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Microbe : Pseudomonas putida

Microbe Description

NBRC No. 100650
Scientific name Pseudomonas putida
Synonymous name Arthrobacter siderocapsulatus
History Estacion Experimental del Zaidin, Spain (J.L. Ramos, KT2440)
Other culture collection No.
Other No. KT2440
Reference
2666396
Involvement of Pseudomonas putida RpoN sigma factor in regulation of various metabolic functions. (J Bacteriol. 1989)
12534461
Travels of a Pseudomonas, from Japan around the world. (Environ Microbiol. 2002)

Functional Potential >>Details

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TypePattern Component Gene CDS
Alanine racemization(NFUNC_0063)
RequireA
ALR
(NRULE_0228)
Alanine racemasePP_5269 PP_3722
Alginate degradation(NFUNC_0062)
RequireA
ALGL
(NRULE_0226)
Alginate lyasePP_1281
B
ALY
(NRULE_0227)
Alginate lyasePP_3774
Anthranilate biosynthesis(NFUNC_0038)
RequireA
GLAT
(NRULE_0142)
Glutamine amidotransferasePP_0420
TRPE
(NRULE_0143)
Anthranilate synthase component IPP_0417
Aromatic azo compounds degradation(NFUNC_0073)
RequireA
AZOR
(NRULE_0236)
FMN-dependent NADH-azoreductasePP_4538 PP_2866
Arsenical resistance(NFUNC_0004)
RequireA
ARSB1
(NRULE_0015)
Arsenical pump membrane proteinPP_2717 PP_1929
ARSC1
(NRULE_0017)
Arsenate reductasePP_1645
B
ARSB1
(NRULE_0015)
Arsenical pump membrane proteinPP_1929 PP_2717
ARSC2
(NRULE_0018)
Arsenate reductasePP_2716 PP_1928
Participant 
ARSH
(NRULE_0021)
ArsH proteinPP_1927 PP_2715
Bacitracin resistance(NFUNC_0022)
RequireA
UPPP
(NRULE_0097)
Undecaprenyl-diphosphatasePP_2862
Benzoate degradation (via hydroxylation by dioxygenase)(NFUNC_0017)
RequireA
BENA
(NRULE_0046)
Benzoate 1,2-dioxygenase alpha subunitPP_3161
BENB
(NRULE_0047)
Benzoate 1,2-dioxygenase beta subunitPP_3162
BEND
(NRULE_0082)
1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenasePP_3164
Participant 
BENC
(NRULE_0055)
Benzoate 1,2-dioxygenase electron transfer componentPP_3163
 
FDR1
(NRULE_0032)
Oxygenase electron transfer componentPP_3163 PP_2641 PP_1163 PP_0899 PP_5212 PP_0316 PP_3737 PP_3274
 
FDX1
(NRULE_0034)
Putative Rieske-type ferredoxinPP_5373 PP_0315 PP_1317 PP_3161 PP_3175 PP_3198 PP_3212 PP_3736 PP_4690
Beta-lactam antibiotic resistance(NFUNC_0033)
RequireC
BLAC
(NRULE_0124)
Beta-lactamase class CPP_2876
Betaine biosynthesis (from choline)(NFUNC_0049)
RequireA
BETA
(NRULE_0175)
Choline dehydrogenasePP_5064
Bioplastic degradation(NFUNC_0015)
RequireC
PHAZ3
(NRULE_0088)
Poly(3-hydroxyalkanoate) depolymerasePP_5004
Bioplastic synthesis(NFUNC_0001)
RequireA
PHAC1
(NRULE_0010)
Poly(3-hydroxyalkanoate) polymerasePP_5003 PP_5005
Participant 
PHAF
(NRULE_0377)
Phasin PhaFPP_5007
 
PHAI
(NRULE_0378)
Phasin PhaIPP_5008
Biotin biosynthesis(NFUNC_0051)
RequireA
BIOF
(NRULE_0182)
8-amino-7-oxononanoate synthasePP_0363
BIOA
(NRULE_0183)
Adenosylmethionine-8-amino-7-oxononanoate aminotransferasePP_4984
BIOD
(NRULE_0184)
ATP-dependent dethiobiotin synthetase BioDPP_0366
BIOB
(NRULE_0185)
Biotin synthasePP_0362
Catechol degradation (beta-ketoadipate pathway)(NFUNC_0013)
RequireA
CATA
(NRULE_0052)
Catechol 1,2-dioxygenasePP_3713 PP_3166
CATB2
(NRULE_0053)
(Chloro)muconate cycloisomerasePP_3715
CATC
(NRULE_0054)
Muconolactone isomerasePP_3714
PCAD
(NRULE_0070)
3-oxoadipate enol-lactonasePP_1380
PCAI
(NRULE_0072)
3-oxoadipate CoA-transferase subunit APP_3951
PCAJ
(NRULE_0073)
3-oxoadipate CoA-transferase subunit BPP_3952
PCAF
(NRULE_0074)
Beta-ketoadipyl-CoA thiolasePP_1377 PP_3280
B
CATA
(NRULE_0052)
Catechol 1,2-dioxygenasePP_3713 PP_3166
CATC
(NRULE_0054)
Muconolactone isomerasePP_3714
PCAD
(NRULE_0070)
3-oxoadipate enol-lactonasePP_1380
PCAI
(NRULE_0072)
3-oxoadipate CoA-transferase subunit APP_3951
PCAJ
(NRULE_0073)
3-oxoadipate CoA-transferase subunit BPP_3952
PCAF
(NRULE_0074)
Beta-ketoadipyl-CoA thiolasePP_1377 PP_3280
CATB1
(NRULE_0386)
Muconate cycloisomerasePP_3715
Cephalosporin resistance(NFUNC_0048)
RequireA
BLAC
(NRULE_0124)
Beta-lactamase class CPP_2876
Folate biosynthesis(NFUNC_0044)
RequireB
GLAT
(NRULE_0142)
Glutamine amidotransferasePP_0420
DHPS
(NRULE_0144)
Dihydropteroate synthasePP_4717
FOLA
(NRULE_0147)
Dihydrofolate reductasePP_5132
FOLB
(NRULE_0158)
Dihydroneopterin aldolasePP_0392
FOLK
(NRULE_0159)
2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinasePP_4698 PP_0393
FOLC
(NRULE_0160)
Bifunctional protein FolCPP_1997
PABB
(NRULE_0161)
Para-aminobenzoate synthase component IPP_2329
PABC
(NRULE_0162)
Aminodeoxychorismate lyasePP_1917
Macrolide antibiotic resistance(NFUNC_0045)
RequireB
RLMA
(NRULE_0165)
23S rRNA (guanine-N(1))-methyltransferasePP_1524
D
ERE
(NRULE_0168)
Erythromycin esterasePP_3231
Metal-binding protein(NFUNC_0105)
RequireA
MOP
(NRULE_0322)
Putative molybdenum-binding proteinPP_0241 PP_0360 PP_3830 PP_1018
B
MODE
(NRULE_0323)
Putative molybdate-dependent transcriptional regulatorPP_0360
C
MODA
(NRULE_0324)
Molybdate ABC transporter substrate-binding proteinPP_3828 PP_3732 PP_4305 PP_4881 PP_3818
E
CUER
(NRULE_0328)
Copper-responsive transcriptional regulator CueRPP_0585
F
SOXR
(NRULE_0329)
Redox-sensitive transcriptional activator SoxRPP_2060
H
NIKR
(NRULE_0331)
Nickel-responsive transcriptional regulator NikRPP_3341
I
ISCR
(NRULE_0332)
Rrf2 family transcriptional regulator IscRPP_0841
J
SMTA
(NRULE_0009)
MetallothioneinPP_3262
Metallothionein(NFUNC_0006)
RequireA
SMTA
(NRULE_0009)
MetallothioneinPP_3262
Molybdate transport (ABC transporter)(NFUNC_0097)
RequireA
MODA
(NRULE_0324)
Molybdate ABC transporter substrate-binding proteinPP_3732 PP_3828 PP_3818 PP_4881 PP_4305
Participant 
MODE
(NRULE_0323)
Putative molybdate-dependent transcriptional regulatorPP_0360
 
MODB
(NRULE_0325)
Molybdate ABC transporter permease proteinPP_3829
 
MODC
(NRULE_0326)
Molybdate ABC transporter ATP-binding proteinPP_3830
Protocatechuate degradation (beta-ketoadipate pathway)(NFUNC_0014)
RequireA
PCAG
(NRULE_0066)
Protocatechuate 3,4-dioxygenase alpha subunitPP_4655
PCAH
(NRULE_0067)
Protocatechuate 3,4-dioxygenase beta subunitPP_4656
PCAB
(NRULE_0068)
3-carboxy-cis,cis-muconate cycloisomerasePP_1379
PCAC
(NRULE_0069)
4-carboxymuconolactone decarboxylasePP_1381
PCAD
(NRULE_0070)
3-oxoadipate enol-lactonasePP_1380
PCAI
(NRULE_0072)
3-oxoadipate CoA-transferase subunit APP_3951
PCAJ
(NRULE_0073)
3-oxoadipate CoA-transferase subunit BPP_3952
PCAF
(NRULE_0074)
Beta-ketoadipyl-CoA thiolasePP_1377 PP_3280
Pyrroloquinoline quinone biosynthesis(NFUNC_0020)
RequireA
PQQC
(NRULE_0092)
Pyrroloquinoline-quinone synthasePP_0378
Participant 
PQQA
(NRULE_0090)
Coenzyme PQQ synthesis protein APP_0380
 
PQQB
(NRULE_0091)
Coenzyme PQQ synthesis protein BPP_0379
 
PQQD
(NRULE_0093)
Coenzyme PQQ synthesis protein DPP_0377 PP_2681
 
PQQE
(NRULE_0094)
Coenzyme PQQ synthesis protein EPP_0376
 
PQQF
(NRULE_0095)
Coenzyme PQQ synthesis protein FPP_0381
Riboflavin biosynthesis(NFUNC_0058)
RequireA
RIBB
(NRULE_0200)
3,4-dihydroxy-2-butanone 4-phosphate synthasePP_3813 PP_0530 PP_0516
RIBA
(NRULE_0201)
GTP cyclohydrolase-2PP_0522 PP_3813 PP_0516
RIBD
(NRULE_0202)
Riboflavin biosynthesis protein RibDPP_0514
RIBH
(NRULE_0203)
6,7-dimethyl-8-ribityllumazine synthasePP_0517
RIBE
(NRULE_0204)
Riboflavin synthasePP_0515 PP_2916
Participant 
RIBF
(NRULE_0205)
Riboflavin biosynthesis protein RibFPP_0602
Trehalose biosynthesis (from maltooligosaccharide)(NFUNC_0037)
RequireA
TREY
(NRULE_0140)
Maltooligosyl trehalose synthasePP_4053
TREZ
(NRULE_0141)
Malto-oligosyltrehalose trehalohydrolasePP_4051
Participant 
GLGX
(NRULE_0139)
Glycogen debranching enzymePP_4055
Trehalose biosynthesis (from maltose)(NFUNC_0034)
RequireB
TRES
(NRULE_0128)
Trehalose synthasePP_4059
Uptake of osmoprotectant(NFUNC_0061)
RequireB
EHUB
(NRULE_0216)
Ectoine ABC transporter substrate-binding proteinPP_4428
EHUC
(NRULE_0217)
Ectoine ABC transporter permease proteinPP_4427
EHUD
(NRULE_0218)
Ectoine ABC transporter permease proteinPP_4426
EHUA
(NRULE_0219)
Ectoine ABC transporter ATP-binding proteinPP_4425
C
BCCT
(NRULE_0220)
BCCT family transporterPP_5374 PP_5061 PP_3957 PP_3628 PP_0229
D
PROP
(NRULE_0221)
Osmoprotectant transporterPP_2914
E
OPUE
(NRULE_0222)
Sodium/proline symporterPP_4946

Genomic Overview

BioProject IDPRJNA267
Locus_tag
INSDC entriesAE015451
Sequence statusComplete
Current status
Contig number1
Size(bp) 6,181,863
Gene 5,350
Finishing goal
Assembly method
Coverage
Technology
Reference
  • Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440. (Environ Microbiol. 2002) PMID: 12534463

Data Download

Genomic nucleotide sequence Nucleotide sequence of the coding regions Translation of the coding sequneces List of genes / ORFs
FASTA
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FASTA
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FASTA
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TSV
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1.8 MB 1.6 MB 1.1 MB 413.9 KB