ViewGene

Locus Name:
GeneID:
Location:

GeneID:59
TrivialName: PA14_71500
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_71500
PAO1 Ortholog Locus:PA5418
Sequence Length:3018
Protein Length:1005
Start: 6369948
Stop: 6372965
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08803.1|AE004954_5 (AE004954) sarcosine oxidase alpha subunit [Pseudomonas aeruginosa PAO1]
Identities = 1005/1005 (100%), Positives = 1005/1005 (100%)
Sequence:
ATGAGCCAGATCAATCGCCTGTCCAGCGGCGGCCGCATCGACCGCAACCGCCCGCTGACCTTCAGCTTCAAC
GGCCAGCACTACCAGGGCTATGCCGGCGACACCCTGGCCGCCGCGCTGCTGGCCAACGGCGTCGACATCGTC
GGCCGCAGCTTCAAGTACTCGCGGGCGCGCGGCATCGTCGCCGCCGGCGCCGAGGAGCCCAACGCGATCCTG
CAGATCGGCTCCCGCGAAGCCACCCAGATCCCCAACGTGCGCGCCACCCAGCAGGCGCTCTACGGCGGCCTG
GTGGCCACCAGCACCAACGGCTGGCCGAATGTGCAGAACGACCTGATGGGAATCTTCGGCAAGGTCGGCGGC
AAGCTGATGCCGCCCGGTTTCTACTACAAGACCTTCATGTACCCGCAGTCGATGTGGATGACCTACGAGAAG
TACATCCGCAAGGCCGCCGGCCTGGGCCGCGCGCCGACCGAGGTCGATCCGGACAGCTACGACTGGATGAAC
CACCACTGCGACGTGCTGGTGGTCGGCGCCGGCCCGGCCGGCCTGGCCGCCGCCCTCGCCGCCGCTCGCAGC
GGCGCGCGGGTGATTCTCGCCGACGAGCAGGAAGAGTTCGGCGGCAGCCTGCTGGACACCCGCGAGACCCTC
GACGGCAAGCCCGCCGCCGAGTGGGTCGCGGACGCCGTGGCCGAGCTGCAAGGCCTGCCGGAAGTCATCCTG
CTACCGCGCTCCACGGTCAACGGCTACCACGACCACAACTTCCTCACCATCCACGAACGGCGCACCGACCAC
CTCGGCGAGGTCGCCCCGCTCGGCCAGGTCCGCCAGCGCGTGCACCGCGTACGCGCCAAGCGCGTGGTACTG
GCCGCCGGCGCCCATGAGCGGCCGCTGGTCTACGGCAACAACGACCTGCCCGGCAACATGCTCGCCGGCGCG
GTTTCCACCTATGTACGGCGCTACGGCGTGGCACCGGGCAAGAAACTGGTGCTGGCCACCAACAACGACTAC
GCCTACCGCGTCGCCCTCGACTGGCAGGAAGCCGGCCTGCAAGTGGTGGCCATCGCCGACGCCAGGGCCAAT
CCGCGCGGCGAGTGGGTCGAGGAAGCACGCCAACGCGGTATGCGGGTGATCACCGGCAGTTCGGTGATCGAG
GCTCGCGGCGGCAAGCGGGTCAGCGGCGCCAAGGTCGCCCGGATCGACTTGCAGGCCATGCGCGCCAGCGGC
GGCGAATGGCTGGACTGCGACCTGATCGCCAGCTCCGGCGGCTACAGCCCGGTCGTGCACCTGGCCTCGCAC
CTGGGCGGCAAGCCGGAATGGCGCGAGGAAATCCTCGCCTTCGTCCCCGGCGAAGGCCTGCAGAAACGCATC
TGCGCCGGCGCCGTGAACGGCGTGTTCGGGCTCGCCGAGGTGCTCGCCGACGGCTACCAGGCCGGGAGCCGC
GCCGCCCTCGACGCCGGCTACAAGACCGCCGCCGGCAGCCTGCCGAAGGTCCAGCCGCGCCGCGAGGAAGCG
TCCGTCGCGCTGTTCCAGGTGCCCCACGAGAAGCCCACGGCACGCGCACCGAAGCAGTTCGTCGATCCGCAG
AACGACGTCACCGCCGCCGCCATCGAACTGGCCTGCCGCGAGGGCTTCGAGTCCATCGAGCACGTCAAGCGC
TACACCGCGCTGGGCTTCGGCACCGACCAGGGCAAGCTGGGCAACATCAACGGCCTGGCGATCGCCGCGCGG
GCCCAGGGCAAGAGCATCGCCGACACCGGCACCACCATGTTCCGTCCGAACTACACCCCGGTGACCTTCGGC
GCCGTCGCCGGCCGCCACTGCGGGCACCTGTTCGAACCGGTGCGCTTCACCGCCCTGCACGCCTGGCACGTG
AAGAACGGCGCCGAGTTCGAAGACGTCGGCCAGTGGAAGCGGCCGTGGTACTTCCCGCGCCGCGGCGAGGAC
ATGCACGCCGCCGTGGCCCGCGAATGCCGCGCGGTGCGCGAGGCGGTCGGCCTGCTCGACGCCTCGACCCTG
GGCAAGATCGACATCCAGGGCCCGGACGCGCGGGAGTTCCTCAACCGGGTCTACACCAACGCCTGGACCAAG
CTCGACGTCGGCAAGGCGCGCTACGGCCTGATGTGCAAGGAAGACGGGATGGTCTTCGACGACGGCGTGACC
GCCTGCCTGGCCGACAACCACTTCGTCATGACCACCACCACCGGCGGCGCCGCCCGCGTACTGGAGTGGCTG
GAGCTGTACCACCAGACCGAATGGCCGGAGCTGAAGGTGTACTTCACCTCGGTCACCGACCACTACGCGACC
CTCACCCTGTCCGGCCCGAACAGCCGCAAGCTGCTCGCCGAAGTCACCGACATCGACCTGGACAAGGACGCC
TTCCCCTTCATGACCTGGAAGGAAGGCAAGGTCGCCGGGGTGCCGGCGCGGGTGTTCCGCATCTCCTTCACC
GGCGAGCTGAGCTACGAGGTGAACGTCCAGGCCGACTACGCCATGGGCGTGCTCGAAGCGCTCGCCGAGCAC
GGTGCGAAGTACGGCCTGACACCCTACGGCACCGAGACCATGCACGTCCTGCGCGCCGAGAAGGGCTTCATC
ATCGTCGGCCAGGACACCGATGCCTCGGTCACCCCGGACGATCTCAACATGGGCTGGGCGGTGGGCCGCAGC
AAGCCGTTCTCCTGGATCGGCTGGCGCGGCATGAACCGCGCCGACTGCCTGCGCGAGGATCGCAAGCAACTG
GTCGGACTCAGGCCGAGCAACCCGCAGGAGGTACTGCCCGAAGGCGCGCAACTGGTGTTCGACACCCAGCAG
GCGATCCCGATGAAGATGGTCGGCCACGTCACCTCCAGCTACATGAGCGCCAGCCTCGGCCACGGCTTCGCC
CTGGCGGTGGTGAAAGGCGGCCTCAAGCGCATGGGCCAGAAGGTCTACGCGCCGCTGGCGGACGGCCGCTTC
ATCGAGGCGGAGATCTGCTCCTCGGTGTTCTACGACCCCAAAGGGGAGCGGCAGAACGTGGATTGA
Translation:
MSQINRLSSGGRIDRNRPLTFSFNGQHYQGYAGDTLAAALLANGVDIVGRSFKYSRARGIVAAGAEEPNAIL
QIGSREATQIPNVRATQQALYGGLVATSTNGWPNVQNDLMGIFGKVGGKLMPPGFYYKTFMYPQSMWMTYEK
YIRKAAGLGRAPTEVDPDSYDWMNHHCDVLVVGAGPAGLAAALAAARSGARVILADEQEEFGGSLLDTRETL
DGKPAAEWVADAVAELQGLPEVILLPRSTVNGYHDHNFLTIHERRTDHLGEVAPLGQVRQRVHRVRAKRVVL
AAGAHERPLVYGNNDLPGNMLAGAVSTYVRRYGVAPGKKLVLATNNDYAYRVALDWQEAGLQVVAIADARAN
PRGEWVEEARQRGMRVITGSSVIEARGGKRVSGAKVARIDLQAMRASGGEWLDCDLIASSGGYSPVVHLASH
LGGKPEWREEILAFVPGEGLQKRICAGAVNGVFGLAEVLADGYQAGSRAALDAGYKTAAGSLPKVQPRREEA
SVALFQVPHEKPTARAPKQFVDPQNDVTAAAIELACREGFESIEHVKRYTALGFGTDQGKLGNINGLAIAAR
AQGKSIADTGTTMFRPNYTPVTFGAVAGRHCGHLFEPVRFTALHAWHVKNGAEFEDVGQWKRPWYFPRRGED
MHAAVARECRAVREAVGLLDASTLGKIDIQGPDAREFLNRVYTNAWTKLDVGKARYGLMCKEDGMVFDDGVT
ACLADNHFVMTTTTGGAARVLEWLELYHQTEWPELKVYFTSVTDHYATLTLSGPNSRKLLAEVTDIDLDKDA
FPFMTWKEGKVAGVPARVFRISFTGELSYEVNVQADYAMGVLEALAEHGAKYGLTPYGTETMHVLRAEKGFI
IVGQDTDASVTPDDLNMGWAVGRSKPFSWIGWRGMNRADCLREDRKQLVGLRPSNPQEVLPEGAQLVFDTQQ
AIPMKMVGHVTSSYMSASLGHGFALAVVKGGLKRMGQKVYAPLADGRFIEAEICSSVFYDPKGERQNVD*
AnnotationID:69GeneID:59
AnnotatorUID: diggins
Modification Date/Time: 2005-03-17 12:12:22
Gene Name:soxA
Confidence Code:2
GeneProduct:sarcosine oxidase alpha subunit
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(5) Carbon compound catabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0404,pfam01571
Secondary Functional Category(ies):
EC Number:1.5.3.1
Status:ACTIVE
Pathway:
Homology:
>gb|AAN65956.1|AE016223_10 (AE016775) sarcosine oxidase, alpha subunit [Pseudomonas putida
            KT2440]
          Length = 1004

 Score = 1690 bits (4377), Expect = 0.0
 Identities = 819/1005 (81%), Positives = 907/1005 (90%), Gaps = 2/1005 (0%)

>gb|AAO54002.1| (AE016857) sarcosine oxidase, alpha subunit [Pseudomonas syringae pv.
            tomato str. DC3000]
          Length = 1006

 Score = 1685 bits (4364), Expect = 0.0
 Identities = 816/1006 (81%), Positives = 906/1006 (90%), Gaps = 1/1006 (0%)

>emb|CAD14805.1| (AL646062) PROBABLE SARCOSINE OXIDASE (ALPHA SUBUNIT) OXIDOREDUCTASE
            PROTEIN [Ralstonia solanacearum]
          Length = 1003

 Score = 1094 bits (2830), Expect = 0.0
 Identities = 580/1012 (57%), Positives = 716/1012 (70%), Gaps = 16/1012 (1%)


Structural Features:
COG0404, GcvT, Glycine cleavage system T protein (aminomethyltransferase) 
[Amino acid transport and metabolism]
CD-Length = 379 residues,  99.7% aligned
Score =  377 bits (970), Expect = 3e-105
Identities = 147/395 (37%), Positives = 211/395 (53%), Gaps = 18/395 (4%)

pfam01571, GCV_T, Glycine cleavage T-protein (aminomethyl transferase).
CD-Length = 327 residues,  99.4% aligned
Score =  213 bits (543), Expect = 1e-55
Identities = 105/333 (31%), Positives = 158/333 (47%), Gaps = 11/333 (3%)
Genomic Context:
Comment:
ReferenceID:121
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:17263
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:34690
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:59_cdd.html
URL:
ReferenceID:35645
Author/Investigator(s): Mukhopadhyaya PN, Deb C, Lahiri C, Roy P.
Title: A soxA gene, encoding a diheme cytochrome c, and a sox locus, essential for sulfur oxidation in a new sulfur lithotrophic bacterium.
PubMed: 10894738
MedLine:
Source:
J Bacteriol. 2000 Aug;182(15):4278-87.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=10894738
ReferenceID:35646
Author/Investigator(s): Denome SA, Oldfield C, Nash LJ, Young KD.
Title: Characterization of the desulfurization genes from Rhodococcus sp. strain IGTS8.
PubMed: 7961424
MedLine:
Source:
J Bacteriol. 1994 Nov;176(21):6707-16.
Reference Type:Journal
Data:
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=7961424
Homologs By Global Alignment
Gene ID:59

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
112 PA5418_tr translation of PA5418 1005 99.99 99.99 0 5270.0
12460 gb|AAG08803.1|AE004954_5 (AE004954) sarcosine oxidase alpha subunit [Pseudomonas aeruginosa PAO1] 1005 99.99 99.99 0 5270.0
12461 gb|AAN65956.1|AE016223_10 (AE016775) sarcosine oxidase, alpha subunit [Pseudomonas putida KT2440] 1006 81.41 90.15 3 4381.0
12462 gb|AAO54002.1| (AE016857) sarcosine oxidase, alpha subunit [Pseudomonas syringae pv. tomato str. DC3000] 1006 81.11 90.05 1 4366.0
12463 emb|CAD14805.1| (AL646062) PROBABLE SARCOSINE OXIDASE (ALPHA SUBUNIT) OXIDOREDUCTASE PROTEIN [Ralstonia solanacearum] 1015 57.24 70.54 22 2856.0
GC ORFID: 43061How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA5418Glimmer Score:
Start: 5633637Stop: 5636654
Length: 3018
Start Codon: ATGTruncated Start:
Stop Codon: TGATruncated Stop:
Homolog: t_PA5418 translation of PA5418Homolog Bit Score 2034.0
Other Homologs: t_PA5418 (ORF: GLIMMER)
GC ORF Sequence
ATGAGCCAGATCAATCGCCTGTCCAGCGGCGGCCGCATCGACCGCAACCGCCCGCTGACCTTCAGCTTCAAC
GGCCAGCACTACCAGGGCTATGCCGGCGACACCCTGGCCGCCGCGCTGCTGGCCAACGGCGTCGACATCGTC
GGCCGCAGCTTCAAGTACTCGCGGGCGCGCGGCATCGTCGCCGCCGGCGCCGAGGAGCCCAACGCGATCCTG
CAGATCGGCTCCCGCGAAGCCACCCAGATCCCCAACGTGCGCGCCACCCAGCAGGCGCTCTACGGCGGCCTG
GTGGCCACCAGCACCAACGGCTGGCCGAATGTGCAGAACGACCTGATGGGAATCTTCGGCAAGGTCGGCGGC
AAGCTGATGCCGCCCGGTTTCTACTACAAGACCTTCATGTACCCGCAGTCGATGTGGATGACCTACGAGAAG
TACATCCGCAAGGCCGCCGGCCTGGGCCGCGCGCCGACCGAGGTCGATCCGGACAGCTACGACTGGATGAAC
CACCACTGCGACGTGCTGGTGGTCGGCGCCGGCCCGGCCGGCCTGGCCGCCGCCCTCGCCGCCGCTCGCAGC
GGCGCGCGGGTGATTCTCGCCGACGAGCAGGAAGAGTTCGGCGGCAGCCTGCTGGACACCCGCGAGACCCTC
GACGGCAAGCCCGCCGCCGAGTGGGTCGCGGACGCCGTGGCCGAGCTGCAAGGCCTGCCGGAAGTCATCCTG
CTACCGCGCTCCACGGTCAACGGCTACCACGACCACAACTTCCTCACCATCCACGAACGGCGCACCGACCAC
CTCGGCGAGGTCGCCCCGCTCGGCCAGGTCCGCCAGCGCGTGCACCGCGTACGCGCCAAGCGCGTGGTACTG
GCCGCCGGCGCCCATGAGCGGCCGCTGGTCTACGGCAACAACGACCTGCCCGGCAACATGCTCGCCGGCGCG
GTTTCCACCTATGTACGGCGCTACGGCGTGGCACCGGGCAAGAAACTGGTGCTGGCCACCAACAACGACTAC
GCCTACCGCGTCGCCCTCGACTGGCAGGAAGCCGGCCTGCAAGTGGTGGCCATCGCCGACGCCAGGGCCAAT
CCGCGCGGCGAGTGGGTCGAGGAAGCACGCCAACGCGGTATGCGGGTGATCACCGGCAGTTCGGTGATCGAG
GCTCGCGGCGGCAAGCGGGTCAGCGGCGCCAAGGTCGCCCGGATCGACTTGCAGGCCATGCGCGCCAGCGGC
GGCGAATGGCTGGACTGCGACCTGATCGCCAGCTCCGGCGGCTACAGCCCGGTCGTGCACCTGGCCTCGCAC
CTGGGCGGCAAGCCGGAATGGCGCGAGGAAATCCTCGCCTTCGTCCCCGGCGAAGGCCTGCAGAAACGCATC
TGCGCCGGCGCCGTGAACGGCGTGTTCGGGCTCGCCGAGGTGCTCGCCGACGGCTACCAGGCCGGGAGCCGC
GCCGCCCTCGACGCCGGCTACAAGACCGCCGCCGGCAGCCTGCCGAAGGTCCAGCCGCGCCGCGAGGAAGCG
TCCGTCGCGCTGTTCCAGGTGCCCCACGAGAAGCCCACGGCACGCGCACCGAAGCAGTTCGTCGATCCGCAG
AACGACGTCACCGCCGCCGCCATCGAACTGGCCTGCCGCGAGGGCTTCGAGTCCATCGAGCACGTCAAGCGC
TACACCGCGCTGGGCTTCGGCACCGACCAGGGCAAGCTGGGCAACATCAACGGCCTGGCGATCGCCGCGCGG
GCCCAGGGCAAGAGCATCGCCGACACCGGCACCACCATGTTCCGTCCGAACTACACCCCGGTGACCTTCGGC
GCCGTCGCCGGCCGCCACTGCGGGCACCTGTTCGAACCGGTGCGCTTCACCGCCCTGCACGCCTGGCACGTG
AAGAACGGCGCCGAGTTCGAAGACGTCGGCCAGTGGAAGCGGCCGTGGTACTTCCCGCGCCGCGGCGAGGAC
ATGCACGCCGCCGTGGCCCGCGAATGCCGCGCGGTGCGCGAGGCGGTCGGCCTGCTCGACGCCTCGACCCTG
GGCAAGATCGACATCCAGGGCCCGGACGCGCGGGAGTTCCTCAACCGGGTCTACACCAACGCCTGGACCAAG
CTCGACGTCGGCAAGGCGCGCTACGGCCTGATGTGCAAGGAAGACGGGATGGTCTTCGACGACGGCGTGACC
GCCTGCCTGGCCGACAACCACTTCGTCATGACCACCACCACCGGCGGCGCCGCCCGCGTACTGGAGTGGCTG
GAGCTGTACCACCAGACCGAATGGCCGGAGCTGAAGGTGTACTTCACCTCGGTCACCGACCACTACGCGACC
CTCACCCTGTCCGGCCCGAACAGCCGCAAGCTGCTCGCCGAAGTCACCGACATCGACCTGGACAAGGACGCC
TTCCCCTTCATGACCTGGAAGGAAGGCAAGGTCGCCGGGGTGCCGGCGCGGGTGTTCCGCATCTCCTTCACC
GGCGAGCTGAGCTACGAGGTGAACGTCCAGGCCGACTACGCCATGGGCGTGCTCGAAGCGCTCGCCGAGCAC
GGTGCGAAGTACGGCCTGACACCCTACGGCACCGAGACCATGCACGTCCTGCGCGCCGAGAAGGGCTTCATC
ATCGTCGGCCAGGACACCGATGCCTCGGTCACCCCGGACGATCTCAACATGGGCTGGGCGGTGGGCCGCAGC
AAGCCGTTCTCCTGGATCGGCTGGCGCGGCATGAACCGCGCCGACTGCCTGCGCGAGGATCGCAAGCAACTG
GTCGGACTCAGGCCGAGCAACCCGCAGGAGGTACTGCCCGAAGGCGCGCAACTGGTGTTCGACACCCAGCAG
GCGATCCCGATGAAGATGGTCGGCCACGTCACCTCCAGCTACATGAGCGCCAGCCTCGGCCACGGCTTCGCC
CTGGCGGTGGTGAAAGGCGGCCTCAAGCGCATGGGCCAGAAGGTCTACGCGCCGCTGGCGGACGGCCGCTTC
ATCGAGGCGGAGATCTGCTCCTCGGTGTTCTACGACCCCAAAGGGGAGCGGCAGAACGTGGATTGA