ViewGene

Locus Name:
GeneID:
Location:

GeneID:1543
TrivialName: PA14_02790
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_02790
PAO1 Ortholog Locus:PA0228
Sequence Length:1206
Protein Length:401
Start: 247259
Stop: 248464
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03617.1|AE004460_10 (AE004460) beta-ketoadipyl CoA thiolase PcaF [Pseudomonas aeruginosa PAO1]
Identities = 399/401 (99%), Positives = 400/401 (99%)
Sequence:
ATGAGCCGCGAGGTATTCATCTGCGATGCCGTGCGCACGCCGATCGGCCGTTTCGGCGGCAGTCTTTCCGCG
GTGCGCGCCGACGACCTCGCGGCGGTGCCGCTGAAGGCCCTGGTCGAGCGCAACCCGGGGGTCGACTGGTCG
GCGCTGGACGAGGTGTTCCTCGGCTGCGCCAACCAGGCCGGCGAGGACAACCGTAACGTGGCGCGCATGGCG
CTGCTGCTGGCCGGTTTGCCGGAGAGCGTGCCCGGCGTCACCCTCAACCGCCTCTGCGCCTCGGGGATGGAC
GCCATCGGCACGGCGTTCCGCGCCATCGCCTGCGGCGAGATGGAGCTGGCCATCGCCGGCGGCGTCGAGTCG
ATGTCGCGCGCGCCGTACGTGATGGGCAAGGCCGATAGCGCCTTCGGGCGCGGCCAGAAGATCGAGGACACC
ACCATCGGCTGGCGCTTCGTCAACCCGCTGATGAAGGAGCAGTACGGCATCGACCCGATGCCGCAGACCGCC
GACAACGTCGCCGACGACTATCGCGTGTCGCGTGCCGACCAGGATGCCTTCGCCCTGCGCAGCCAGCAGCGC
GCCGGCAGGGCGCAGGCGGCCGGTTTCTTCGCCGAGGAAATCGTCCCGGTGACGATTCGCGGGCGCAAGGGC
GACACCCTGGTCGAGTACGACGAGCATCCGCGTCCCGACACCACCCTGGAGGCGCTGGCCCGGCTCAAGCCG
GTCAACGGGCCGGAGAAGACCGTCACCGCCGGCAACGCGTCCGGGGTCAACGACGGCGCCGCCGCGCTGGTC
CTGGCCTCCGCCGAGGCAGTGGAGAAGCACGGCCTGACTCCGCGCGCGCGGGTGCTGGGCATGGCCAGCGCC
GGCGTCGCCCCACGGATCATGGGCATCGGCCCGGTGCCGGCGGTGCGCAAGCTGCTGCGGCGCCTGGACCTG
GCGATCGACGCCTTCGACGTGATCGAACTCAACGAAGCCTTCGCCAGCCAGGGCCTGGCCTGCCTGCGCGAA
CTGGGCGTGGCCGACGACAGTGAGAAGGTCAACCCGAACGGCGGTGCCATCGCCCTCGGCCACCCGCTGGGG
ATGAGCGGTGCGCGGCTGGTCCTCACCGCGCTCCATCAACTTGAGAAGAGCGGCGGCCGGCGCGGCCTGGCG
ACCATGTGCGTAGGCGTCGGCCAAGGCCTGGCGCTGGCCATCGAGCGGGTCTGA
Translation:
MSREVFICDAVRTPIGRFGGSLSAVRADDLAAVPLKALVERNPGVDWSALDEVFLGCANQAGEDNRNVARMA
LLLAGLPESVPGVTLNRLCASGMDAIGTAFRAIACGEMELAIAGGVESMSRAPYVMGKADSAFGRGQKIEDT
TIGWRFVNPLMKEQYGIDPMPQTADNVADDYRVSRADQDAFALRSQQRAGRAQAAGFFAEEIVPVTIRGRKG
DTLVEYDEHPRPDTTLEALARLKPVNGPEKTVTAGNASGVNDGAAALVLASAEAVEKHGLTPRARVLGMASA
GVAPRIMGIGPVPAVRKLLRRLDLAIDAFDVIELNEAFASQGLACLRELGVADDSEKVNPNGGAIALGHPLG
MSGARLVLTALHQLEKSGGRRGLATMCVGVGQGLALAIERV*
AnnotationID:1552GeneID:1543
AnnotatorUID: diggins
Modification Date/Time: 2005-03-23 13:01:28
Gene Name:pcaF
Confidence Code:2
GeneProduct: beta-ketoadipyl CoA thiolase PcaF
Cell Localization:()
Synonyms:catF
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(5) Carbon compound catabolism
Alternate Gene Product Name:3-oxoadipyl-CoA thiolase
Functional Category Confidence Code:5
COGs:COG0183,pfam00108,pfam02803
Secondary Functional Category(ies):fatty acid and phospholipid metabolism
EC Number:2.3.1.-
Status:ACTIVE
Pathway:
Homology:
>gb|AAL02407.1| (AY044272) 3-oxoadipyl-CoA thiolase [Pseudomonas sp. B13]
          Length = 401

 Score =  692 bits (1787), Expect = 0.0
 Identities = 345/401 (86%), Positives = 378/401 (94%)

>gb|AAN67000.1|AE016328_5 (AE016779) beta-ketoadipyl CoA thiolase PcaF [Pseudomonas putida
           KT2440]
          Length = 400

 Score =  677 bits (1748), Expect = 0.0
 Identities = 336/398 (84%), Positives = 369/398 (92%)

>gb|AAG12159.1| (AY007371) beta-ketoadipyl CoA thiolase [Burkholderia pseudomallei]
          Length = 400

 Score =  572 bits (1474), Expect = e-162
 Identities = 292/399 (73%), Positives = 334/399 (83%), Gaps = 2/399 (0%)

Structural Features:
COG0183, PaaJ, Acetyl-CoA acetyltransferase [Lipid metabolism]
CD-Length = 392 residues, 100.0% aligned
Score =  331 bits (849), Expect = 1e-91
Identities = 176/411 (42%), Positives = 228/411 (55%), Gaps = 30/411 (7%)

pfam00108, Thiolase_N, Thiolase, N-terminal domain. 
CD-Length = 264 residues,  99.6% aligned
Score =  254 bits (651), Expect = 1e-68
Identities = 131/269 (48%), Positives = 176/269 (65%), Gaps = 8/269 (2%)

pfam02803, Thiolase_C, Thiolase, C-terminal domain. 
CD-Length = 123 residues, 100.0% aligned
Score =  150 bits (381), Expect = 3e-37
Identities = 70/125 (56%), Positives = 92/125 (73%), Gaps = 2/125 (1%)
Genomic Context:
Comment:
ReferenceID:3089
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:20235
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:33588
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:1543_cdd.html
URL:
ReferenceID:35454
Author/Investigator(s): Harwood CS, Nichols NN, Kim MK, Ditty JL, Parales RE.
Title: Identification of the pcaRKF gene cluster from Pseudomonas putida: involvement in chemotaxis, biodegradation, and transport of 4-hydroxybenzoate.
PubMed: 7961399
MedLine:
Source:
J Bacteriol. 1994 Nov;176(21):6479-88.
Reference Type:Journal
Data:
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=7961399
ReferenceID:35455
Author/Investigator(s): Eulberg D, Lakner S, Golovleva LA, Schlomann M.
Title: Characterization of a protocatechuate catabolic gene cluster from Rhodococcus opacus 1CP: evidence for a merged enzyme with 4-carboxymuconolactone-decarboxylating and 3-oxoadipate enol-lactone-hydrolyzing activity.
PubMed: 9495744
MedLine:
Source:
J Bacteriol. 1998 Mar;180(5):1072-81.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9495744
ReferenceID:35459
Author/Investigator(s): Klotz MG, Kim YC, Katsuwon J, Anderson AJ.
Title: Cloning, characterization and phenotypic expression in Escherichia coli of catF, which encodes the catalytic subunit of catalase isozyme CatF of Pseudomonas syringae.
PubMed: 7546603
MedLine:
Source:
Appl Microbiol Biotechnol. 1995 Aug-Sep;43(4):656-66.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=7546603
Homologs By Global Alignment
Gene ID:1543

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
2734 PA0228_tr translation of PA0228 401 99.50 99.75 0 2015.0
85790 gb|AAG03617.1|AE004460_10 (AE004460) beta-ketoadipyl CoA thiolase PcaF [Pseudomonas aeruginosa PAO1] 401 99.50 99.75 0 2015.0
85791 gb|AAL02407.1| (AY044272) 3-oxoadipyl-CoA thiolase [Pseudomonas sp. B13] 401 86.03 94.26 0 1787.0
85792 gb|AAA85138.1| (U10895) PcaF [Pseudomonas putida] 401 84.53 92.01 1 1752.0
85793 gb|AAN67000.1|AE016328_5 (AE016779) beta-ketoadipyl CoA thiolase PcaF [Pseudomonas putida KT2440] 401 83.79 92.01 1 1747.0
GC ORFID: 44545How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA0228Glimmer Score:
Start: 6048600Stop: 6049805
Length: 1206
Start Codon: ATGTruncated Start:
Stop Codon: TGATruncated Stop:
Homolog: t_PA0228 translation of PA0228Homolog Bit Score 780.0
Other Homologs: psyr_15may02_Scaffold5_revised_gene6193 (ORF: BLASTX 666.0), t_PA3589 (ORF: BLASTX 403.0), t_PA2001 (ORF: BLASTX 317.0), psyr_15may02_Scaffold15_revised_gene2524 (ORF: BLASTX 316.0), psyr_15may02_Scaffold9_revised_gene8045 (ORF: BLASTX 279.0), t_PA2940 (ORF: BLASTX 273.0), t_PA3454 (ORF: BLASTX 272.0), t_PA3925 (ORF: BLASTX 270.0), t_PA1736 (ORF: BLASTX 263.0), t_PA2553 (ORF: BLASTX 260.0), t_PA0228 (ORF: GLIMMER)
GC ORF Sequence
ATGAGCCGCGAGGTATTCATCTGCGATGCCGTGCGCACGCCGATCGGCCGTTTCGGCGGCAGTCTTTCCGCG
GTGCGCGCCGACGACCTCGCGGCGGTGCCGCTGAAGGCCCTGGTCGAGCGCAACCCGGGGGTCGACTGGTCG
GCGCTGGACGAGGTGTTCCTCGGCTGCGCCAACCAGGCCGGCGAGGACAACCGTAACGTGGCGCGCATGGCG
CTGCTGCTGGCCGGTTTGCCGGAGAGCGTGCCCGGCGTCACCCTCAACCGCCTCTGCGCCTCGGGGATGGAC
GCCATCGGCACGGCGTTCCGCGCCATCGCCTGCGGCGAGATGGAGCTGGCCATCGCCGGCGGCGTCGAGTCG
ATGTCGCGCGCGCCGTACGTGATGGGCAAGGCCGATAGCGCCTTCGGGCGCGGCCAGAAGATCGAGGACACC
ACCATCGGCTGGCGCTTCGTCAACCCGCTGATGAAGGAGCAGTACGGCATCGACCCGATGCCGCAGACCGCC
GACAACGTCGCCGACGACTATCGCGTGTCGCGTGCCGACCAGGATGCCTTCGCCCTGCGCAGCCAGCAGCGC
GCCGGCAGGGCGCAGGCGGCCGGTTTCTTCGCCGAGGAAATCGTCCCGGTGACGATTCGCGGGCGCAAGGGC
GACACCCTGGTCGAGTACGACGAGCATCCGCGTCCCGACACCACCCTGGAGGCGCTGGCCCGGCTCAAGCCG
GTCAACGGGCCGGAGAAGACCGTCACCGCCGGCAACGCGTCCGGGGTCAACGACGGCGCCGCCGCGCTGGTC
CTGGCCTCCGCCGAGGCAGTGGAGAAGCACGGCCTGACTCCGCGCGCGCGGGTGCTGGGCATGGCCAGCGCC
GGCGTCGCCCCACGGATCATGGGCATCGGCCCGGTGCCGGCGGTGCGCAAGCTGCTGCGGCGCCTGGACCTG
GCGATCGACGCCTTCGACGTGATCGAACTCAACGAAGCCTTCGCCAGCCAGGGCCTGGCCTGCCTGCGCGAA
CTGGGCGTGGCCGACGACAGTGAGAAGGTCAACCCGAACGGCGGTGCCATCGCCCTCGGCCACCCGCTGGGG
ATGAGCGGTGCGCGGCTGGTCCTCACCGCGCTCCATCAACTTGAGAAGAGCGGCGGCCGGCGCGGCCTGGCG
ACCATGTGCGTAGGCGTCGGCCAAGGCCTGGCGCTGGCCATCGAGCGGGTCTGA