ViewGene

Locus Name:
GeneID:
Location:

GeneID:1564
TrivialName: PA14_01290
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_01290
PAO1 Ortholog Locus:PA0105
Sequence Length:1125
Protein Length:374
Start: 125293
Stop: 126417
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03495.1|AE004449_4 (AE004449) cytochrome c oxidase, subunit II [Pseudomonas aeruginosa PAO1]
Identities = 374/374 (100%), Positives = 374/374 (100%)
Sequence:
ATGCTGCGACATCCACGAGTCTGGATGGGCTTCCTTTTGCTCTCGGCGATCAGCCAGGCGAATGCCGCCTGG
ACGGTCAACATGGCCCCGGGCGCTACCGAGGTGAGCCGGTCCGTCTTCGACCTGCACATGACCATCTTCTGG
ATCTGCGTGGTGATCGGCGTGCTGGTCTTCGGCGCGATGTTCTGGTCGATGATCGTCCACCGCCGCTCCACC
GGCCAGCAGCCGGCGCATTTCCACGAGAGCACCACGGTGGAAATCCTCTGGACGGTGGTGCCGTTCGTGATC
CTGGTGGTGATGGCGGTGCCCGCCACCCGCACCCTGATCCACATCTACGACACTTCCGAGCCGGAGCTGGAC
GTGCAGGTCACCGGCTACCAGTGGAAGTGGCAGTACAAGTACCTGGGCCAGGACGTCGAGTACTTCAGCAAC
CTGGCCACCCCGCAGGACCAGATCCACAACCGGCAGGCGAAGGACGAGCATTACCTGCTGGAGGTGGACGAG
CCGCTGGTGCTGCCGGTGGGCACCAAGGTGCGCTTCCTGATCACCTCCAGCGACGTGATCCATTCCTGGTGG
GTGCCGGCCTTCGCGGTCAAGCGCGACGCCATCCCCGGCTTCGTCAACGAGGCCTGGACCAAGGTCGACGAG
CCCGGCATCTACCGCGGCCAGTGCGCCGAGCTGTGCGGCAAGGACCACGGCTTCATGCCGATCGTGGTCGAC
GTCAAGCCCAAGGCCGAGTTCGACCAGTGGCTGGCCAAGCGCAAGGAAGAGGCGGCGAAAGTCAAGGAACTG
ACCAGCAAGGAGTGGACCAAGGAAGAACTGGTCGCGCGCGGCGACAAGGTCTACCACACCATCTGCGCCGCC
TGCCACCAGGCCGAAGGCCAGGGCATGCCGCCGATGTTCCCGGCGCTGAAGGGCTCGAAGATCGTCACCGGG
CCCAAGGAGCACCACCTGGAAGTGGTCTTCAACGGCGTGCCCGGCACCGCCATGGCGGCCTTCGGCAAGCAG
CTCAACGAGGTCGACCTGGCCGCGGTGATCACCTACGAGCGCAACGCCTGGGGCAACGACGATGGCGACATG
GTCACCCCGAAAGACGTCGTCGCCTACAAGCAGAAACAACAATAG
Translation:
MLRHPRVWMGFLLLSAISQANAAWTVNMAPGATEVSRSVFDLHMTIFWICVVIGVLVFGAMFWSMIVHRRST
GQQPAHFHESTTVEILWTVVPFVILVVMAVPATRTLIHIYDTSEPELDVQVTGYQWKWQYKYLGQDVEYFSN
LATPQDQIHNRQAKDEHYLLEVDEPLVLPVGTKVRFLITSSDVIHSWWVPAFAVKRDAIPGFVNEAWTKVDE
PGIYRGQCAELCGKDHGFMPIVVDVKPKAEFDQWLAKRKEEAAKVKELTSKEWTKEELVARGDKVYHTICAA
CHQAEGQGMPPMFPALKGSKIVTGPKEHHLEVVFNGVPGTAMAAFGKQLNEVDLAAVITYERNAWGNDDGDM
VTPKDVVAYKQKQQ*
AnnotationID:1573GeneID:1564
AnnotatorUID: diggins
Modification Date/Time: 2005-03-22 18:06:09
Gene Name:coxB
Confidence Code:2
GeneProduct:cytochrome c oxidase, subunit II
Cell Localization:()
Synonyms:coxII, ctaC
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(12) Energy metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1622,pfam00116
Secondary Functional Category(ies):
EC Number:1.9.3.1
Status:ACTIVE
Pathway:
Homology:
>gb|AAN65737.1|AE016200_1 (AE016774) cytochrome c oxidase, subunit II [Pseudomonas putida
           KT2440]
          Length = 375

 Score =  657 bits (1696), Expect = 0.0
 Identities = 301/373 (80%), Positives = 338/373 (90%)

>gb|AAN57566.1|AE015892_6 (AE015892) cytochrome c oxidase, subunit II [Shewanella oneidensis
           MR-1]
          Length = 513

 Score =  446 bits (1146), Expect = e-124
 Identities = 214/369 (57%), Positives = 270/369 (73%), Gaps = 6/369 (1%)

>dbj|BAC61879.1| (AP005085) cytochrome c oxidase, subunit II [Vibrio
           parahaemolyticus]
          Length = 387

 Score =  440 bits (1131), Expect = e-123
 Identities = 202/352 (57%), Positives = 263/352 (74%), Gaps = 4/352 (1%)
Structural Features:
COG1622, CyoA, Heme/copper-type cytochrome/quinol oxidases, subunit 2 
[Energy production and conversion]
CD-Length = 247 residues,  92.7% aligned
Score =  216 bits (551), Expect = 3e-57
Identities = 88/256 (34%), Positives = 124/256 (48%), Gaps = 30/256 (11%)

pfam00116, COX2, Cytochrome C oxidase subunit II, periplasmic domain.
CD-Length = 132 residues,  99.2% aligned
Score =  144 bits (365), Expect = 2e-35
Identities = 55/135 (40%), Positives = 85/135 (62%), Gaps = 4/135 (2%)

Genomic Context:
Comment:
ReferenceID:3131
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:20278
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:33485
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:1564_cdd.html
URL:
ReferenceID:35506
Author/Investigator(s): Schmetterer G, Valladares A, Pils D, Steinbach S, Pacher M, Muro-Pastor AM, Flores E, Herrero A.
Title: The coxBAC operon encodes a cytochrome c oxidase required for heterotrophic growth in the cyanobacterium Anabaena variabilis strain ATCC 29413.
PubMed: 11591688
MedLine:
Source:
J Bacteriol. 2001 Nov;183(21):6429-34.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11591688
ReferenceID:35509
Author/Investigator(s): Santiago B, Schubel U, Egelseer C, Meyer O.
Title: Sequence analysis, characterization and CO-specific transcription of the cox gene cluster on the megaplasmid pHCG3 of Oligotropha carboxidovorans.
PubMed: 10433972
MedLine:
Source:
Gene. 1999 Aug 5;236(1):115-24.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=10433972
ReferenceID:35510
Author/Investigator(s): Alge D, Peschek GA.
Title: Identification and characterization of the ctaC (coxB) gene as part of an operon encoding subunits I, II, and III of the cytochrome c oxidase (cytochrome aa3) in the cyanobacterium Synechocystis PCC 6803.
PubMed: 8383492
MedLine:
Source:
Biochem Biophys Res Commun. 1993 Feb 26;191(1):9-17.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8383492
Homologs By Global Alignment
Gene ID:1564

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
2779 PA0105_tr translation of PA0105 374 99.99 99.99 0 2004.0
87165 gb|AAG03495.1|AE004449_4 (AE004449) cytochrome c oxidase, subunit II [Pseudomonas aeruginosa PAO1] 374 99.99 99.99 0 2004.0
87166 gb|AAN65737.1|AE016200_1 (AE016774) cytochrome c oxidase, subunit II [Pseudomonas putida KT2440] 375 80.26 90.13 1 1695.0
87168 dbj|BAC61879.1| (AP005085) cytochrome c oxidase, subunit II [Vibrio parahaemolyticus] 393 52.67 69.46 25 1130.0
87169 gb|AAO07514.1|AE016810_17 (AE016810) Cytochrome c, mono- and diheme variants [Vibrio vulnificus CMCP6] 386 52.07 71.24 20 1124.0
GC ORFID: 44566How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA0105Glimmer Score:
Start: 5926632Stop: 5927756
Length: 1125
Start Codon: ATGTruncated Start:
Stop Codon: TAGTruncated Stop:
Homolog: t_PA0105 translation of PA0105Homolog Bit Score 776.0
Other Homologs: t_PA0105 (ORF: GLIMMER)
GC ORF Sequence
ATGCTGCGACATCCACGAGTCTGGATGGGCTTCCTTTTGCTCTCGGCGATCAGCCAGGCGAATGCCGCCTGG
ACGGTCAACATGGCCCCGGGCGCTACCGAGGTGAGCCGGTCCGTCTTCGACCTGCACATGACCATCTTCTGG
ATCTGCGTGGTGATCGGCGTGCTGGTCTTCGGCGCGATGTTCTGGTCGATGATCGTCCACCGCCGCTCCACC
GGCCAGCAGCCGGCGCATTTCCACGAGAGCACCACGGTGGAAATCCTCTGGACGGTGGTGCCGTTCGTGATC
CTGGTGGTGATGGCGGTGCCCGCCACCCGCACCCTGATCCACATCTACGACACTTCCGAGCCGGAGCTGGAC
GTGCAGGTCACCGGCTACCAGTGGAAGTGGCAGTACAAGTACCTGGGCCAGGACGTCGAGTACTTCAGCAAC
CTGGCCACCCCGCAGGACCAGATCCACAACCGGCAGGCGAAGGACGAGCATTACCTGCTGGAGGTGGACGAG
CCGCTGGTGCTGCCGGTGGGCACCAAGGTGCGCTTCCTGATCACCTCCAGCGACGTGATCCATTCCTGGTGG
GTGCCGGCCTTCGCGGTCAAGCGCGACGCCATCCCCGGCTTCGTCAACGAGGCCTGGACCAAGGTCGACGAG
CCCGGCATCTACCGCGGCCAGTGCGCCGAGCTGTGCGGCAAGGACCACGGCTTCATGCCGATCGTGGTCGAC
GTCAAGCCCAAGGCCGAGTTCGACCAGTGGCTGGCCAAGCGCAAGGAAGAGGCGGCGAAAGTCAAGGAACTG
ACCAGCAAGGAGTGGACCAAGGAAGAACTGGTCGCGCGCGGCGACAAGGTCTACCACACCATCTGCGCCGCC
TGCCACCAGGCCGAAGGCCAGGGCATGCCGCCGATGTTCCCGGCGCTGAAGGGCTCGAAGATCGTCACCGGG
CCCAAGGAGCACCACCTGGAAGTGGTCTTCAACGGCGTGCCCGGCACCGCCATGGCGGCCTTCGGCAAGCAG
CTCAACGAGGTCGACCTGGCCGCGGTGATCACCTACGAGCGCAACGCCTGGGGCAACGACGATGGCGACATG
GTCACCCCGAAAGACGTCGTCGCCTACAAGCAGAAACAACAATAG