Rhizorhabdus wittichii strain MPO218 plasmid pUPO218, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Rhizorhabdus.
Isolation and genomic analysis of the ibuprofen-degrading bacterium Sphingomonas strain MPO218
Submitted (02-JUL-2020) Microbiology, Centro Andaluz de Biologia del Desarrollo (UPO-CSIC-JA), Ctra/ Utrera, Km1, Sevilla, Sevilla 41013, Spain
REFSEQ INFORMATION: The reference sequence is identical to\nCP059321.1.\nBacteria and source DNA available from CABD.\nThe annotation was added by the NCBI Prokaryotic Genome Annotation\nPipeline (PGAP). Information about PGAP can be found here:\nhttps://www.ncbi.nlm.nih.gov/genome/annotation_prok/\n\n##Genome-Assembly-Data-START##\nAssembly Date :: 30-NOV-2018\nAssembly Method :: SPAdes v. 3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 30.0x\nSequencing Technology :: Oxford Nanopore\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 10/31/2022 04:21:17\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 5,859\nCDSs (total) :: 5,800\nGenes (coding) :: 5,725\nCDSs (with protein) :: 5,725\nGenes (RNA) :: 59\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 48\nncRNAs :: 5\nPseudo Genes (total) :: 75\nCDSs (without protein) :: 75\nPseudo Genes (ambiguous residues) :: 0 of 75\nPseudo Genes (frameshifted) :: 34 of 75\nPseudo Genes (incomplete) :: 48 of 75\nPseudo Genes (internal stop) :: 9 of 75\nPseudo Genes (multiple problems) :: 14 of 75\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
Wastewater treatment of pharmaceutical company
COORDINATES: similar to AA sequence:RefSeq:WP_007688084.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017183652.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_007684497.1
COORDINATES: protein motif:HMM:NF012711.2
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024591.2
COORDINATES: similar to AA sequence:RefSeq:WP_003501317.1
COORDINATES: similar to AA sequence:RefSeq:WP_015747747.1
COORDINATES: protein motif:HMM:NF014841.2
D-2-hydroxyacid dehydrogenase family protein
COORDINATES: protein motif:HMM:NF024950.2
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF025050.2
COORDINATES: similar to AA sequence:RefSeq:WP_007985675.1
COORDINATES: protein motif:HMM:NF019310.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008253257.1
PQQ-dependent dehydrogenase, methanol/ethanol family
COORDINATES: similar to AA sequence:RefSeq:WP_011487160.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012111943.1
COORDINATES: similar to AA sequence:RefSeq:WP_016745019.1
COORDINATES: similar to AA sequence:RefSeq:WP_017667042.1
COORDINATES: similar to AA sequence:RefSeq:WP_013849387.1
COORDINATES: protein motif:HMM:NF036520.2
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_020293771.1
COORDINATES: protein motif:HMM:NF012296.2
COORDINATES: similar to AA sequence:RefSeq:WP_008208915.1
COORDINATES: protein motif:HMM:NF012335.2
alcohol dehydrogenase catalytic domain-containing protein
COORDINATES: protein motif:HMM:NF018893.2
COORDINATES: similar to AA sequence:RefSeq:WP_011951207.1
COORDINATES: similar to AA sequence:RefSeq:WP_013849438.1
COORDINATES: protein motif:HMM:NF014906.2
COORDINATES: similar to AA sequence:RefSeq:WP_016744547.1
nuclear transport factor 2 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013849386.1
COORDINATES: similar to AA sequence:RefSeq:WP_015478720.1
COORDINATES: protein motif:HMM:NF014698.2
COORDINATES: protein motif:HMM:NF013920.2
COORDINATES: protein motif:HMM:NF019581.2
COORDINATES: similar to AA sequence:RefSeq:WP_016747567.1
COORDINATES: similar to AA sequence:RefSeq:WP_011951222.1
COORDINATES: similar to AA sequence:RefSeq:WP_015449304.1
COORDINATES: similar to AA sequence:RefSeq:WP_015449303.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012744.2
COORDINATES: similar to AA sequence:RefSeq:WP_010405628.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931039.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405630.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405631.1
COORDINATES: similar to AA sequence:RefSeq:WP_006947006.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405637.1
heavy metal-responsive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_010405639.1
COORDINATES: protein motif:HMM:NF020839.2
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010405641.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405642.1
COORDINATES: similar to AA sequence:RefSeq:WP_006462134.1
COORDINATES: similar to AA sequence:RefSeq:WP_007407000.1
GO:0003824 - catalytic activity [Evidence IEA]
NAD-dependent epimerase/dehydratase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010405522.1
COORDINATES: similar to AA sequence:RefSeq:WP_017502284.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405525.1
COORDINATES: similar to AA sequence:RefSeq:WP_017502287.1
GO:0015562 - efflux transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010405530.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_010405534.1
COORDINATES: similar to AA sequence:RefSeq:WP_007406376.1
COORDINATES: protein motif:HMM:NF022152.2
COORDINATES: similar to AA sequence:RefSeq:WP_012591566.1
COORDINATES: similar to AA sequence:RefSeq:WP_006470271.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010405567.1
GO:0033573 - high-affinity iron permease complex [Evidence IEA]; GO:0016020 - membrane [Evidence IEA]
GO:0005381 - iron ion transmembrane transporter activity [Evidence IEA]
GO:0034755 - iron ion transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010124851.1
GO:0008324 - cation transmembrane transporter activity [Evidence IEA]
GO:0006812 - cation transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017980802.1
COORDINATES: similar to AA sequence:RefSeq:WP_007015434.1
COORDINATES: similar to AA sequence:RefSeq:WP_006270825.1
COORDINATES: similar to AA sequence:RefSeq:WP_009821109.1
GO:0051139 - metal cation:proton antiporter activity [Evidence IEA]
CusA/CzcA family heavy metal efflux RND transporter
COORDINATES: similar to AA sequence:RefSeq:WP_010405551.1
COORDINATES: similar to AA sequence:RefSeq:WP_008874686.1
COORDINATES: similar to AA sequence:RefSeq:WP_004212882.1
COORDINATES: similar to AA sequence:RefSeq:WP_013039049.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950741.1
COORDINATES: similar to AA sequence:RefSeq:WP_008831135.1
autoinducer binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008831136.1
COORDINATES: similar to AA sequence:RefSeq:WP_008831137.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013039070.1
COORDINATES: similar to AA sequence:RefSeq:WP_008831139.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_014072616.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: similar to AA sequence:RefSeq:WP_008831141.1
COORDINATES: similar to AA sequence:RefSeq:WP_008831142.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950748.1
COORDINATES: similar to AA sequence:RefSeq:WP_013039065.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950750.1
P-type conjugative transfer protein VirB9
COORDINATES: similar to AA sequence:RefSeq:WP_011950751.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950752.1
GO:0043684 - type IV secretion system complex [Evidence IEA]
GO:0044097 - secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008830723.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011950754.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950755.1
type IV toxin-antitoxin system AbiEi family antitoxin domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008830720.1
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010277932.1
COORDINATES: similar to AA sequence:RefSeq:WP_018746767.1
COORDINATES: similar to AA sequence:RefSeq:WP_019706040.1
COORDINATES: similar to AA sequence:RefSeq:WP_008831992.1
COORDINATES: similar to AA sequence:RefSeq:WP_008831993.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0000166 - nucleotide binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008831994.1
phosphoadenosine phosphosulfate reductase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013481234.1
COORDINATES: similar to AA sequence:RefSeq:WP_003518567.1
COORDINATES: protein motif:HMM:NF012488.2
COORDINATES: similar to AA sequence:RefSeq:WP_013039046.1
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017503544.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950812.1
COORDINATES: similar to AA sequence:RefSeq:WP_013039043.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688055.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950778.1
COORDINATES: similar to AA sequence:RefSeq:WP_016744705.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950804.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950782.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950783.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950784.1
COORDINATES: similar to AA sequence:RefSeq:WP_016744708.1
COORDINATES: similar to AA sequence:RefSeq:WP_019370514.1
GO:0003674 - molecular_function [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013849893.1
arsenic resistance N-acetyltransferase ArsN2
COORDINATES: similar to AA sequence:RefSeq:WP_016744714.1
GO:0008490 - arsenite secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020819444.1
GO:0008794 - arsenate reductase (glutaredoxin) activity [Evidence IEA]
This arsenate reductase requires both glutathione and glutaredoxin to convert arsenate to arsenite, after which the efflux transporter formed by ArsA and ArsB can extrude the arsenite from the cell, providing resistance; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010405484.1
COORDINATES: similar to AA sequence:RefSeq:WP_012048460.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_013849894.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950786.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688069.1
COORDINATES: similar to AA sequence:RefSeq:WP_014076246.1
COORDINATES: similar to AA sequence:RefSeq:WP_010165182.1
COORDINATES: similar to AA sequence:RefSeq:WP_010165183.1
COORDINATES: similar to AA sequence:RefSeq:WP_010188938.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010165188.1
COORDINATES: similar to AA sequence:RefSeq:WP_010188936.1
COORDINATES: similar to AA sequence:RefSeq:WP_004212851.1
COORDINATES: similar to AA sequence:RefSeq:WP_004212853.1
COORDINATES: similar to AA sequence:RefSeq:WP_017183650.1