ViewGene

Locus Name:
GeneID:
Location:

GeneID:2309
TrivialName: PA14_57890
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_57890
PAO1 Ortholog Locus:PA4457
Sequence Length:981
Protein Length:326
Start: 5152896
Stop: 5153876
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07845.1|AE004860_1 (AE004860) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
Identities = 325/326 (99%), Positives = 326/326 (100%)
Sequence:
TTGAACATGAGCCAGAACCTCGATTTCATCCATTCCGCCCAGCGCACCATCGGCCTCGAGCGCGACGCGGTA
GACAGCCTGCTGGCGCGGATTGGCGACGATTTCGTCAAGGCCTGCGAACTGCTGCTGGCCGGCAAGGGCCGG
GTCGTCGTCGTCGGCATGGGCAAGTCCGGTCACATCGGCAAGAAGATCGCCGCTACCCTGGCCAGCACCGGC
ACCCCCTCCTTCTTCGTGCATCCGGCCGAGGCCAGCCACGGCGACATGGGCATGATCACCAAGGACGACGTG
GTCCTCGCCCTGTCCAACTCCGGCTCGACTGCCGAAATCGTCACCCTGTTGCCTCTGATCAAGCGCCTGGGC
ATCACCCTGATCAGCATGACCGGTAACCCCGAGTCGCCCCTGGCCAAGGCTGCGGAAGTGAACCTGGACGCC
AGTGTCGGCCAGGAAGCCTGTCCACTGAACCTGGCCCCGACCTCCTCCACCACCGTAACCCTGGTCCTCGGC
GACGCCCTGGCGATCGCCCTGCTCGAAGCCCGCGGCTTTACCGCGGAAGACTTCGCCTTCTCGCACCCGGGC
GGTGCGCTGGGCCGCCGACTGCTGCTGAAGGTGGAAGACGTCATGCACGTCGGCGAAGGGCTGCCGCAGGTG
CTGCTCGGCACCTCGCTGACCGGCGCGCTGATGGAAATGACCCGCAAGGGCCTGGGCATGACCGTAGTGCTC
GACGAACATGGCAAGCTTGCCGGCATTTTCACCGATGGCGACCTGCGTCGCGCCCTGGATCGGGGCATCGAC
GTCCGCCAGGTCACCATCGACCAGGTGATGACCGTCCACGGCAAAACCGTCCGCGCCGAGATTCTCGCCGCG
GAAGCCCTGAAGATCATGGAAGACAACAAGATCGGCGCACTGGTGGTGGTCGACGCGGACGACCGTCCGGTC
GGCGCCCTGAACATGCACGACCTGTTGCGCGCAGGAGTGATGTAA
Translation:
MNMSQNLDFIHSAQRTIGLERDAVDSLLARIGDDFVKACELLLAGKGRVVVVGMGKSGHIGKKIAATLASTG
TPSFFVHPAEASHGDMGMITKDDVVLALSNSGSTAEIVTLLPLIKRLGITLISMTGNPESPLAKAAEVNLDA
SVGQEACPLNLAPTSSTTVTLVLGDALAIALLEARGFTAEDFAFSHPGGALGRRLLLKVEDVMHVGEGLPQV
LLGTSLTGALMEMTRKGLGMTVVLDEHGKLAGIFTDGDLRRALDRGIDVRQVTIDQVMTVHGKTVRAEILAA
EALKIMEDNKIGALVVVDADDRPVGALNMHDLLRAGVM*
AnnotationID:2317GeneID:2309
AnnotatorUID: diggins
Modification Date/Time: 2005-05-19 22:10:52
Gene Name:
Confidence Code:3
GeneProduct:putative sugar isomerase
Cell Localization:()
Synonyms:yrbH
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(5) Carbon compound catabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0794,pfam01380
Secondary Functional Category(ies):cell envelope biogenesis
EC Number:
Status:ACTIVE
Pathway:
Homology:
>gb|AAO57897.1| (AE016872) sugar isomerase, KpsF/GutQ [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 324

 Score =  487 bits (1253), Expect = e-137
 Identities = 246/324 (75%), Positives = 283/324 (87%)

>gb|AAO28513.1| (AE012555) polysialic acid capsule expression protein [Xylella
           fastidiosa Temecula1]
          Length = 333

 Score =  390 bits (1001), Expect = e-108
 Identities = 201/317 (63%), Positives = 245/317 (77%)

>dbj|BAB37499.1| (AP002564) putative isomerase [Escherichia coli O157:H7]
          Length = 328

 Score =  374 bits (960), Expect = e-103
 Identities = 189/326 (57%), Positives = 244/326 (74%), Gaps = 1/326 (0%)
Structural Features:
COG0794, GutQ, Predicted sugar phosphate isomerase involved 
in capsule formation 
[Cell envelope biogenesis, outer membrane]
CD-Length = 202 residues, 100.0% aligned
Score =  249 bits (636), Expect = 1e-66
Identities = 121/202 (59%), Positives = 150/202 (74%), Gaps = 1/202 (0%)

pfam01380, SIS, SIS domain. 
CD-Length = 135 residues,  98.5% aligned
Score =  105 bits (264), Expect = 1e-23
Identities = 44/133 (33%), Positives = 68/133 (51%)
Genomic Context:
Comment:
other possible gene name: kpsF
ReferenceID:14565
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:21767
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:31496
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:2309_cdd.html
URL:
ReferenceID:38149
Author/Investigator(s): Meredith TC, Woodard RW.
Title: Escherichia coli YrbH is a D-arabinose 5-phosphate isomerase.
PubMed: 12805358
MedLine:
Source:
J Biol Chem. 2003 Aug 29;278(35):32771-7. Epub 2003 Jun 12.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=12805358&query_hl=2
ReferenceID:38150
Author/Investigator(s): Tzeng YL, Datta A, Strole C, Kolli VS, Birck MR, Taylor WP, Carlson RW, Woodard RW, Stephens DS.
Title: KpsF is the arabinose-5-phosphate isomerase required for 3-deoxy-D-manno-octulosonic acid biosynthesis and for both lipooligosaccharide assembly and capsular polysaccharide expression in Neisseria meningitidis.
PubMed: 11956197
MedLine:
Source:
J Biol Chem. 2002 Jul 5;277(27):24103-13. Epub 2002 Apr 15.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11956197&query_hl=4
Homologs By Global Alignment
Gene ID:2309

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
3934 PA4457_tr translation of PA4457 326 99.69 99.99 0 1612.0
119915 gb|AAG07845.1|AE004860_1 (AE004860) conserved hypothetical protein [Pseudomonas aeruginosa PAO1] 326 99.38 99.99 0 1610.0
119916 gb|AAN66582.1|AE016286_6 (AE016777) KpsF/GutQ family protein [Pseudomonas putida KT2440] 326 81.28 89.26 2 1322.0
119917 emb|CAD43107.1| (AJ496594) hypothetical protein [Pseudomonas stutzeri] 326 79.44 88.03 2 1274.0
119918 gb|AAO57897.1| (AE016872) sugar isomerase, KpsF/GutQ [Pseudomonas syringae pv. tomato str. DC3000] 326 75.46 86.80 2 1253.0
GC ORFID: 45311How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA4457Glimmer Score:
Start: 4416575Stop: 4417555
Length: 981
Start Codon: TTGTruncated Start:
Stop Codon: TAATruncated Stop:
Homolog: t_PA4457 translation of PA4457Homolog Bit Score 625.0
Other Homologs: psyr_15may02_Scaffold4_revised_gene5542 (ORF: BLASTX 487.0), t_PA4457 (ORF: GLIMMER)
GC ORF Sequence
TTGAACATGAGCCAGAACCTCGATTTCATCCATTCCGCCCAGCGCACCATCGGCCTCGAGCGCGACGCGGTA
GACAGCCTGCTGGCGCGGATTGGCGACGATTTCGTCAAGGCCTGCGAACTGCTGCTGGCCGGCAAGGGCCGG
GTCGTCGTCGTCGGCATGGGCAAGTCCGGTCACATCGGCAAGAAGATCGCCGCTACCCTGGCCAGCACCGGC
ACCCCCTCCTTCTTCGTGCATCCGGCCGAGGCCAGCCACGGCGACATGGGCATGATCACCAAGGACGACGTG
GTCCTCGCCCTGTCCAACTCCGGCTCGACTGCCGAAATCGTCACCCTGTTGCCTCTGATCAAGCGCCTGGGC
ATCACCCTGATCAGCATGACCGGTAACCCCGAGTCGCCCCTGGCCAAGGCTGCGGAAGTGAACCTGGACGCC
AGTGTCGGCCAGGAAGCCTGTCCACTGAACCTGGCCCCGACCTCCTCCACCACCGTAACCCTGGTCCTCGGC
GACGCCCTGGCGATCGCCCTGCTCGAAGCCCGCGGCTTTACCGCGGAAGACTTCGCCTTCTCGCACCCGGGC
GGTGCGCTGGGCCGCCGACTGCTGCTGAAGGTGGAAGACGTCATGCACGTCGGCGAAGGGCTGCCGCAGGTG
CTGCTCGGCACCTCGCTGACCGGCGCGCTGATGGAAATGACCCGCAAGGGCCTGGGCATGACCGTAGTGCTC
GACGAACATGGCAAGCTTGCCGGCATTTTCACCGATGGCGACCTGCGTCGCGCCCTGGATCGGGGCATCGAC
GTCCGCCAGGTCACCATCGACCAGGTGATGACCGTCCACGGCAAAACCGTCCGCGCCGAGATTCTCGCCGCG
GAAGCCCTGAAGATCATGGAAGACAACAAGATCGGCGCACTGGTGGTGGTCGACGCGGACGACCGTCCGGTC
GGCGCCCTGAACATGCACGACCTGTTGCGCGCAGGAGTGATGTAA