ViewGene

Locus Name:
GeneID:
Location:

GeneID: 5935

TrivialName: PA14_35950

AnnotatorUID:

Modification Date/Time: 2006-04-06 13:01:23

LocusName: PA14_35950

PAO1 Ortholog Locus:

Sequence Length: 768

Protein Length: 255

Start: 3200932

Stop: 3200165

Strand: -

Type:

ChromosomeID: 2

Status: ACTIVE

Frame Discrepancy: FALSE

Missense Discrepancy: FALSE

Comments:
Homology: gb|AAK01499.1| (AF241171) 2-deoxy-D-gluconate 3-dehydrogenase [Pseudomonas aeruginosa] Identities = 252/255 (98%), Positives = 253/255 (99%)

Sequence:

ATGCAACCGAACCTTGCCCGACTGTTCGCCCTCGACGGGCGCCGCGCCCTGGTGACCGGCGCCTCAAGCGGc
ctTGGCCGCCACTTCGCCATGACCCTGGCCGCCGCAGGCGTCGAGGTGGTGGTGACCGCCAGGCGCCAGGCG
CCACTGCAGGCGCTGGTGGAGGCCATCGAGGTGGCGGGAGGGCGGGCGCAGGCCTTTGCCCTCGATGTGACC
TGCCGTGAGGATATCTGCCGGGTGCTCGATGCCGCCGGCCCGCTGGATGTGCTGGTCAACAATGCGGGGGTG
AGCGACAGCCAGCCCTTGCTGGCCTGCGACGATCAAAGCTGGGACCGCGTGCTCGACACCAACCTCAAGGGC
GCCTGGGCGGTGGCCCAGGAAAGTGCCCGGCGCATGGTCGCGGCGGGGAAGGGCGGCAGCCTGATCAATGTC
ACTTCGATCCTCGCCAGCCGTGTGGCCGGTGCCGTCGGCCCTTACCTGGCGGCCAAGGCCGGCCTGGCCCAC
CTGACCCGCGCCATGGCGCTGGAGTTGGCGCGCTATGGCATCCGGGTGAATGCCCTGGCGCCCGGCTACGTG
ATGACCGACCTGAACGAGGCCTTCCTGGCCAGCGAGGCCGGCGACAAGTTGCGCTCGCGTATCCCCAGCCGC
CGCTTCAGCGTGCCGGCGGACCTGGACGGCGCCTTGCTGCTGCTCGCCAGCGATGCCGGGCGGGCCATGAGC
GGCGCCGAGATCGTGGTCGATGGCGGCCACCTGTGCAGCAGCCTGTAA

Translation:

MQPNLARLFALDGRRALVTGASSGLGRHFAMTLAAAGVEVVVTARRQAPLQALVEAIEVAGGRAQAFALDVT
CREDICRVLDAAGPLDVLVNNAGVSDSQPLLACDDQSWDRVLDTNLKGAWAVAQESARRMVAAGKGGSLINV
TSILASRVAGAVGPYLAAKAGLAHLTRAMALELARYGIRVNALAPGYVMTDLNEAFLASEAGDKLRSRIPSR
RFSVPADLDGALLLLASDAGRAMSGAEIVVDGGHLCSSL*

AnnotationID:5936 GeneID:5935

AnnotatorUID: danlee

Modification Date/Time: 2005-10-11 16:04:33

Gene Name: PAGI-1(9)

Confidence Code: 3

GeneProduct: Putative Dehydrogenase

Cell Localization: ()

Synonyms:

Cell Localization Confidence Code: 5

MolecularFunction:

Functional Category: (20) Putative enzymes

Alternate Gene Product Name:

Functional Category Confidence Code: 5

COGs:

Secondary Functional Category(ies):

EC Number:

Status: ACTIVE

Pathway:

Homology:

gi|12698385|gb|AAK01499.1|  2-deoxy-D-gluconate 3-dehydrogenase [Pseudomonas aeruginosa]
     Length=255
     Score =  484 bits (1245),  Expect = 1e-135
     Identities = 252/255 (98%), Positives = 253/255 (99%), Gaps = 0/255 (0%)

gi|24984385|gb|AAN68402.1|  oxidoreductase, short chain dehydrogenase/reductase family [Pseudomonas putida KT2440]
     Length=255
     Score =  476 bits (1224),  Expect = 4e-133
     Identities = 248/255 (97%), Positives = 251/255 (98%), Gaps = 0/255 (0%)

Structural Features:

pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.
             CD-Length = 247 residues,  84.2% aligned
             Score =  155 bits (392), Expect = 7e-39

COG1028, FabG, Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases).
             CD-Length = 251 residues,  87.6% aligned
             Score =  133 bits (334), Expect = 3e-32

Genomic Context:

Predicted gene #X of the PAGI-1 island absent in PAO1 but present in a majority of pathogenic P. aeruginosa isolates.   
The PA14 island at this locus, from PA14_35860 to PA14_36030, corresponds to PAGI-1 genes 17 through 2, respectively.

Comment:

The first half of the PA14 island (from PA14_35700 through PA14_35850) diverges from PAGI-1 such that 
genes 18 through 51 are absent.  PA14 has 31 ORFs in 35368 bp (from PA14_35700 to PA14_36030), 
whereas PAGI-1 contains 51 ORFs in 51300 bp.

ReferenceID:11774

Author/Investigator(s): GenNotator

Title:

PubMed:

MedLine:

Source:

Reference Type: BLASTP

Data:

URL:

ReferenceID:28990

Author/Investigator(s): GenNotator

Title: CDD Search

PubMed:

MedLine:

Source:

Reference Type: RPSBLAST

Data:

URL:

ReferenceID:38200

Author/Investigator(s): Liang X, Pham XQ, Olson MV, Lory S.

Title: Identification of a genomic island present in the majority of pathogenic isolates of Pseudomonas aeruginosa.

PubMed: 11208781

MedLine:

Source:

J Bacteriol. 2001 Feb;183(3):843-53.

Reference Type: Journal

Data:

URL:

Homologs By Global Alignment

Gene ID:5935

Identity:

10%

20%

30%

40%

50%

60%

70%

80%

90%

100%

HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score

197948 gb|AAK01499.1| (AF241171) 2-deoxy-D-gluconate 3-dehydrogenase [Pseudomonas aeruginosa] 255 98.82 99.21 0 1245.0

197949 gb|AAN68402.1|AE016472_9 (AE016784) oxidoreductase, short chain dehydrogenase/reductase family [Pseudomonas putida KT2440] 255 97.25 98.43 0 1224.0

197950 emb|CAE27125.1| (BX572598) putative 3-ketoacyl-acyl carrier protein reductase [Rhodopseudomonas palustris CGA009] 259 47.49 62.54 10 565.0

197952 dbj|BAB53276.1| (AP003011) probable dehydrogenase [Mesorhizobium loti] 260 46.53 60.38 8 532.0

197951 dbj|BAC53151.1| (AP005963) bll7886 [Bradyrhizobium japonicum USDA 110] 259 46.33 62.93 10 562.0

GC ORFID: `48937`	How Found: `Glimmer`
GC_TrimmedSeqID: `69`	Blast Result ID
Subject Sequence Name:	Glimmer Score:
Start: `1752984`	Stop: `1753751`
Length: `768`
Start Codon: `ATG`	Truncated Start:
Stop Codon: `TAA`	Truncated Stop:
Homolog:	Homolog Bit Score
Other Homologs:
GC ORF Sequence
ATGCAACCGAACCTTGCCCGACTGTTCGCCCTCGACGGGCGCCGCGCCCTGGTGACCGGCGCCTCAAGCGGc ctTGGCCGCCACTTCGCCATGACCCTGGCCGCCGCAGGCGTCGAGGTGGTGGTGACCGCCAGGCGCCAGGCG CCACTGCAGGCGCTGGTGGAGGCCATCGAGGTGGCGGGAGGGCGGGCGCAGGCCTTTGCCCTCGATGTGACC TGCCGTGAGGATATCTGCCGGGTGCTCGATGCCGCCGGCCCGCTGGATGTGCTGGTCAACAATGCGGGGGTG AGCGACAGCCAGCCCTTGCTGGCCTGCGACGATCAAAGCTGGGACCGCGTGCTCGACACCAACCTCAAGGGC GCCTGGGCGGTGGCCCAGGAAAGTGCCCGGCGCATGGTCGCGGCGGGGAAGGGCGGCAGCCTGATCAATGTC ACTTCGATCCTCGCCAGCCGTGTGGCCGGTGCCGTCGGCCCTTACCTGGCGGCCAAGGCCGGCCTGGCCCAC CTGACCCGCGCCATGGCGCTGGAGTTGGCGCGCTATGGCATCCGGGTGAATGCCCTGGCGCCCGGCTACGTG ATGACCGACCTGAACGAGGCCTTCCTGGCCAGCGAGGCCGGCGACAAGTTGCGCTCGCGTATCCCCAGCCGC CGCTTCAGCGTGCCGGCGGACCTGGACGGCGCCTTGCTGCTGCTCGCCAGCGATGCCGGGCGGGCCATGAGC GGCGCCGAGATCGTGGTCGATGGCGGCCACCTGTGCAGCAGCCTGTAA