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Microbe : Amycolatopsis mediterranei

Microbe Description

NBRC No. 13415
Scientific name Amycolatopsis mediterranei
Synonymous name Nocardia mediterranei
History IFO 13415 <- SAJ <- OWU (ISP 5501) <- ATCC 13685 <- Lepetit (ME/83)
Other culture collection No. ATCC 13685=CBS 716.72=CCUG 43144=CIP 107074=DSM 43304=ISP 5501=JCM 4789=NBRC 13142=NRRL B-3240=RIA 1376=VKM Ac-798
Other No.
Reference
Not assigned

Functional Potential >>Details

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TypePattern Component Gene CDS
Alanine racemization(NFUNC_0063)
RequireA
ALR
(NRULE_0228)
Alanine racemaseRAM_03780
Alginate degradation(NFUNC_0062)
RequireB
ALY
(NRULE_0227)
Alginate lyaseRAM_20915
n-alkane hydroxylation(NFUNC_0008)
RequireB
ALKB
(NRULE_0024)
Alkane 1-monooxygenaseRAM_32810
C
MMA
(NRULE_0027)
Multicomponent monooxygenase alpha subunitRAM_22015 RAM_22025
MMB
(NRULE_0028)
Multicomponent monooxygenase beta subunitRAM_22015 RAM_22025
FDR1
(NRULE_0032)
Oxygenase electron transfer componentRAM_34595 RAM_10140 RAM_12795 RAM_19825 RAM_20960 RAM_22020 RAM_07965
MME
(NRULE_0033)
Multicomponent monooxygenase effector proteinRAM_22030
Participant 
RUBA
(NRULE_0039)
RubredoxinRAM_32810
 
FDX1
(NRULE_0034)
Putative Rieske-type ferredoxinRAM_25905 RAM_21860 RAM_21425 RAM_20970 RAM_11215 RAM_12805 RAM_13875 RAM_19150 RAM_38855 RAM_20810 RAM_41075 RAM_38825 RAM_29205
D-allose biosynthesis(NFUNC_0077)
RequireA
LRHI
(NRULE_0242)
L-rhamnose isomeraseRAM_23140
Aminoglycoside resistance (by aminoglycoside O-phosphotransferase)(NFUNC_0043)
RequireA
APH6
(NRULE_0155)
Streptomycin 6-kinaseRAM_23750 RAM_05460
Ampicillin resistance(NFUNC_0046)
RequireA
BLAA
(NRULE_0122)
Beta-lactamase class ARAM_18065 RAM_26100
Anthranilate biosynthesis(NFUNC_0038)
RequireA
GLAT
(NRULE_0142)
Glutamine amidotransferaseRAM_00235
TRPE
(NRULE_0143)
Anthranilate synthase component IRAM_11665
Aromatic azo compounds degradation(NFUNC_0073)
RequireA
AZOR
(NRULE_0236)
FMN-dependent NADH-azoreductaseRAM_24775 RAM_30070
Bacitracin resistance(NFUNC_0022)
RequireA
UPPP
(NRULE_0097)
Undecaprenyl-diphosphataseRAM_06125 RAM_23605 RAM_33320
Beta-lactam antibiotic resistance(NFUNC_0033)
RequireA
BLAA
(NRULE_0122)
Beta-lactamase class ARAM_18065 RAM_26100
Betaine biosynthesis (from choline)(NFUNC_0049)
RequireA
BETA
(NRULE_0175)
Choline dehydrogenaseRAM_38845
Bioplastic degradation(NFUNC_0015)
RequireB
PHAZ2
(NRULE_0080)
Poly(3-hydroxyalkanoate) depolymeraseRAM_20645 RAM_19035 RAM_38340 RAM_30165 RAM_30505
C
PHAZ3
(NRULE_0088)
Poly(3-hydroxyalkanoate) depolymeraseRAM_33175
Ectoine biosynthesis(NFUNC_0056)
RequireA
ECTB
(NRULE_0186)
Diaminobutyrate--2-oxoglutarate transaminaseRAM_44120
ECTA
(NRULE_0187)
L-2,4-diaminobutyric acid acetyltransferaseRAM_44125
ECTC
(NRULE_0188)
L-ectoine synthaseRAM_44115
GABA biosynthesis(NFUNC_0066)
RequireA
GAD
(NRULE_0231)
Glutamate decarboxylaseRAM_45505
Hydroxyectoine biosynthesis(NFUNC_0057)
RequireA
ECTD
(NRULE_0189)
Ectoine hydroxylaseRAM_44110
Participant 
ECTB
(NRULE_0186)
Diaminobutyrate--2-oxoglutarate transaminaseRAM_44120
 
ECTA
(NRULE_0187)
L-2,4-diaminobutyric acid acetyltransferaseRAM_44125
 
ECTC
(NRULE_0188)
L-ectoine synthaseRAM_44115
Macrolide antibiotic resistance(NFUNC_0045)
RequireD
ERE
(NRULE_0168)
Erythromycin esteraseRAM_08915 RAM_44465
Metal-binding protein(NFUNC_0105)
RequireA
MOP
(NRULE_0322)
Putative molybdenum-binding proteinRAM_03775 RAM_43700 RAM_43685
C
MODA
(NRULE_0324)
Molybdate ABC transporter substrate-binding proteinRAM_22215 RAM_29490 RAM_41060 RAM_43695 RAM_20560
F
SOXR
(NRULE_0329)
Redox-sensitive transcriptional activator SoxRRAM_15305 RAM_11515
Molybdate transport (ABC transporter)(NFUNC_0097)
RequireA
MODA
(NRULE_0324)
Molybdate ABC transporter substrate-binding proteinRAM_43695 RAM_20560 RAM_22215 RAM_29490 RAM_41060
Participant 
MODB
(NRULE_0325)
Molybdate ABC transporter permease proteinRAM_43690
(R)-pantothenate biosynthesis(NFUNC_0030)
RequireA
PAND
(NRULE_0115)
Aspartate 1-decarboxylaseRAM_25625 RAM_44830
PANB
(NRULE_0116)
3-methyl-2-oxobutanoate hydroxymethyltransferaseRAM_06135
PANE
(NRULE_0117)
2-dehydropantoate 2-reductaseRAM_23300 RAM_37340
PANC
(NRULE_0118)
Pantothenate synthetaseRAM_44835
Penicillin resistance(NFUNC_0047)
RequireA
BLAA
(NRULE_0122)
Beta-lactamase class ARAM_18065 RAM_26100
Phenol degradation(NFUNC_0028)
RequireC
PHEA2
(NRULE_0084)
Aromatic ring hydroxylaseRAM_30725
Participant 
FDR2
(NRULE_0057)
Ferredoxin reductaseRAM_22320 RAM_02005 RAM_09290
 
FDR1
(NRULE_0032)
Oxygenase electron transfer componentRAM_10140 RAM_22020 RAM_34595 RAM_07965 RAM_19825 RAM_12795 RAM_20960
 
MME
(NRULE_0033)
Multicomponent monooxygenase effector proteinRAM_22030
 
FDX1
(NRULE_0034)
Putative Rieske-type ferredoxinRAM_21860 RAM_21425 RAM_20970 RAM_20810 RAM_38855 RAM_38825 RAM_29205 RAM_25905 RAM_41075 RAM_11215 RAM_12805 RAM_13875 RAM_19150
 
FADR1
(NRULE_0101)
NADH-dependent flavin reductaseRAM_12835 RAM_26705 RAM_35210 RAM_36620 RAM_36915
Phytic acid hydrolysis(NFUNC_0085)
RequireA
PHYT
(NRULE_0258)
3-phytaseRAM_11615
Pyrroloquinoline quinone biosynthesis(NFUNC_0020)
RequireA
PQQC
(NRULE_0092)
Pyrroloquinoline-quinone synthaseRAM_40415
Participant 
PQQB
(NRULE_0091)
Coenzyme PQQ synthesis protein BRAM_40430
 
PQQE
(NRULE_0094)
Coenzyme PQQ synthesis protein ERAM_40425
Streptomycin resistance(NFUNC_0054)
RequireC
APH6
(NRULE_0155)
Streptomycin 6-kinaseRAM_23750 RAM_05460
Trehalose biosynthesis (from maltooligosaccharide)(NFUNC_0037)
RequireA
TREY
(NRULE_0140)
Maltooligosyl trehalose synthaseRAM_13175
TREZ
(NRULE_0141)
Malto-oligosyltrehalose trehalohydrolaseRAM_13180
Participant 
GLGX
(NRULE_0139)
Glycogen debranching enzymeRAM_13170 RAM_13185 RAM_15565
Trehalose biosynthesis (from maltose)(NFUNC_0034)
RequireB
TRES
(NRULE_0128)
Trehalose synthaseRAM_13195
Trehalose biosynthesis (from NDP-glucose and glucose-6-phosphate)(NFUNC_0031)
RequireA
TPS
(NRULE_0119)
Trehalose-phosphate synthaseRAM_44490
TPP
(NRULE_0120)
Trehalose-6-phosphate phosphataseRAM_44495
Vancomycin resistance (via D-Ala-D-Lac precursor)(NFUNC_0089)
RequireA
VANA
(NRULE_0265)
D-alanine--D-lactate ligaseRAM_42565
VANH
(NRULE_0266)
D-specific alpha-keto acid dehydrogenaseRAM_42570
VANX
(NRULE_0267)
D-alanyl-D-alanine dipeptidaseRAM_42560
Participant 
VANR
(NRULE_0284)
Two-component system response regulator VanRRAM_42550
 
VANS
(NRULE_0290)
Two-component system histidine kinase VanSRAM_41825 RAM_42555
Vitamin B6 biosynthesis (PdxS/PdxT pathway)(NFUNC_0059)
RequireA
PDXS
(NRULE_0206)
Pyridoxal biosynthesis lyase PdxSRAM_27070
PDXT
(NRULE_0207)
Glutamine amidotransferase subunit PdxTRAM_27025

Genomic Overview

BioProject IDPRJNA43503
Locus_tag
INSDC entriesCP002896
Sequence statusComplete
Current status
Contig number1
Size(bp) 10,236,779
Gene 9,575
Finishing goal
Assembly method
Coverage
Technology
Reference
  • Whole genome sequence of the rifamycin B-producing strain Amycolatopsis mediterranei S699. (J Bacteriol. 2011) PMID: 21914879

Data Download

Genomic nucleotide sequence Nucleotide sequence of the coding regions Translation of the coding sequneces List of genes / ORFs
FASTA
gz
FASTA
gz
FASTA
gz
TSV
uncompressed
2.9 MB 2.6 MB 1.9 MB 703.2 KB