-34
22406399591 predicted protein [Populus trichocarpa] 0.882 0.824 0.92 2e-34
1841138088 uncharacterized protein [Arabidopsis tha 0.964 0.931 0.809 5e-33
22412757491 predicted protein [Populus trichocarpa] 0.823 0.769 0.914 1e-31
44946470083 PREDICTED: uncharacterized protein LOC10 0.823 0.843 0.928 2e-31
32648811183 predicted protein [Hordeum vulgare subsp 0.976 1.0 0.788 3e-31
35656834688 PREDICTED: uncharacterized protein LOC10 0.811 0.784 0.913 2e-30
>gi|255541508|ref|XP_002511818.1| conserved hypothetical protein [Ricinus communis] gi|223548998|gb|EEF50487.1| conserved hypothetical protein [Ricinus communis] Back     alignment and taxonomy information
 Score =  162 bits (410), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 74/83 (89%), Positives = 78/83 (93%)

Query: 3  GADHGHAGEGAHRDFRAKVWSMPGGPNCRPKHWKRNTAIAMAGIFLICIPIAMKSAELEQ 62
          G DHGH  EGAH DFRAKVWSMPGGP CRPKHW+RNTAIAMAG+FL+CIPIAMKSAELEQ
Sbjct: 2  GGDHGHGAEGAHGDFRAKVWSMPGGPYCRPKHWRRNTAIAMAGLFLVCIPIAMKSAELEQ 61

Query: 63 RPHHPVRPIPSQLWCKNFGTKDY 85
          RPHHPVRPIPSQLWCKNFG+KDY
Sbjct: 62 RPHHPVRPIPSQLWCKNFGSKDY 84




Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297745210|emb|CBI40290.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|225454085|ref|XP_002266610.1| PREDICTED: uncharacterized protein LOC100263631 isoform 1 [Vitis vinifera] gi|359489597|ref|XP_003633948.1| PREDICTED: uncharacterized protein LOC100263631 isoform 2 [Vitis vinifera] gi|147863419|emb|CAN83614.1| hypothetical protein VITISV_007756 [Vitis vinifera] Back     alignment and taxonomy information
>gi|225470690|ref|XP_002262805.1| PREDICTED: uncharacterized protein LOC100258376 [Vitis vinifera] Back     alignment and taxonomy information
>gi|224063995|ref|XP_002301339.1| predicted protein [Populus trichocarpa] gi|118489365|gb|ABK96487.1| unknown [Populus trichocarpa x Populus deltoides] gi|222843065|gb|EEE80612.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|18411380|ref|NP_567180.1| uncharacterized protein [Arabidopsis thaliana] gi|17380736|gb|AAL36198.1| unknown protein [Arabidopsis thaliana] gi|20258925|gb|AAM14178.1| unknown protein [Arabidopsis thaliana] gi|26452418|dbj|BAC43294.1| unknown protein [Arabidopsis thaliana] gi|332656505|gb|AEE81905.1| uncharacterized protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|224127574|ref|XP_002320108.1| predicted protein [Populus trichocarpa] gi|118483711|gb|ABK93749.1| unknown [Populus trichocarpa] gi|222860881|gb|EEE98423.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449464700|ref|XP_004150067.1| PREDICTED: uncharacterized protein LOC101205849 [Cucumis sativus] gi|449516171|ref|XP_004165121.1| PREDICTED: uncharacterized LOC101205849 [Cucumis sativus] Back     alignment and taxonomy information
>gi|326488111|dbj|BAJ89894.1| predicted protein [Hordeum vulgare subsp. vulgare] Back     alignment and taxonomy information
>gi|356568346|ref|XP_003552372.1| PREDICTED: uncharacterized protein LOC100795291 [Glycine max] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query85
TAIR|locus:50500641988 AT4G00585 "AT4G00585" [Arabido 0.811 0.784 0.855 2.6e-31
TAIR|locus:505006419 AT4G00585 "AT4G00585" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 344 (126.2 bits), Expect = 2.6e-31, P = 2.6e-31
 Identities = 59/69 (85%), Positives = 64/69 (92%)

Query:    16 DFRAKVWSMPGGPNCRPKHWKRNTAIAMAGIFLICIPIAMKSAELEQRPHHPVRPIPSQL 75
             DFRAKVWSM GGPNCRPKHW+RNTAIAM G+FL+CIPIA  SA+LEQRPH PVRPIPSQ+
Sbjct:    14 DFRAKVWSMTGGPNCRPKHWRRNTAIAMFGVFLVCIPIAKLSAKLEQRPHMPVRPIPSQI 73

Query:    76 WCKNFGTKD 84
             WCKNFGTKD
Sbjct:    74 WCKNFGTKD 82


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        0.326   0.139   0.494    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       85        72   0.00091  102 3  12 22  0.46    28
                                                     29  0.43    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:  474 (50 KB)
  Total size of DFA:  89 KB (2067 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:  7.26u 0.13s 7.39t   Elapsed:  00:00:00
  Total cpu time:  7.26u 0.13s 7.39t   Elapsed:  00:00:00
  Start:  Fri May 10 00:21:03 2013   End:  Fri May 10 00:21:03 2013


GO:0003674 "molecular_function" evidence=ND
GO:0009853 "photorespiration" evidence=RCA;TAS
GO:0031966 "mitochondrial membrane" evidence=IDA
GO:0045271 "respiratory chain complex I" evidence=IDA
GO:0005747 "mitochondrial respiratory chain complex I" evidence=IDA
GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=RCA
GO:0051788 "response to misfolded protein" evidence=RCA
GO:0080129 "proteasome core complex assembly" evidence=RCA

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!


Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Your Input:
GSVIVG00009205001
SubName- Full=Chromosome undetermined scaffold_225, whole genome shotgun sequence; (80 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00035362001
SubName- Full=Chromosome undetermined scaffold_77, whole genome shotgun sequence; (70 aa)
      0.507
GSVIVG00008632001
SubName- Full=Chromosome undetermined scaffold_203, whole genome shotgun sequence; (65 aa)
       0.419

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Conserved Domains Detected by HHsearch ?

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 85
PF12273130 RCR: Chitin synthesis regulation, resistance to Co 80.21
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls Back     alignment and domain information
Probab=80.21  E-value=2.2  Score=29.03  Aligned_cols=32  Identities=22%  Similarity=0.325  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHhhhcccccCCCCCC---CCC
Q 034746           40 AIAMAGIFLICIPIAMKSAELEQRPHHPV---RPI   71 (85)
Q Consensus        40 ai~~v~i~~~~~~~~~~Sa~~E~R~~~P~---r~i   71 (85)
                      +|++++|++++++++.++++|-+|-..|.   +|+
T Consensus         6 ~iii~~i~l~~~~~~~~~rRR~r~G~~P~~gt~w~   40 (130)
T PF12273_consen    6 AIIIVAILLFLFLFYCHNRRRRRRGLQPIYGTRWM   40 (130)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhcCCCCcCCceec
Confidence            34455555556666667777776634444   666



Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].


Homologous Structure Templates

Structure Templates Detected by BLAST ?

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

No hit with e-value below 0.005

Structure Templates Detected by HHsearch ?

No hit with probability above 80.00


Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

No hit with probability above 80.00