Citrus Sinensis ID: 033216
Local Sequence Feature Prediction
| Prediction and (Method) | Result |
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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 | Alignment graph | Length |
Definition |
RBH(Q2H) |
RBH(H2Q) |
Q cover |
H cover |
Identity |
E-value |
| Query | 125 | 2.2.26 [Sep-21-2011] | |||||||
| Q9FGK0 | 125 | NADH dehydrogenase [ubiqu | yes | no | 1.0 | 1.0 | 0.864 | 2e-51 |
| >sp|Q9FGK0|NDUB8_ARATH NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial OS=Arabidopsis thaliana GN=At5g47570 PE=2 SV=1 | Back alignment and function desciption |
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Score = 200 bits (509), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 108/125 (86%), Positives = 114/125 (91%)
Query: 1 MAGRLSNVASQIMGGNGVVGRSVASSLRLRSGMGLPVGKHIVPNKPLSVNDELVWDNGTP 60
MAGRLS VAS+IMGGNGVV RSV SSLR R+GMGLPVGKHIVP+KPLSVNDEL+WDNGT
Sbjct: 1 MAGRLSGVASRIMGGNGVVARSVGSSLRQRAGMGLPVGKHIVPDKPLSVNDELMWDNGTA 60
Query: 61 FPEPCIDRIADTVGKYEALGWLLGGLGFFASLGALAVWNDKASKIPFTPKVYPYDNLRVE 120
FPEPCIDRIADTVGKYEAL WL GGLGFF LG LAV NDKASK+PFTP+VYPYDNLRVE
Sbjct: 61 FPEPCIDRIADTVGKYEALAWLSGGLGFFVGLGLLAVLNDKASKVPFTPRVYPYDNLRVE 120
Query: 121 LGGEP 125
LGGEP
Sbjct: 121 LGGEP 125
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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) |
Prediction of Gene Ontology (GO) Terms
Close Homologs with Gene Ontology terms Detected by BLAST
Original result of BLAST against Gene Ontology (AMIGO)
| ID |
Alignment graph |
Length |
Definition |
Q cover |
H cover |
Identity |
E-value |
| Query | 125 | ||||||
| TAIR|locus:2169003 | 125 | AT5G47570 "AT5G47570" [Arabido | 1.0 | 1.0 | 0.752 | 2.3e-46 |
| TAIR|locus:2169003 AT5G47570 "AT5G47570" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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Score = 486 (176.1 bits), Expect = 2.3e-46, P = 2.3e-46
Identities = 94/125 (75%), Positives = 100/125 (80%)
Query: 1 MAGRLSNVASQIMGGNGVVGRSVASSLRLRSGMGLPVGKHIVPNKPLSVNDELVWDNGTP 60
MAGRLS VAS+IMGGNGVV RSV SSLR R+GMGLPVGKHIVP+KPLSVNDEL+WDNGT
Sbjct: 1 MAGRLSGVASRIMGGNGVVARSVGSSLRQRAGMGLPVGKHIVPDKPLSVNDELMWDNGTA 60
Query: 61 FPEPCIDRIADTVGKYEXXXXXXXXXXXXXXXXXXXVWNDKASKIPFTPKVYPYDNLRVE 120
FPEPCIDRIADTVGKYE V NDKASK+PFTP+VYPYDNLRVE
Sbjct: 61 FPEPCIDRIADTVGKYEALAWLSGGLGFFVGLGLLAVLNDKASKVPFTPRVYPYDNLRVE 120
Query: 121 LGGEP 125
LGGEP
Sbjct: 121 LGGEP 125
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 0.315 0.138 0.424 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 0 125 106 0.00091 102 3 11 22 0.50 30
29 0.39 32
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: 552 (59 KB)
Total size of DFA: 119 KB (2077 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: 10.61u 0.13s 10.74t Elapsed: 00:00:01
Total cpu time: 10.61u 0.13s 10.74t Elapsed: 00:00:01
Start: Mon May 20 21:43:10 2013 End: Mon May 20 21:43:11 2013
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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) |
| Q9FGK0 | NDUB8_ARATH | No assigned EC number | 0.864 | 1.0 | 1.0 | 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!
Prediction of Functionally Associated Proteins
Functionally Associated Proteins Detected by STRING
Original result from the STRING server
Fail to connect to STRING server
Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 125 | |||
| pfam05821 | 179 | pfam05821, NDUF_B8, NADH-ubiquinone oxidoreductase | 0.004 |
| >gnl|CDD|218766 pfam05821, NDUF_B8, NADH-ubiquinone oxidoreductase ASHI subunit (CI-ASHI or NDUFB8) | Back alignment and domain information |
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Score = 35.1 bits (81), Expect = 0.004
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 8/48 (16%)
Query: 81 WLLGGLGFFASLGALAVW---NDKASKIPFTPKVYPYDNLRVELGGEP 125
+LLG LG LA++ D P PK YPY+ L +E GG+P
Sbjct: 127 YLLGFLGV-----MLAMYYWGEDYPMYRPVAPKQYPYNGLYLERGGDP 169
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This family consists of several eukaryotic NADH-ubiquinone oxidoreductase ASHI subunit (CI-ASHI) proteins. NADH:ubiquinone oxidoreductase (complex I) is an extremely complicated multiprotein complex located in the inner mitochondrial membrane. Its 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. Human complex I appears to consist of 41 subunits. Length = 179 |
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 125 | |||
| PF05821 | 179 | NDUF_B8: NADH-ubiquinone oxidoreductase ASHI subun | 99.11 | |
| KOG4040 | 186 | consensus NADH:ubiquinone oxidoreductase, NDUFB8/A | 96.68 |
| >PF05821 NDUF_B8: NADH-ubiquinone oxidoreductase ASHI subunit (CI-ASHI or NDUFB8); InterPro: IPR008699 NADH:ubiquinone oxidoreductase (complex I) (1 | Back alignment and domain information |
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Probab=99.11 E-value=1.6e-10 Score=90.94 Aligned_cols=74 Identities=31% Similarity=0.512 Sum_probs=51.5
Q ss_pred CCCCCCCCccccccCCCCCCCccccccCCCcCHHHHHHHHHHHHHHHHHHhhhhhhccCCCCCCCCCCCCCCcchhHhhC
Q 033216 43 PNKPLSVNDELVWDNGTPFPEPCIDRIADTVGKYEALGWLLGGLGFFASLGALAVWNDKASKIPFTPKVYPYDNLRVELG 122 (125)
Q Consensus 43 p~kpLpe~~EL~Wd~G~a~PEp~iD~~~~~Isk~eAl~~l~~gl~fFa~lg~va~~~Dk~sk~P~~pR~yPyd~L~~ElG 122 (125)
-++|||++.|+ |. ++ ..|.....++-...+.+|++.++|+.++.++.... .+.+|++||+||||||+.|+|
T Consensus 96 fgEPvH~d~Dm-~s-----~d-r~d~~~~~~~w~~~~~~l~~flg~~~~~~~~~~~~--~~~~P~~pKqYP~~gL~~e~g 166 (179)
T PF05821_consen 96 FGEPVHEDFDM-YS-----PD-RYDTSPTPVSWQSMLKQLFGFLGFMLFMFYLGEMY--PPYRPVMPKQYPYNGLYLELG 166 (179)
T ss_pred CCCCCcccccc-ee-----ec-ccccCCCcccHHHHHHHHHHHHHHHHHHHHHhhhc--cCCCCCCcccCCCCCeecccC
Confidence 34678877775 33 21 12222223344567788888888887776665542 678999999999999999999
Q ss_pred CCC
Q 033216 123 GEP 125 (125)
Q Consensus 123 g~~ 125 (125)
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T Consensus 167 gdp 169 (179)
T PF05821_consen 167 GDP 169 (179)
T ss_pred CCC
Confidence 975
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6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This family consists of several eukaryotic NADH-ubiquinone oxidoreductase ASHI subunit (CI-ASHI) proteins. NADH:ubiquinone oxidoreductase (complex I) is an extremely complicated multiprotein complex located in the inner mitochondrial membrane. Its 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. Human complex I appears to consist of 41 subunits [].; GO: 0003954 NADH dehydrogenase activity, 0008137 NADH dehydrogenase (ubiquinone) activity, 0005739 mitochondrion |
| >KOG4040 consensus NADH:ubiquinone oxidoreductase, NDUFB8/ASHI subunit [Energy production and conversion] | Back alignment and domain information |
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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
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 125 | |||
| 1vt4_I | 1221 | APAF-1 related killer DARK; drosophila apoptosome, | 8e-04 |
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
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Score = 37.1 bits (85), Expect = 8e-04
Identities = 19/120 (15%), Positives = 37/120 (30%), Gaps = 20/120 (16%)
Query: 5 LSNVASQIMGGNGVVGRSVASSLRLRSGMGLPVGKHIVPNKP----LSVNDELVWDNGT- 59
L + QI N +S+++LR + ++ +KP L V V +
Sbjct: 202 LQKLLYQIDP-NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN-VQNAKAW 259
Query: 60 -PFPEPC-----------IDRIADTVGKYEALGWLLGGLGFFASLGALAVW-NDKASKIP 106
F C D ++ + +L L L + + + +P
Sbjct: 260 NAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319
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Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
No hit with probability above 80.00
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