ViewGene

Locus Name:
GeneID:
Location:

GeneID:185
TrivialName: PA14_40120
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_40120
PAO1 Ortholog Locus:PA1886
Sequence Length:2364
Protein Length:787
Start: 3577506
Stop: 3575143
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05275.1|AE004614_9 (AE004614) DNA polymerase II [Pseudomonas aeruginosa PAO1]
Identities = 783/787 (99%), Positives = 785/787 (99%)
Sequence:
GTGGAGTTACTGCAAGGGTTCGTCCTGACCCGGCACTGGCGCGATACGCCGGCCGGCACGGAAGTCGCGTTC
TGGCTGGCGACCGAGCAGGGCCCGCGGCAGGTGCGGCTGCCGCCGCAGCCGTCGGTGGCGTTCGTCCTCGCC
GAGCAGCGCGGGCGCGTCGAGTCCCTGCTCGCCGGGGAGACTGGCGCCGAGCTGCGGCCGCTGGCGCTGCGC
GACTTCCAGCAGCGGCCGGTGCTCGGCCTGTACTGCCAGCAGCATCGCCAACTGATGAATCTGGAGAAACGC
TTGCGCCAGGCCGGCGTCGAGGTGTTCGAGGCCGATATCCGGCCGCCGGAGCGCTACCTGATGGAGCGCTTC
ATCACCGCGCCGGTCAGCCTGGAGGCGAGTGTCGAGGCTGACGGCAGCCTGCTCGCCCGGCGCCTGAAGCCG
GCTCCGGACTATCGCCCGCGCCTGCGCCTGGTGTCGCTGGACATCGAGACCAACGCCCGCGGCGATCTCTAC
TCCATCGCCCTGGAAGGCTGCGGCCAGCGCCAGGTATACATGCTCGGCCCGGCCAACGGCGATGCCGCGGCC
GTGGATTTCTGCCTCGACTATTGCGACAGCCGTGCCGGGCTGCTGGAACGTCTCAACCAGTGGCTGGCCGAG
CACGATCCCGACGCCATCATCGGCTGGAACCTGGTGCAGTTCGACCTGCGCGTCCTGCATGAGCATGCCCAG
CGCCTGAAGGTGCCGCTGCGCCTGGGGCGTGGCGGCGACGAAATGGGCTGGCGCGAGCACGGCAGCCGCAAC
AACCACTTTTTCGCCGCGGCGGCCGGCCGCCTGATCATCGATGGCATCGAGGCGCTGCGCTCGGCGACCTGG
AGTTTCCCCTCGTTCAGCCTGGAGAACGTCGCCCGGACCCTGCTCGGCGAAGGCAAGGCGATCGACAATCCA
TACCAGCGGATGGACGAGATCGATCGCATGTTCGCCGAGGACAAGCCGGCCCTCGCGCATTACAACCTGAAG
GACTGCGAACTGGTGACGCGGATCTTCGCCCGTACCGAACTGCTCGACTTCCTCCTCGAACGGGCCACCGTC
ACCGGCCTGCCGGCGGACCGCAGCGGCGGCTCGGTGGCGGCCTTCACCCACCTGTACATGCCGTTGATGCAC
CGTGCCGGCTTCGTCGCCCCGAACCTCGGCGAGAAGCGTCCGGAAGCCAGTCCCGGCGGCTTCGTCATGGAC
TCGCGGCCGGGCCTCTACGAATCGGTGCTGGTGCTCGACTACAAGAGCCTGTATCCGTCGATCATCCGTACC
TTCCTGATCGACCCGGTCGGCCTGGTGGAAGGCCTGCGCCAGCCGGACGACGAACACTCGGTGGAAGGTTTT
CGCGGCGCCCGTTTCTCGCGTACCCGGCATTGCCTGCCGGCCATCGTCGCACGGGTCTGGGAGGGCCGCGAG
GCGGCCAAGCGCGAACGCAACCAGCCGCTCTCGCAGGCGTTGAAGATCATCATGAACGCCTTCTACGGGGTG
CTGGGCTCCAGCGGCTGCCGCTTCTTCGACCCGCGCCTGGCCTCGTCCATCACCCTGCGCGGGCATCGGATC
ATGCGCCGTACCCGCGAGCTGATCGAGGCCGAGGGCTATACGGTGATCTATGGCGATACCGACTCCACCTTC
GTCTGGCTCGGCAGCCCCCGCGCCGAGGAGGAGGCCTCGGCCATCGGCCGGGCGCTGGTGGCGCGGGTCAAC
GACTGGTGGCGCGAGCACCTGAAAGAAGAATTCGGCCTCGACAGCGCCCTCGAGCTGCAATTCGAGACCCAT
TACCGGCGTTTTCTCATGCCCACCGTGCGCGGCGCCGAGGAGGGCAGCAAGAAACGCTACGCCGGCCTGGTG
CGCCGCGCCGACGGTGGCGAGGAGATGGTCTTCAAGGGCCTGGAGACCGTGCGCACCGACTGGTCGCCGCTG
GCCCAGCGCTTCCAGCAGGAACTCTACCTGCGCATCTTCAACCGCCAGCCCTACCAGGACTACGTGCGCGAT
TACGTACGACGGACCCTGGCCGGCGAGCTGGACGACCTGCTGGTCTACCGCAAGCGCCTGCGCCGGCGCCTC
GACGATTACCAGCGCAACGTGCCGCCGCATGTGCGCGCGGCGCGCATCGCCGACGACTACAACCTCGAGCGC
GGGCGCCCGCGGCAATACCAGAGCGGCGGCTGGATCAGCTACGTGATCAGCGTCGCCGGTCCCGAGCCGCTC
GAGGCGCGGCGTGCGGCCATCGACTACGAGCACTATGTGGGCAAGCAGTTGCAGCCGGTGGCCGACGCCATC
CTGCCGTTCGTCGGCGACGATTTCGCCACTTTGGTCGACCGGCAGATGGCACTATTCTGA
Translation:
MELLQGFVLTRHWRDTPAGTEVAFWLATEQGPRQVRLPPQPSVAFVLAEQRGRVESLLAGETGAELRPLALR
DFQQRPVLGLYCQQHRQLMNLEKRLRQAGVEVFEADIRPPERYLMERFITAPVSLEASVEADGSLLARRLKP
APDYRPRLRLVSLDIETNARGDLYSIALEGCGQRQVYMLGPANGDAAAVDFCLDYCDSRAGLLERLNQWLAE
HDPDAIIGWNLVQFDLRVLHEHAQRLKVPLRLGRGGDEMGWREHGSRNNHFFAAAAGRLIIDGIEALRSATW
SFPSFSLENVARTLLGEGKAIDNPYQRMDEIDRMFAEDKPALAHYNLKDCELVTRIFARTELLDFLLERATV
TGLPADRSGGSVAAFTHLYMPLMHRAGFVAPNLGEKRPEASPGGFVMDSRPGLYESVLVLDYKSLYPSIIRT
FLIDPVGLVEGLRQPDDEHSVEGFRGARFSRTRHCLPAIVARVWEGREAAKRERNQPLSQALKIIMNAFYGV
LGSSGCRFFDPRLASSITLRGHRIMRRTRELIEAEGYTVIYGDTDSTFVWLGSPRAEEEASAIGRALVARVN
DWWREHLKEEFGLDSALELQFETHYRRFLMPTVRGAEEGSKKRYAGLVRRADGGEEMVFKGLETVRTDWSPL
AQRFQQELYLRIFNRQPYQDYVRDYVRRTLAGELDDLLVYRKRLRRRLDDYQRNVPPHVRAARIADDYNLER
GRPRQYQSGGWISYVISVAGPEPLEARRAAIDYEHYVGKQLQPVADAILPFVGDDFATLVDRQMALF*
AnnotationID:195GeneID:185
AnnotatorUID: diggins
Modification Date/Time: 2005-04-28 14:02:24
Gene Name:polB
Confidence Code:2
GeneProduct:DNA polymerase II
Cell Localization:()
Synonyms:dinA
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(11) DNA replication, recombination, modification and repair
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0417,pfam00136
Secondary Functional Category(ies):
EC Number:2.7.7.7
Status:ACTIVE
Pathway:
Homology:
>gb|AAO56125.1| (AE016865) DNA polymerase II [Pseudomonas syringae pv. tomato str.
           DC3000]
          Length = 787

 Score = 1321 bits (3418), Expect = 0.0
 Identities = 639/787 (81%), Positives = 707/787 (89%)

>gb|AAN68005.1|AE016432_14 (AE016783) DNA polymerase II [Pseudomonas putida KT2440]
          Length = 786

 Score = 1213 bits (3138), Expect = 0.0
 Identities = 601/787 (76%), Positives = 662/787 (84%), Gaps = 1/787 (0%)

>gb|AAM87203.1|AE013968_5 (AE013968) DNA polymerase II [Yersinia pestis KIM]
          Length = 789

 Score = 1199 bits (3103), Expect = 0.0
 Identities = 584/785 (74%), Positives = 671/785 (85%), Gaps = 3/785 (0%)
Structural Features:
COG0417, PolB, DNA polymerase elongation subunit (family B) 
[DNA replication, recombination, and repair]
CD-Length = 792 residues,  98.9% aligned
Score =  620 bits (1600), Expect = 2e-178
Identities = 290/812 (35%), Positives = 403/812 (49%), Gaps = 58/812 (7%)

pfam00136, DNA_pol_B, DNA polymerase family B.
CD-Length = 458 residues,  99.1% aligned
Score =  232 bits (593), Expect = 1e-61
Identities = 126/478 (26%), Positives = 193/478 (40%), Gaps = 84/478 (17%)
Genomic Context:
Comment:
ReferenceID:14081
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:17515
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:37068
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:185_cdd.html
URL:
ReferenceID:37774
Author/Investigator(s): Chen H, Sun Y, Stark T, Beattie W, Moses RE.
Title: Nucleotide sequence and deletion analysis of the polB gene of Escherichia coli.
PubMed: 2261080
MedLine:
Source:
DNA Cell Biol. 1990 Nov;9(9):631-5.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2261080
ReferenceID:37775
Author/Investigator(s): Qiu Z, Goodman MF.
Title: The Escherichia coli polB locus is identical to dinA, the structural gene for DNA polymerase II. Characterization of Pol II purified from a polB mutant.
PubMed: 9079692
MedLine:
Source:
J Biol Chem. 1997 Mar 28;272(13):8611-7.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9079692
ReferenceID:37776
Author/Investigator(s): Bonner CA, Hays S, McEntee K, Goodman MF.
Title: DNA polymerase II is encoded by the DNA damage-inducible dinA gene of Escherichia coli.
PubMed: 2217198
MedLine:
Source:
Proc Natl Acad Sci U S A. 1990 Oct;87(19):7663-7.
Reference Type:Journal
Data:
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=2217198
Homologs By Global Alignment
Gene ID:185

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
323 PA1886_tr translation of PA1886 787 99.49 99.74 0 4077.0
21081 gb|AAG05275.1|AE004614_9 (AE004614) DNA polymerase II [Pseudomonas aeruginosa PAO1] 787 99.36 99.74 0 4074.0
21082 gb|AAO56125.1| (AE016865) DNA polymerase II [Pseudomonas syringae pv. tomato str. DC3000] 787 81.06 89.83 0 3414.0
21083 gb|AAN68005.1|AE016432_14 (AE016783) DNA polymerase II [Pseudomonas putida KT2440] 787 76.23 84.11 1 3136.0
21086 gb|AAG43149.1|AF063187_1 (AF063187) DNA polymerase II [Pseudomonas fluorescens] 794 74.93 83.75 27 3082.0
GC ORFID: 43187How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA1886Glimmer Score:
Start: 1376404Stop: 1378767
Length: 2364
Start Codon: GTGTruncated Start:
Stop Codon: TGATruncated Stop:
Homolog: t_PA1886 translation of PA1886Homolog Bit Score 1575.0
Other Homologs: psyr_15may02_Scaffold13_revised_gene2216 (ORF: BLASTX 1316.0), t_PA1886 (ORF: GLIMMER)
GC ORF Sequence
GTGGAGTTACTGCAAGGGTTCGTCCTGACCCGGCACTGGCGCGATACGCCGGCCGGCACGGAAGTCGCGTTC
TGGCTGGCGACCGAGCAGGGCCCGCGGCAGGTGCGGCTGCCGCCGCAGCCGTCGGTGGCGTTCGTCCTCGCC
GAGCAGCGCGGGCGCGTCGAGTCCCTGCTCGCCGGGGAGACTGGCGCCGAGCTGCGGCCGCTGGCGCTGCGC
GACTTCCAGCAGCGGCCGGTGCTCGGCCTGTACTGCCAGCAGCATCGCCAACTGATGAATCTGGAGAAACGC
TTGCGCCAGGCCGGCGTCGAGGTGTTCGAGGCCGATATCCGGCCGCCGGAGCGCTACCTGATGGAGCGCTTC
ATCACCGCGCCGGTCAGCCTGGAGGCGAGTGTCGAGGCTGACGGCAGCCTGCTCGCCCGGCGCCTGAAGCCG
GCTCCGGACTATCGCCCGCGCCTGCGCCTGGTGTCGCTGGACATCGAGACCAACGCCCGCGGCGATCTCTAC
TCCATCGCCCTGGAAGGCTGCGGCCAGCGCCAGGTATACATGCTCGGCCCGGCCAACGGCGATGCCGCGGCC
GTGGATTTCTGCCTCGACTATTGCGACAGCCGTGCCGGGCTGCTGGAACGTCTCAACCAGTGGCTGGCCGAG
CACGATCCCGACGCCATCATCGGCTGGAACCTGGTGCAGTTCGACCTGCGCGTCCTGCATGAGCATGCCCAG
CGCCTGAAGGTGCCGCTGCGCCTGGGGCGTGGCGGCGACGAAATGGGCTGGCGCGAGCACGGCAGCCGCAAC
AACCACTTTTTCGCCGCGGCGGCCGGCCGCCTGATCATCGATGGCATCGAGGCGCTGCGCTCGGCGACCTGG
AGTTTCCCCTCGTTCAGCCTGGAGAACGTCGCCCGGACCCTGCTCGGCGAAGGCAAGGCGATCGACAATCCA
TACCAGCGGATGGACGAGATCGATCGCATGTTCGCCGAGGACAAGCCGGCCCTCGCGCATTACAACCTGAAG
GACTGCGAACTGGTGACGCGGATCTTCGCCCGTACCGAACTGCTCGACTTCCTCCTCGAACGGGCCACCGTC
ACCGGCCTGCCGGCGGACCGCAGCGGCGGCTCGGTGGCGGCCTTCACCCACCTGTACATGCCGTTGATGCAC
CGTGCCGGCTTCGTCGCCCCGAACCTCGGCGAGAAGCGTCCGGAAGCCAGTCCCGGCGGCTTCGTCATGGAC
TCGCGGCCGGGCCTCTACGAATCGGTGCTGGTGCTCGACTACAAGAGCCTGTATCCGTCGATCATCCGTACC
TTCCTGATCGACCCGGTCGGCCTGGTGGAAGGCCTGCGCCAGCCGGACGACGAACACTCGGTGGAAGGTTTT
CGCGGCGCCCGTTTCTCGCGTACCCGGCATTGCCTGCCGGCCATCGTCGCACGGGTCTGGGAGGGCCGCGAG
GCGGCCAAGCGCGAACGCAACCAGCCGCTCTCGCAGGCGTTGAAGATCATCATGAACGCCTTCTACGGGGTG
CTGGGCTCCAGCGGCTGCCGCTTCTTCGACCCGCGCCTGGCCTCGTCCATCACCCTGCGCGGGCATCGGATC
ATGCGCCGTACCCGCGAGCTGATCGAGGCCGAGGGCTATACGGTGATCTATGGCGATACCGACTCCACCTTC
GTCTGGCTCGGCAGCCCCCGCGCCGAGGAGGAGGCCTCGGCCATCGGCCGGGCGCTGGTGGCGCGGGTCAAC
GACTGGTGGCGCGAGCACCTGAAAGAAGAATTCGGCCTCGACAGCGCCCTCGAGCTGCAATTCGAGACCCAT
TACCGGCGTTTTCTCATGCCCACCGTGCGCGGCGCCGAGGAGGGCAGCAAGAAACGCTACGCCGGCCTGGTG
CGCCGCGCCGACGGTGGCGAGGAGATGGTCTTCAAGGGCCTGGAGACCGTGCGCACCGACTGGTCGCCGCTG
GCCCAGCGCTTCCAGCAGGAACTCTACCTGCGCATCTTCAACCGCCAGCCCTACCAGGACTACGTGCGCGAT
TACGTACGACGGACCCTGGCCGGCGAGCTGGACGACCTGCTGGTCTACCGCAAGCGCCTGCGCCGGCGCCTC
GACGATTACCAGCGCAACGTGCCGCCGCATGTGCGCGCGGCGCGCATCGCCGACGACTACAACCTCGAGCGC
GGGCGCCCGCGGCAATACCAGAGCGGCGGCTGGATCAGCTACGTGATCAGCGTCGCCGGTCCCGAGCCGCTC
GAGGCGCGGCGTGCGGCCATCGACTACGAGCACTATGTGGGCAAGCAGTTGCAGCCGGTGGCCGACGCCATC
CTGCCGTTCGTCGGCGACGATTTCGCCACTTTGGTCGACCGGCAGATGGCACTATTCTGA