Citrus Sinensis ID: 035245

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------7
Protein Sequence
MGGGDHGESVKYNGMALHRPKRWHTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHPWEGHDDHGHGHDH
Secondary Structure (PSIPRED)
ccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccEEEEccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccEEEEccccccccccccccccc
Coil and Loop (DISEMBL)
mgggdhgesvkyngmalhrpkrwhtvtgkglCAVMWFWVLYRakqdgpvvlgwrhpweghddhghghdh
Flexible Loop (DISEMBL)
MGGGDHGESVKYNGMALHRPKRWHTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHPWeghddhghghdh
Low Complexity Region (SEG)
MGGGDHGESVKYNGMALHRPKRWHTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHPWEghddhghghdh
Disordered region (IsUnstruct)
************NGMALHRPKRWHTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHPWE***********
Disordered Region (DISOPRED)
**************MALHRPKRWHTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHP*************
Disordered Region (DISEMBL)
********SVKYNGMALHRPKRWHTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHPWEGH*********
Disordered Region (DISPRO)
*********VKYNGMALHRPKRWHTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHPWEG**********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGGGDHGESVKYNGMALHRPKRWHTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHPWEGHDDHGHGHDH
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	69	2.2.26 [Sep-21-2011]
Q8LDK3	69	NADH dehydrogenase [ubiqu	yes	no	0.695	0.695	0.791	7e-18

>sp|Q8LDK3|NDUB2_ARATH NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2 OS=Arabidopsis thaliana GN=At1g76200 PE=3 SV=1

 Score = 89.4 bits (220), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 38/48 (79%), Positives = 43/48 (89%)

Query: 10 VKYNGMALHRPKRWHTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHPW 57
          + Y G+ +H PK WHTVTGKGLCAVMWFW+LYRAKQDGPVV+GWRHPW
Sbjct: 10 ITYKGVTVHTPKTWHTVTGKGLCAVMWFWILYRAKQDGPVVMGWRHPW 57

Accessory subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I), that is believed not to be involved in catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.
Arabidopsis thaliana (taxid: 3702)

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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:2199792	69	AT1G76200 "AT1G76200" [Arabido	0.840	0.840	0.758	4.6e-25
UNIPROTKB|Q8S937	81	OsBLE1 "BLE1 protein" [Oryza s	0.840	0.716	0.689	2.7e-20
ASPGD|ASPL0000072413	51	AN11137 [Emericella nidulans (	0.608	0.823	0.452	1.6e-08
DICTYBASE|DDB_G0279939	54	DDB_G0279939 "transmembrane pr	0.507	0.648	0.457	3e-05

TAIR|locus:2199792 AT1G76200 "AT1G76200" [Arabidopsis thaliana (taxid:3702)]

 Score = 285 (105.4 bits), Expect = 4.6e-25, P = 4.6e-25
 Identities = 44/58 (75%), Positives = 50/58 (86%)

Query:     1 MGGGDHGESVKYNGMALHRPKRWHTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHPWE 58
             MGGG HG  + Y G+ +H PK WHTVTGKGLCAVMWFW+LYRAKQDGPVV+GWRHPW+
Sbjct:     1 MGGGGHGGGITYKGVTVHTPKTWHTVTGKGLCAVMWFWILYRAKQDGPVVMGWRHPWD 58

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0005747 "mitochondrial respiratory chain complex I" evidence=IDA

UNIPROTKB|Q8S937 OsBLE1 "BLE1 protein" [Oryza sativa (taxid:4530)]

 Score = 240 (89.5 bits), Expect = 2.7e-20, P = 2.7e-20
 Identities = 40/58 (68%), Positives = 43/58 (74%)

Query:     1 MGGGDHGESVKYNGMALHRPKRWHTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHPWE 58
             MGGG HG    Y G  +   KRWHTV GKGLCAVMWFWV YRAKQDG V+LG RHPW+
Sbjct:     1 MGGGGHGGGTTYKGYTIPHNKRWHTVAGKGLCAVMWFWVFYRAKQDGAVLLGMRHPWD 58

GO:0009741 "response to brassinosteroid stimulus" evidence=IPI

ASPGD|ASPL0000072413 AN11137 [Emericella nidulans (taxid:162425)]

 Score = 129 (50.5 bits), Expect = 1.6e-08, P = 1.6e-08
 Identities = 19/42 (45%), Positives = 30/42 (71%)

Query:    17 LHRPKRWHTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHPWE 58
             +H  + ++      L A MWF+++YRAK+DGP +LGW+HPW+
Sbjct:     9 IHPARPFYRFAATALGASMWFFLMYRAKKDGPALLGWKHPWD 50

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

DICTYBASE|DDB_G0279939 DDB_G0279939 "transmembrane protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 98 (39.6 bits), Expect = 3.0e-05, P = 3.0e-05
 Identities = 16/35 (45%), Positives = 21/35 (60%)

Query:    24 HTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHPWE 58
             H +   GL   +WFWV YRAKQD    +G  +PW+
Sbjct:    15 HKLLSVGLGTTVWFWVFYRAKQDWRTFVGVNYPWD 49


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        0.324   0.142   0.541    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        58   0.00091  102 3  12 22  0.39    28
                                                     29  0.47    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:  4
  No. of states in DFA:  483 (51 KB)
  Total size of DFA:  92 KB (2068 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:  5.02u 0.14s 5.16t   Elapsed:  00:00:01
  Total cpu time:  5.02u 0.14s 5.16t   Elapsed:  00:00:01
  Start:  Fri May 10 06:47:57 2013   End:  Fri May 10 06:47:58 2013

GO:0008150 "biological_process" 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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8LDK3	NDUB2_ARATH	No assigned EC number	0.7916	0.6956	0.6956	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

ID	Length	Definition	Probability
Query	69
PF14813	71	NADH_B2: NADH dehydrogenase 1 beta subcomplex subu	99.77

>PF14813 NADH_B2: NADH dehydrogenase 1 beta subcomplex subunit 2

Probab=99.77  E-value=3.4e-20  Score=116.12  Aligned_cols=56  Identities=23%  Similarity=0.502  Sum_probs=47.7

Q ss_pred             CCCCcccCccccCCCCceeeeeeeeccchhhhhhhhhhhccCCceeeecCcCCCCCCC
Q 035245            6 HGESVKYNGMALHRPKRWHTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHPWEGHDDH   63 (69)
Q Consensus         6 hG~gvty~g~~~p~p~~~~~~~a~~Lga~MWFWIlyR~k~Dg~~vlG~~~Pw~~h~~h   63 (69)
                      .+|.+.|. -++|+++|.++++|++|||+||||||||+|+|.+.||| +|||++-..-
T Consensus         3 ~~h~~~~y-r~~p~~~k~~~~~a~~l~g~mW~WIlwh~whd~~hvlG-hfpyPdps~w   58 (71)
T PF14813_consen    3 GGHIEPYY-RQFPELTKKQVIMAELLSGFMWFWILWHFWHDPDHVLG-HFPYPDPSEW   58 (71)
T ss_pred             CCCcceee-cCCCCcCHHHHHHHHHHHHHHHHHHHHHHhcChhhhcC-CCCCCChhhc
Confidence            34455443 37888999999999999999999999999999999999 9999985443

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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