ViewGene

Locus Name:
GeneID:
Location:

GeneID:65
TrivialName: PA14_60830
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_60830
PAO1 Ortholog Locus:PA4598
Sequence Length:3132
Protein Length:1043
Start: 5426678
Stop: 5423547
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07986.1|AE004873_8 (AE004873) RND multidrug efflux transporter MexD [Pseudomonas aeruginosa PAO1]
Identities = 1031/1043 (98%), Positives = 1041/1043 (99%)
Sequence:
ATGTCCGAATTCTTCATCAAGCGGCCGAACTTCGCCTGGGTGGTGGCCCTGTTCATCTCCCTGGCCGGCCTG
CTGGTCATTTCCAAATTGCCGGTAGCGCAGTACCCCAATGTCGCGCCGCCACAGATCACCATCACCGCCACC
TATCCCGGCGCCTCGGCGAAGGTGCTGGTGGACTCCGTCACCAGTGTGCTCGAGGAGTCGCTGAACGGCGCC
AAGGGCCTGCTCTACTTCGAGTCGACCAACAACTCCAACGGCAGCGCCGAGATCGTCGTCACCTTCGAGCCG
GGCACCGATCCGGACCTGGCCCAGGTGGACGTGCAGAACCGCCTGAAGAAAGCCGAGGCGCGCATGCCGCAG
GCGGTGCTGACCCAGGGCCTGCAGGTCGAGCAGACCAGCGCCGGTTTCCTGCTGATCTATGCGCTCAGCTAC
AAGGAAGGCGCTCAGCGCAGCGACACCACCACCCTCGGCGACTATGCCGCGCGCAATATCAACAACGAGCTG
CGGCGCCTGCCGGGCGTCGGCAAGCTGCAATTCTTCTCTTCCGAGGCGGCCATGCGGGTCTGGATCGATCCG
CAGAAGCTGGTGGGCTTCGGCCTCTCCATCGACGACGTGAGCAATGCCATCCGCGGGCAGAACGTGCAGGTG
CCGGCCGGCGCCTTCGGCAGCGCGCCGGGCAGTTCCGCGCAGGAGCTGACGGCGACCCTGGCGGTGAAGGGC
ACCCTGGACGATCCGCAGGAGTTCGGCCAGGTGGTGCTGCGCGCCAACCAGGACGGCTCGCTGGTCCGGCTC
GCCGATGTCGCGCGCCTGGAACTCGGCAAGGAGAGCTACAACATCTCCTCGCGGCTGAACGGCACGCCCACC
GTGGGCGGGGCGATCCAGCTGTCGCCCGGGGCCAACGCGATCCAGACCGCTACCCTGGTGAAACAGCGTCTC
GCCGAACTGTCGGCGTTCTTCCCCGAGGACATGCAGTACAGCGTGCCCTACGACACTTCGCGCTTCGTCGAC
GTGGCCATCGAGAAGGTGATCCACACCCTGATCGAAGCGATGGTCCTGGTGTTCCTGGTGATGTTCCTGTTC
CTGCAGAACGTCCGCTACACCCTGATCCCGTCCATCGTGGTGCCGGTGTGCCTGCTGGGTACGCTGATGGTG
ATGTACCTGCTGGGGTTCTCGGTGAACATGATGACCATGTTCGGCATGGTCCTGGCGATCGGCATCCTGGTG
GACGACGCCATCGTGGTGGTGGAGAACGTCGAGCGGATCATGGCGGAGGAGGGGATTTCCCCGGCCGAGGCC
ACGGTCAAGGCGATGAAGCAGGTGTCCGGCGCCATCGTCGGCATCACCCTGGTGCTCTCGGCGGTGTTCCTG
CCGCTGGCTTTCATGGCCGGTTCGGTGGGGGTGATCTACCAGCAGTTCTCGGTGTCGCTGGCGGTCTCGATC
CTGTTCTCCGGCTTCCTCGCCCTGACCTTCACCCCGGCGCTGTGCGCCACGCTGCTCAAGCCCATTCCCGAA
GGGCACCACGAGAAGCGCGGCTTCTTCGGCGCCTTCAACCGTGGCTTCGCCCGCGTCACCGAGCGCTATTCG
CTGCTCAACTCGAAGCTGGTGGCGCGCGCCGGACGCTTCATGCTGGTGTACGCCGGCCTGGTGGCCATGCTT
GGCTACTTCTACCTGCGCCTGCCGGAAGCCTTCGTGCCGGCGGAAGACCTCGGCTACATGGTGGTCGACGTG
CAACTGCCGCCTGGCGCTTCGCGCGTGCGCACCGATGCCACCGGCGAGGAACTCGAGCGCTTCCTCAAGTCC
CGCGAGGCGGTGGCTTCGGTGTTCCTGATCTCGGGCTTCAGCTTCTCCGGCCAGGGCGACAATGCCGCGCTG
GCCTTCCCGACCTTCAAGGACTGGTCCGAGCGAGGCGCCGAGCAGTCGGCCGCCGCCGAGATCGCCGCGCTG
AACGAGCATTTCGCGCTGCCCGACGACGGCACCATCATGGCCGTGTCGCCGCCACCGATCGACGGCCTGGGC
AACTCCGGCGGTTTCGCCCTACGCCTGATGGACCGCGGTGGCGTCGGCCGCGAGGCCTTGTTGCAGGCCCGC
GATACCTTGCTCGGCGAGGTCCAGACCAACCCGAAATTCCTCTACGCGATGATGGAAGGCCTGGCCGAAGCG
CCGCAACTGCGCCTGTTGATCGACCGGGAGAAGGCCCGCGCCCTGGGGGTGAGCTTCGAGACCATCAGCGGC
ACGCTGTCCGCCGCCTTCGGCTCGGAGGTGATCAATGACTTCACCAATGCGGGGCGCCAACAGCGGGTGGTG
ATCCAGGCCGAACAGGGCAACCGGATGACCCCGGAAAGCGTGCTCGAGCTATACGTGCCTAACGCTGCTGGC
AACCTGGTACCGCTCAGCGCCTTCGTCAGCGTGAAATGGGAAGAGGGACCGGTGCAATTGGTGCGCTACAAC
GGCTACCCGTCGATCCGCATCGTCGGTGACGCCGCGCCCGGCTTCAGCACCGGCGAAGCCATGGCGGAAATG
GAGCGCCTGGCCGCGCAACTGCCGGCCGGCATCGGCTACGAGTGGACCGGCCTGTCCTATCAGGAGAAGGTC
TCCGCCGGGCAGGCCACCAGCCTGTTCGCCCTCGCCATCCTGGTGGTCTTCCTGTTGCTGGTGGCGCTCTAC
GAGAGCTGGTCGATCCCGCTGTCGGTGATGCTGATCGTGCCGATCGGCGCCATCGGCGCGGTGCTCGCGGTA
ATGGTCGCGGGTATGTCCAACGACGTGTATTTCAAGGTCGGCCTGATCACCATCATCGGTCTTTCGGCGAAG
AACGCGATCCTCATCGTCGAGTTCGCCAAGGAACTCTGGGAGCAGGGGCACAGCCTGCGCGACGCCGCCATC
GAGGCCGCGCGCCTGCGCTTCCGACCGATCATCATGACTTCCATGGCGTTCATCCTCGGCGTGGTACCCCTG
GCCCTGGCCAGCGGCGCCGGCGCGGCGAGCCAGCGCGCCATCGGCACCGGAGTGATCGGCGGGATGCTCAGC
GCCACGTTCCTCGGCGTGCTGTTCGTACCCATCTGTTTCGTCTGGCTGCTGTCGCTGCTGCGCAGCAGGCCG
GCGCCCATCGAACAGGCCGCTACGGCCGGGGAGTGA
Translation:
MSEFFIKRPNFAWVVALFISLAGLLVISKLPVAQYPNVAPPQITITATYPGASAKVLVDSVTSVLEESLNGA
KGLLYFESTNNSNGSAEIVVTFEPGTDPDLAQVDVQNRLKKAEARMPQAVLTQGLQVEQTSAGFLLIYALSY
KEGAQRSDTTTLGDYAARNINNELRRLPGVGKLQFFSSEAAMRVWIDPQKLVGFGLSIDDVSNAIRGQNVQV
PAGAFGSAPGSSAQELTATLAVKGTLDDPQEFGQVVLRANQDGSLVRLADVARLELGKESYNISSRLNGTPT
VGGAIQLSPGANAIQTATLVKQRLAELSAFFPEDMQYSVPYDTSRFVDVAIEKVIHTLIEAMVLVFLVMFLF
LQNVRYTLIPSIVVPVCLLGTLMVMYLLGFSVNMMTMFGMVLAIGILVDDAIVVVENVERIMAEEGISPAEA
TVKAMKQVSGAIVGITLVLSAVFLPLAFMAGSVGVIYQQFSVSLAVSILFSGFLALTFTPALCATLLKPIPE
GHHEKRGFFGAFNRGFARVTERYSLLNSKLVARAGRFMLVYAGLVAMLGYFYLRLPEAFVPAEDLGYMVVDV
QLPPGASRVRTDATGEELERFLKSREAVASVFLISGFSFSGQGDNAALAFPTFKDWSERGAEQSAAAEIAAL
NEHFALPDDGTIMAVSPPPIDGLGNSGGFALRLMDRGGVGREALLQARDTLLGEVQTNPKFLYAMMEGLAEA
PQLRLLIDREKARALGVSFETISGTLSAAFGSEVINDFTNAGRQQRVVIQAEQGNRMTPESVLELYVPNAAG
NLVPLSAFVSVKWEEGPVQLVRYNGYPSIRIVGDAAPGFSTGEAMAEMERLAAQLPAGIGYEWTGLSYQEKV
SAGQATSLFALAILVVFLLLVALYESWSIPLSVMLIVPIGAIGAVLAVMVAGMSNDVYFKVGLITIIGLSAK
NAILIVEFAKELWEQGHSLRDAAIEAARLRFRPIIMTSMAFILGVVPLALASGAGAASQRAIGTGVIGGMLS
ATFLGVLFVPICFVWLLSLLRSRPAPIEQAATAGE*
AnnotationID:75GeneID:65
AnnotatorUID: diggins
Modification Date/Time: 2005-05-06 06:06:39
Gene Name:mexD
Confidence Code:1
GeneProduct:multidrug efflux RND transporter MexD
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(3) Antibiotic resistance and susceptibility
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0841,pfam00873,COG3696
Secondary Functional Category(ies):transport of small molecules
EC Number:
Status:ACTIVE
Pathway:
Homology:
>gb|AAN68426.1|AE016475_5 (AE016784) multidrug efflux RND transporter MexD [Pseudomonas putida
            KT2440]
          Length = 1042

 Score = 1687 bits (4369), Expect = 0.0
 Identities = 858/1043 (82%), Positives = 945/1043 (90%), Gaps = 1/1043 (0%)

>gb|AAO56096.1| (AE016865) AcrB/AcrD/AcrF family protein [Pseudomonas syringae pv.
            tomato str. DC3000]
          Length = 1047

 Score = 1597 bits (4136), Expect = 0.0
 Identities = 804/1041 (77%), Positives = 915/1041 (87%)

>gb|AAL44018.1| (AE009250) RND multidrug efflux transporter [Agrobacterium
            tumefaciens str. C58 (U. Washington)]
          Length = 1044

 Score = 1210 bits (3130), Expect = 0.0
 Identities = 613/1041 (58%), Positives = 777/1041 (74%), Gaps = 2/1041 (0%)
Structural Features:
COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]
CD-Length = 1009 residues,  99.6% aligned
Score =  993 bits (2568), Expect = 0.0
Identities = 536/1029 (52%), Positives = 715/1029 (69%), Gaps = 29/1029 (2%)

pfam00873, ACR_tran, AcrB/AcrD/AcrF family. 
CD-Length = 1017 residues,  99.9% aligned
Score = 1161 bits (3005), Expect = 0.0
Identities = 514/1029 (49%), Positives = 683/1029 (66%), Gaps = 18/1029 (1%)

COG3696, Putative silver efflux pump 
[Inorganic ion transport and metabolism]
CD-Length = 1027 residues,  98.1% aligned
Score =  460 bits (1184), Expect = 1e-129
Identities = 280/1035 (27%), Positives = 485/1035 (46%), Gaps = 44/1035 (4%)
Genomic Context:
Comment:
ReferenceID:133
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:17275
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:31624
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:65_cdd.html
URL:
ReferenceID:33267
Author/Investigator(s): Okamoto K, Gotoh N, Nishino T.
Title: Extrusion of penem antibiotics by multicomponent efflux systems MexAB-OprM, MexCD-OprJ, and MexXY-OprM of Pseudomonas aeruginosa.
PubMed: 12121960
MedLine:
Source:
Antimicrob Agents Chemother. 2002 Aug;46(8):2696-9.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=12121960
ReferenceID:33268
Author/Investigator(s): Gotoh N, Tsujimoto H, Tsuda M, Okamoto K, Nomura A, Wada T, Nakahashi M, Nishino T.
Title: Characterization of the MexC-MexD-OprJ multidrug efflux system in DeltamexA-mexB-oprM mutants of Pseudomonas aeruginosa.
PubMed: 9687387
MedLine:
Source:
Antimicrob Agents Chemother. 1998 Aug;42(8):1938-43.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9687387
ReferenceID:33269
Author/Investigator(s): Srikumar R, Kon T, Gotoh N, Poole K.
Title: Expression of Pseudomonas aeruginosa multidrug efflux pumps MexA-MexB-OprM and MexC-MexD-OprJ in a multidrug-sensitive Escherichia coli strain.
PubMed: 9449262
MedLine:
Source:
Antimicrob Agents Chemother. 1998 Jan;42(1):65-71.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9449262
ReferenceID:33270
Author/Investigator(s): Poole K, Gotoh N, Tsujimoto H, Zhao Q, Wada A, Yamasaki T, Neshat S, Yamagishi J, Li XZ, Nishino T.
Title: Overexpression of the mexC-mexD-oprJ efflux operon in nfxB-type multidrug-resistant strains of Pseudomonas aeruginosa.
PubMed: 8878035
MedLine:
Source:
Mol Microbiol. 1996 Aug;21(4):713-24.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8878035
Homologs By Global Alignment
Gene ID:65

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
130 PA4598_tr translation of PA4598 1043 98.84 99.80 0 5132.0
13079 gb|AAG07986.1|AE004873_8 (AE004873) RND multidrug efflux transporter MexD [Pseudomonas aeruginosa PAO1] 1043 98.84 99.80 0 5132.0
13080 gb|AAB41957.1| (U57969) RND family exporter MexD [Pseudomonas aeruginosa] 1050 94.47 96.09 14 4887.0
13081 gb|AAN68426.1|AE016475_5 (AE016784) multidrug efflux RND transporter MexD [Pseudomonas putida KT2440] 1043 82.26 90.60 1 4371.0
13082 emb|CAD24339.1| (AJ431260) mexD [uncultured bacterium] 1050 79.52 88.38 10 4234.0
GC ORFID: 43067How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA4598Glimmer Score:
Start: 4690358Stop: 4687227
Length: 3132
Start Codon: ATGTruncated Start:
Stop Codon: TGATruncated Stop:
Homolog: t_PA4598 translation of PA4598Homolog Bit Score 1981.0
Other Homologs: t_PA2018 (ORF: BLASTX 1059.0), t_PA0426 (ORF: BLASTX 1007.0), psyr_15may02_Scaffold5_revised_gene6178 (ORF: BLASTX 987.0), psyr_15may02_Scaffold7_revised_gene7199 (ORF: BLASTX 793.0), t_PA2494 (ORF: BLASTX 791.0), t_PA3522 (ORF: BLASTX 768.0), psyr_15may02_Scaffold7_revised_gene7337 (ORF: BLASTX 125.0), t_PA4598 (ORF: GLIMMER)
GC ORF Sequence
ATGTCCGAATTCTTCATCAAGCGGCCGAACTTCGCCTGGGTGGTGGCCCTGTTCATCTCCCTGGCCGGCCTG
CTGGTCATTTCCAAATTGCCGGTAGCGCAGTACCCCAATGTCGCGCCGCCACAGATCACCATCACCGCCACC
TATCCCGGCGCCTCGGCGAAGGTGCTGGTGGACTCCGTCACCAGTGTGCTCGAGGAGTCGCTGAACGGCGCC
AAGGGCCTGCTCTACTTCGAGTCGACCAACAACTCCAACGGCAGCGCCGAGATCGTCGTCACCTTCGAGCCG
GGCACCGATCCGGACCTGGCCCAGGTGGACGTGCAGAACCGCCTGAAGAAAGCCGAGGCGCGCATGCCGCAG
GCGGTGCTGACCCAGGGCCTGCAGGTCGAGCAGACCAGCGCCGGTTTCCTGCTGATCTATGCGCTCAGCTAC
AAGGAAGGCGCTCAGCGCAGCGACACCACCACCCTCGGCGACTATGCCGCGCGCAATATCAACAACGAGCTG
CGGCGCCTGCCGGGCGTCGGCAAGCTGCAATTCTTCTCTTCCGAGGCGGCCATGCGGGTCTGGATCGATCCG
CAGAAGCTGGTGGGCTTCGGCCTCTCCATCGACGACGTGAGCAATGCCATCCGCGGGCAGAACGTGCAGGTG
CCGGCCGGCGCCTTCGGCAGCGCGCCGGGCAGTTCCGCGCAGGAGCTGACGGCGACCCTGGCGGTGAAGGGC
ACCCTGGACGATCCGCAGGAGTTCGGCCAGGTGGTGCTGCGCGCCAACCAGGACGGCTCGCTGGTCCGGCTC
GCCGATGTCGCGCGCCTGGAACTCGGCAAGGAGAGCTACAACATCTCCTCGCGGCTGAACGGCACGCCCACC
GTGGGCGGGGCGATCCAGCTGTCGCCCGGGGCCAACGCGATCCAGACCGCTACCCTGGTGAAACAGCGTCTC
GCCGAACTGTCGGCGTTCTTCCCCGAGGACATGCAGTACAGCGTGCCCTACGACACTTCGCGCTTCGTCGAC
GTGGCCATCGAGAAGGTGATCCACACCCTGATCGAAGCGATGGTCCTGGTGTTCCTGGTGATGTTCCTGTTC
CTGCAGAACGTCCGCTACACCCTGATCCCGTCCATCGTGGTGCCGGTGTGCCTGCTGGGTACGCTGATGGTG
ATGTACCTGCTGGGGTTCTCGGTGAACATGATGACCATGTTCGGCATGGTCCTGGCGATCGGCATCCTGGTG
GACGACGCCATCGTGGTGGTGGAGAACGTCGAGCGGATCATGGCGGAGGAGGGGATTTCCCCGGCCGAGGCC
ACGGTCAAGGCGATGAAGCAGGTGTCCGGCGCCATCGTCGGCATCACCCTGGTGCTCTCGGCGGTGTTCCTG
CCGCTGGCTTTCATGGCCGGTTCGGTGGGGGTGATCTACCAGCAGTTCTCGGTGTCGCTGGCGGTCTCGATC
CTGTTCTCCGGCTTCCTCGCCCTGACCTTCACCCCGGCGCTGTGCGCCACGCTGCTCAAGCCCATTCCCGAA
GGGCACCACGAGAAGCGCGGCTTCTTCGGCGCCTTCAACCGTGGCTTCGCCCGCGTCACCGAGCGCTATTCG
CTGCTCAACTCGAAGCTGGTGGCGCGCGCCGGACGCTTCATGCTGGTGTACGCCGGCCTGGTGGCCATGCTT
GGCTACTTCTACCTGCGCCTGCCGGAAGCCTTCGTGCCGGCGGAAGACCTCGGCTACATGGTGGTCGACGTG
CAACTGCCGCCTGGCGCTTCGCGCGTGCGCACCGATGCCACCGGCGAGGAACTCGAGCGCTTCCTCAAGTCC
CGCGAGGCGGTGGCTTCGGTGTTCCTGATCTCGGGCTTCAGCTTCTCCGGCCAGGGCGACAATGCCGCGCTG
GCCTTCCCGACCTTCAAGGACTGGTCCGAGCGAGGCGCCGAGCAGTCGGCCGCCGCCGAGATCGCCGCGCTG
AACGAGCATTTCGCGCTGCCCGACGACGGCACCATCATGGCCGTGTCGCCGCCACCGATCGACGGCCTGGGC
AACTCCGGCGGTTTCGCCCTACGCCTGATGGACCGCGGTGGCGTCGGCCGCGAGGCCTTGTTGCAGGCCCGC
GATACCTTGCTCGGCGAGGTCCAGACCAACCCGAAATTCCTCTACGCGATGATGGAAGGCCTGGCCGAAGCG
CCGCAACTGCGCCTGTTGATCGACCGGGAGAAGGCCCGCGCCCTGGGGGTGAGCTTCGAGACCATCAGCGGC
ACGCTGTCCGCCGCCTTCGGCTCGGAGGTGATCAATGACTTCACCAATGCGGGGCGCCAACAGCGGGTGGTG
ATCCAGGCCGAACAGGGCAACCGGATGACCCCGGAAAGCGTGCTCGAGCTATACGTGCCTAACGCTGCTGGC
AACCTGGTACCGCTCAGCGCCTTCGTCAGCGTGAAATGGGAAGAGGGACCGGTGCAATTGGTGCGCTACAAC
GGCTACCCGTCGATCCGCATCGTCGGTGACGCCGCGCCCGGCTTCAGCACCGGCGAAGCCATGGCGGAAATG
GAGCGCCTGGCCGCGCAACTGCCGGCCGGCATCGGCTACGAGTGGACCGGCCTGTCCTATCAGGAGAAGGTC
TCCGCCGGGCAGGCCACCAGCCTGTTCGCCCTCGCCATCCTGGTGGTCTTCCTGTTGCTGGTGGCGCTCTAC
GAGAGCTGGTCGATCCCGCTGTCGGTGATGCTGATCGTGCCGATCGGCGCCATCGGCGCGGTGCTCGCGGTA
ATGGTCGCGGGTATGTCCAACGACGTGTATTTCAAGGTCGGCCTGATCACCATCATCGGTCTTTCGGCGAAG
AACGCGATCCTCATCGTCGAGTTCGCCAAGGAACTCTGGGAGCAGGGGCACAGCCTGCGCGACGCCGCCATC
GAGGCCGCGCGCCTGCGCTTCCGACCGATCATCATGACTTCCATGGCGTTCATCCTCGGCGTGGTACCCCTG
GCCCTGGCCAGCGGCGCCGGCGCGGCGAGCCAGCGCGCCATCGGCACCGGAGTGATCGGCGGGATGCTCAGC
GCCACGTTCCTCGGCGTGCTGTTCGTACCCATCTGTTTCGTCTGGCTGCTGTCGCTGCTGCGCAGCAGGCCG
GCGCCCATCGAACAGGCCGCTACGGCCGGGGAGTGA