ViewGene

Locus Name:
GeneID:
Location:

GeneID:1892
TrivialName: PA14_61700
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_61700
PAO1 Ortholog Locus:PA4665
Sequence Length:1083
Protein Length:360
Start: 5505510
Stop: 5504428
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08052.1|AE004880_8 (AE004880) peptide chain release factor 1 [Pseudomonas aeruginosa PAO1]
Identities = 359/360 (99%), Positives = 360/360 (100%)
Sequence:
ATGAAAGCTTCTCTGCTGAAAAAGCTGGATGTCCTCAGCGATCGCTACGAAGAACTGACGGCGCTGCTCGGC
GACGCCGAGGTGATCAGTGACCAGACCCGCTTCCGCGCCTATTCCCGCGAGTACGCCGAGGTCGAACCGGTG
ATCCTGGCGTTCCGCGACTACCGCAAGGTGCAGGCCGACCTCGAGGGCGCCCAGGCGTTGCTCAAGGACAGC
GACCCGGAGTTGCGCGACCTCGCCGAGGAGGAGGTCGCCGAAGCGCGCGGCCGCCTCGCCGCCCTCGGCGAC
AGCCTGCAGCGCATGCTGCTGCCGAAGGATCCCAACGACAGCCGCAACGTGTTCCTGGAGATCCGTGCCGGC
ACCGGTGGCGACGAGGCGGCGATCTTCTCCGGCGACCTGTTCCGCATGTATTCGCGCTACGCCGAGCGCCAG
GGCTGGCGGGTCGAGACGCTGTCGGAGAACGAGGGCGAGCACGGTGGCTACAAGGAAGTGATTGCCCGGGTC
GAGGGCGACAACGTTTATGCCAAGCTCAAGTTCGAGTCCGGCGCGCACCGCGTGCAGCGGGTGCCGGAAACC
GAATCCCAGGGCCGGATCCACACTTCCGCCTGCACTGTCGCGGTGCTGCCGGAGCCGGACGAGCAGGCAGCG
ATCGAGATCAACCCGGCCGACCTGCGGGTGGACACCTACCGTTCCTCCGGCGCCGGCGGCCAGCACGTCAAC
AAGACCGACTCGGCGGTGCGCATCACCCACATTCCCAGCGGCATCGTGGTCGAGTGCCAGGAAGAGCGCTCG
CAGCACAAGAACCGCGCCAAGGCCATGGCCTGGCTGGCGGCCAAGCTCAACGACCAGCAGCAGGCCGCGGCG
CAGCAGGCGATCGCCAGCACGCGCAAGCTGCTGGTGGGCTCGGGCGACCGCTCGGAGCGCATCCGTACCTAC
AACTTCCCGCAAGGGCGGGTCACCGACCATCGCATCAACCTCACCCTGTACTCCCTGGGCGAGGTGATGGAG
GGCGCGGTGGAACAGGTGATCGAGCCGCTGCTGCAGGAATACCAGGCCGATCAACTGGCGGCCCTGGGCGAC
TGA
Translation:
MKASLLKKLDVLSDRYEELTALLGDAEVISDQTRFRAYSREYAEVEPVILAFRDYRKVQADLEGAQALLKDS
DPELRDLAEEEVAEARGRLAALGDSLQRMLLPKDPNDSRNVFLEIRAGTGGDEAAIFSGDLFRMYSRYAERQ
GWRVETLSENEGEHGGYKEVIARVEGDNVYAKLKFESGAHRVQRVPETESQGRIHTSACTVAVLPEPDEQAA
IEINPADLRVDTYRSSGAGGQHVNKTDSAVRITHIPSGIVVECQEERSQHKNRAKAMAWLAAKLNDQQQAAA
QQAIASTRKLLVGSGDRSERIRTYNFPQGRVTDHRINLTLYSLGEVMEGAVEQVIEPLLQEYQADQLAALGD
*
AnnotationID:1901GeneID:1892
AnnotatorUID: diggins
Modification Date/Time: 2005-03-08 06:06:22
Gene Name:prfA
Confidence Code:2
GeneProduct:peptide chain release factor 1
Cell Localization:()
Synonyms:rf1
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(26) Translation, post-translational modification, degradation
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0216
Secondary Functional Category(ies):translation, ribosomal structure and biogenesis
EC Number:
Status:ACTIVE
Pathway:
Homology:
>gb|AAN66358.1|AE016264_2 (AE016776) peptide chain release factor 1 [Pseudomonas putida
           KT2440]
          Length = 360

 Score =  614 bits (1584), Expect = e-175
 Identities = 303/360 (84%), Positives = 335/360 (93%)

>gb|AAO54638.1| (AE016859) peptide chain release factor 1 [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 360

 Score =  613 bits (1580), Expect = e-175
 Identities = 307/360 (85%), Positives = 331/360 (91%)

>gb|AAC43437.1| (U18555) peptide chain release factor 1 [Escherichia coli]
          Length = 360

 Score =  488 bits (1255), Expect = e-137
 Identities = 238/360 (66%), Positives = 298/360 (82%), Gaps = 2/360 (0%)

Structural Features:
COG0216, PrfA, Protein chain release factor A 
[Translation, ribosomal structure and biogenesis]
CD-Length = 363 residues,  99.7% aligned
Score =  554 bits (1429), Expect = 7e-159
Identities = 239/362 (66%), Positives = 291/362 (80%), Gaps = 2/362 (0%)
Genomic Context:
Comment:
ReferenceID:3787
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:20934
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:36550
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:1892_cdd.html
URL:
ReferenceID:36600
Author/Investigator(s): Ito K, Nakamura Y.
Title: Cloning and overexpression of polypeptide release factor 1 of Thermus thermophilus.
PubMed: 9258437
MedLine:
Source:
Biochimie. 1997 May;79(5):287-92.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9258437
ReferenceID:36601
Author/Investigator(s): Craigen WJ, Cook RG, Tate WP, Caskey CT.
Title: Bacterial peptide chain release factors: conserved primary structure and possible frameshift regulation of release factor 2.
PubMed: 3889910
MedLine:
Source:
Proc Natl Acad Sci U S A. 1985 Jun;82(11):3616-20.
Reference Type:Journal
Data:
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=3889910
ReferenceID:37768
Author/Investigator(s): Lee CC, Kohara Y, Akiyama K, Smith CL, Craigen WJ, Caskey CT.
Title: Rapid and precise mapping of the Escherichia coli release factor genes by two physical approaches.
PubMed: 3049538
MedLine:
Source:
J Bacteriol. 1988 Oct;170(10):4537-41.
Reference Type:Journal
Data:
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=3049538
Homologs By Global Alignment
Gene ID:1892

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
3337 PA4665_tr translation of PA4665 360 99.72 99.99 0 1813.0
103586 gb|AAG08052.1|AE004880_8 (AE004880) peptide chain release factor 1 [Pseudomonas aeruginosa PAO1] 360 99.72 99.99 0 1813.0
103588 gb|AAO54638.1| (AE016859) peptide chain release factor 1 [Pseudomonas syringae pv. tomato str. DC3000] 360 85.27 91.94 0 1580.0
103587 gb|AAN66358.1|AE016264_2 (AE016776) peptide chain release factor 1 [Pseudomonas putida KT2440] 360 84.16 93.05 0 1584.0
103589 gb|AAC43437.1| (U18555) peptide chain release factor 1 [Escherichia coli] 362 65.74 82.32 4 1257.0
GC ORFID: 44894How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA4665Glimmer Score:
Start: 4769190Stop: 4768108
Length: 1083
Start Codon: ATGTruncated Start:
Stop Codon: TGATruncated Stop:
Homolog: t_PA4665 translation of PA4665Homolog Bit Score 702.0
Other Homologs: psyr_15may02_Scaffold3_revised_gene4296 (ORF: BLASTX 613.0), t_PA4665 (ORF: GLIMMER)
GC ORF Sequence
ATGAAAGCTTCTCTGCTGAAAAAGCTGGATGTCCTCAGCGATCGCTACGAAGAACTGACGGCGCTGCTCGGC
GACGCCGAGGTGATCAGTGACCAGACCCGCTTCCGCGCCTATTCCCGCGAGTACGCCGAGGTCGAACCGGTG
ATCCTGGCGTTCCGCGACTACCGCAAGGTGCAGGCCGACCTCGAGGGCGCCCAGGCGTTGCTCAAGGACAGC
GACCCGGAGTTGCGCGACCTCGCCGAGGAGGAGGTCGCCGAAGCGCGCGGCCGCCTCGCCGCCCTCGGCGAC
AGCCTGCAGCGCATGCTGCTGCCGAAGGATCCCAACGACAGCCGCAACGTGTTCCTGGAGATCCGTGCCGGC
ACCGGTGGCGACGAGGCGGCGATCTTCTCCGGCGACCTGTTCCGCATGTATTCGCGCTACGCCGAGCGCCAG
GGCTGGCGGGTCGAGACGCTGTCGGAGAACGAGGGCGAGCACGGTGGCTACAAGGAAGTGATTGCCCGGGTC
GAGGGCGACAACGTTTATGCCAAGCTCAAGTTCGAGTCCGGCGCGCACCGCGTGCAGCGGGTGCCGGAAACC
GAATCCCAGGGCCGGATCCACACTTCCGCCTGCACTGTCGCGGTGCTGCCGGAGCCGGACGAGCAGGCAGCG
ATCGAGATCAACCCGGCCGACCTGCGGGTGGACACCTACCGTTCCTCCGGCGCCGGCGGCCAGCACGTCAAC
AAGACCGACTCGGCGGTGCGCATCACCCACATTCCCAGCGGCATCGTGGTCGAGTGCCAGGAAGAGCGCTCG
CAGCACAAGAACCGCGCCAAGGCCATGGCCTGGCTGGCGGCCAAGCTCAACGACCAGCAGCAGGCCGCGGCG
CAGCAGGCGATCGCCAGCACGCGCAAGCTGCTGGTGGGCTCGGGCGACCGCTCGGAGCGCATCCGTACCTAC
AACTTCCCGCAAGGGCGGGTCACCGACCATCGCATCAACCTCACCCTGTACTCCCTGGGCGAGGTGATGGAG
GGCGCGGTGGAACAGGTGATCGAGCCGCTGCTGCAGGAATACCAGGCCGATCAACTGGCGGCCCTGGGCGAC
TGA