Citrus Sinensis ID: 042606

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--
Protein Sequence
HIVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTRGIGWGKDGRHPSLHGPKVEAVESEE
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHcccccccccccccccccccEEEcccc
Coil and Loop (DISEMBL)
hivrekwiDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLEstrgigwgkdgrhpslhgpkveavesee
Flexible Loop (DISEMBL)
hivrekwidiekakiIREKLKWCYRIEGVNHMQKCRHLVNQYLESTRGigwgkdgrhpslhgpkveavesee
Low Complexity Region (SEG)
HIVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTRGIGWGKDGRHPSLHGPKVEAVESEE
Disordered region (IsUnstruct)
***REKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTRGIGWG********************
Disordered Region (DISOPRED)
*IVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTRGIGWG********************
Disordered Region (DISEMBL)
HIVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTRGIGWGKDGRHPS*************
Disordered Region (DISPRO)
HIVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTRGIGWGKDGRHPSLHGPKVEAV****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
HIVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTRGIGWGKDGRHPSLHGPKVEAVESEE
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	72	2.2.26 [Sep-21-2011]
Q94C12	106	NADH dehydrogenase [ubiqu	yes	no	0.986	0.669	0.816	3e-28
Q9M9B4	107	NADH dehydrogenase [ubiqu	yes	no	1.0	0.672	0.777	2e-26
Q03015	104	NADH-ubiquinone oxidoredu	N/A	no	0.597	0.413	0.465	3e-06

>sp|Q94C12|NDBAB_ARATH NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10-B OS=Arabidopsis thaliana GN=At3g18410 PE=2 SV=1

 Score =  123 bits (308), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 58/71 (81%), Positives = 64/71 (90%)

Query: 1   HIVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTRGIGWGKDGRHPSL 60
           HIVREKWI IEKAKI+REK+KWCYR+EGVNH QKCRHLV QYL+STRG+GWGKD R  SL
Sbjct: 36  HIVREKWIQIEKAKILREKVKWCYRVEGVNHYQKCRHLVQQYLDSTRGVGWGKDHRPISL 95

Query: 61  HGPKVEAVESE 71
           HGPK EAVE+E
Sbjct: 96  HGPKPEAVEAE 106

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)

>sp|Q9M9B4|NDBAA_ARATH NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10-A OS=Arabidopsis thaliana GN=At1g49140 PE=3 SV=1

 Score =  117 bits (294), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 56/72 (77%), Positives = 62/72 (86%)

Query: 1   HIVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTRGIGWGKDGRHPSL 60
           HIVREKWI IEKAKI+REK+KWCYR+EGVNH QKCRHLV QYL++TRG+GWGKD R  SL
Sbjct: 36  HIVREKWIHIEKAKILREKVKWCYRVEGVNHYQKCRHLVQQYLDATRGVGWGKDHRPISL 95

Query: 61  HGPKVEAVESEE 72
           HGPK  AVE  E
Sbjct: 96  HGPKPVAVEEAE 107

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)

>sp|Q03015|NDUS6_NEUCR NADH-ubiquinone oxidoreductase 12 kDa subunit, mitochondrial OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=nuo-12.3 PE=3 SV=2

 Score = 50.8 bits (120), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 20/43 (46%), Positives = 32/43 (74%)

Query: 2  IVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLE 44
          I+RE+W+ +   +++RE+L  CY  EGVNH++KC HL  +YL+
Sbjct: 38 IIREQWVRVMMGRLVREELSKCYYREGVNHLEKCGHLRERYLQ 80

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.

Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) (taxid: 367110)

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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	72
TAIR|locus:2095022	106	AT3G18410 "AT3G18410" [Arabido	0.986	0.669	0.816	1.3e-29
TAIR|locus:2028401	107	AT1G49140 "AT1G49140" [Arabido	1.0	0.672	0.777	3.1e-28
UNIPROTKB|G4MY42	105	MGG_01267 "Uncharacterized pro	0.638	0.438	0.478	9.7e-09
ASPGD|ASPL0000068806	103	AN7561 [Emericella nidulans (t	0.597	0.417	0.418	4.3e-06
FB|FBgn0021967	159	Pdsw "Pdsw" [Drosophila melano	0.597	0.270	0.372	0.00072

TAIR|locus:2095022 AT3G18410 "AT3G18410" [Arabidopsis thaliana (taxid:3702)]

 Score = 328 (120.5 bits), Expect = 1.3e-29, P = 1.3e-29
 Identities = 58/71 (81%), Positives = 64/71 (90%)

Query:     1 HIVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTRGIGWGKDGRHPSL 60
             HIVREKWI IEKAKI+REK+KWCYR+EGVNH QKCRHLV QYL+STRG+GWGKD R  SL
Sbjct:    36 HIVREKWIQIEKAKILREKVKWCYRVEGVNHYQKCRHLVQQYLDSTRGVGWGKDHRPISL 95

Query:    61 HGPKVEAVESE 71
             HGPK EAVE+E
Sbjct:    96 HGPKPEAVEAE 106

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=IDA

GO:0009853 "photorespiration" evidence=TAS

GO:0031966 "mitochondrial membrane" evidence=IDA

GO:0045271 "respiratory chain complex I" evidence=IDA

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

TAIR|locus:2028401 AT1G49140 "AT1G49140" [Arabidopsis thaliana (taxid:3702)]

 Score = 315 (115.9 bits), Expect = 3.1e-28, P = 3.1e-28
 Identities = 56/72 (77%), Positives = 62/72 (86%)

Query:     1 HIVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTRGIGWGKDGRHPSL 60
             HIVREKWI IEKAKI+REK+KWCYR+EGVNH QKCRHLV QYL++TRG+GWGKD R  SL
Sbjct:    36 HIVREKWIHIEKAKILREKVKWCYRVEGVNHYQKCRHLVQQYLDATRGVGWGKDHRPISL 95

Query:    61 HGPKVEAVESEE 72
             HGPK  AVE  E
Sbjct:    96 HGPKPVAVEEAE 107

GO:0005739 "mitochondrion" evidence=IDA

GO:0009853 "photorespiration" evidence=TAS

GO:0031966 "mitochondrial membrane" evidence=IDA

GO:0045271 "respiratory chain complex I" evidence=IDA

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

UNIPROTKB|G4MY42 MGG_01267 "Uncharacterized protein" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 131 (51.2 bits), Expect = 9.7e-09, P = 9.7e-09
 Identities = 22/46 (47%), Positives = 33/46 (71%)

Query:     2 IVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTR 47
             IVRE+W+ +   ++IRE+L  CY  EGVNH++KC HL  +YL+  +
Sbjct:    38 IVREQWVQVMMGRLIREELGKCYYKEGVNHLEKCGHLRERYLQQLK 83

GO:0008150 "biological_process" evidence=ND

ASPGD|ASPL0000068806 AN7561 [Emericella nidulans (taxid:162425)]

 Score = 106 (42.4 bits), Expect = 4.3e-06, P = 4.3e-06
 Identities = 18/43 (41%), Positives = 29/43 (67%)

Query:     2 IVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLE 44
             I+RE+W+    ++++ E+L  CY  EGVNH++KC  L  +Y E
Sbjct:    38 IIREQWVRSMMSRLVGEELGKCYAREGVNHLEKCGKLREKYFE 80

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

FB|FBgn0021967 Pdsw "Pdsw" [Drosophila melanogaster (taxid:7227)]

 Score = 86 (35.3 bits), Expect = 0.00072, P = 0.00072
 Identities = 16/43 (37%), Positives = 28/43 (65%)

Query:     4 REKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLEST 46
             R++ +D E   I+R++ + C   E  +HM KCR L++QY ++T
Sbjct:    71 RDRMVDNEIVNILRQRFEDCTLYEAPDHMVKCRPLMDQYEKAT 113


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        0.319   0.137   0.446    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       72        72   0.00091  102 3  11 22  0.38    29
                                                     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:  5
  No. of states in DFA:  557 (59 KB)
  Total size of DFA:  115 KB (2076 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:  7.47u 0.16s 7.63t   Elapsed:  00:00:01
  Total cpu time:  7.47u 0.16s 7.63t   Elapsed:  00:00:01
  Start:  Fri May 10 16:15:22 2013   End:  Fri May 10 16:15:23 2013

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=ISS

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

GO:0006120 "mitochondrial electron transport, NADH to ubiquinone" evidence=ISS

GO:0003954 "NADH dehydrogenase activity" evidence=ISS

GO:0005739 "mitochondrion" evidence=IDA

GO:0022008 "neurogenesis" evidence=IMP

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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)
Q9M9B4	NDBAA_ARATH	No assigned EC number	0.7777	1.0	0.6728	yes	no
Q94C12	NDBAB_ARATH	No assigned EC number	0.8169	0.9861	0.6698	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

ID	Length	Definition	E-value
Query	72
pfam10249	128	pfam10249, NDUFB10, NADH-ubiquinone oxidoreductase	6e-05

>gnl|CDD|118773 pfam10249, NDUFB10, NADH-ubiquinone oxidoreductase subunit 10

 Score = 37.8 bits (88), Expect = 6e-05
 Identities = 15/45 (33%), Positives = 28/45 (62%)

Query: 4  REKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTRG 48
          R+  +D E  KI+R++L+ C + EG +H+Q C   + Q+ E+ + 
Sbjct: 54 RDYKVDQEIVKILRQRLEACQQREGPDHVQNCAKEIEQFEEAEKN 98

NDUFB10 is a family of conserved proteins of up to 180 residues. It is one of the 41 protein subunits within the hydrophobic fraction of the NADH:ubiquinone oxidoreductase (complex I), a multiprotein complex located in the inner mitochondrial membrane whose main function is the transport of electrons from NADH to ubiquinone, which is accompanied by translocation of protons from the mitochondrial matrix to the intermembrane space. NDUFB10 is encoded in the nucleus. Length = 128

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	72
PF10249	128	NDUFB10: NADH-ubiquinone oxidoreductase subunit 10	99.84
KOG4009	156	consensus NADH-ubiquinone oxidoreductase, subunit	99.8

>PF10249 NDUFB10: NADH-ubiquinone oxidoreductase subunit 10; InterPro: IPR019377 NADH-ubiquinone oxidoreductase subunit 10 of (NDUFB10) is a member of a family of conserved proteins of up to 180 residues

Probab=99.84  E-value=3.6e-21  Score=132.41  Aligned_cols=56  Identities=48%  Similarity=0.797  Sum_probs=54.1

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHhHHHHHHHHHHhh-------ccCCCCCCCC
Q 042606            2 IVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTR-------GIGWGKDGRH   57 (72)
Q Consensus         2 ~iRE~wV~~e~~kIvrE~L~kCy~rEGvNh~qnC~~l~e~Yl~~~k-------dlG~~~~ar~   57 (72)
                      +.||+||++||++|||++|++|+++||+||++||++++++|+++++       |||+++|||.
T Consensus        52 ~~RDk~VD~EIlkILReRl~~C~~~EG~nh~qnC~~l~~qy~ea~~~y~~kYgdlg~~~~~~~  114 (128)
T PF10249_consen   52 FRRDKLVDQEILKILRERLEACYRREGVNHYQNCRKLVEQYEEAAKNYFIKYGDLGAYGSARK  114 (128)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCcCHhhhhHHHHHHHHHHHHHHHHHHHhcCccccHHH
Confidence            5799999999999999999999999999999999999999999999       9999999974

It is one of the 41 protein subunits within the hydrophobic fraction of the NADH:ubiquinone oxidoreductase (complex I), a multiprotein complex located in the inner mitochondrial membrane whose main function is the transport of electrons from NADH to ubiquinone, which is accompanied by translocation of protons from the mitochondrial matrix to the intermembrane space. NDUFB10 is encoded in the nucleus.

>KOG4009 consensus NADH-ubiquinone oxidoreductase, subunit NDUFB10/PDSW [Energy production and conversion]

Probab=99.80  E-value=5.1e-20  Score=130.37  Aligned_cols=70  Identities=53%  Similarity=0.888  Sum_probs=63.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHhHHHHHHHHHHhh-------ccCCCCCCCCCC---------C--CCC
Q 042606            2 IVREKWIDIEKAKIIREKLKWCYRIEGVNHMQKCRHLVNQYLESTR-------GIGWGKDGRHPS---------L--HGP   63 (72)
Q Consensus         2 ~iRE~wV~~e~~kIvrE~L~kCy~rEGvNh~qnC~~l~e~Yl~~~k-------dlG~~~~ar~~~---------~--~~~   63 (72)
                      +.||+|||.||++|+|+++++|+++||+||++||+++++||.++++       |||.|.|||.-+         .  |||
T Consensus        68 ~rrDkmVd~ei~nilrqRvk~C~lye~pnh~q~C~k~veq~e~~~~n~f~kygdLGgys~ar~aymKQkhRmiweRrh~~  147 (156)
T KOG4009|consen   68 IRRDKMVDIEIANILRQRVKWCYLYEGPNHYQKCRKLVEQYEDATRNYFVKYGDLGGYSSARKAYMKQKHRMIWERRHGP  147 (156)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhCcchHhHHHHHHHHHHHHHHHHhhhhccccccchHHHHHHHhhhhHHHHhhcCC
Confidence            5799999999999999999999999999999999999999999999       999999997654         3  898


Q ss_pred             cccccccc
Q 042606           64 KVEAVESE   71 (72)
Q Consensus        64 ~~~~~~~~   71 (72)
                      +..+.+++
T Consensus       148 ~~~~~~~~  155 (156)
T KOG4009|consen  148 KPAAVEAE  155 (156)
T ss_pred             cchhhhhc
Confidence            88776654

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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