Gordonia polyisoprenivorans VH2 plasmid p174, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Mycobacteriales; Gordoniaceae; Gordonia.
Involvement of two latex-clearing proteins during rubber degradation and insights into the subsequent degradation pathway revealed by the genome sequence of Gordonia polyisoprenivorans strain VH2
Submitted (15-NOV-2011) Genomic and Applied Microbiology, Goettingen Genomics Laboratory, Georg-August-University Goettingen, Grisebachstrasse 8, Goettingen, Lower Saxony 37077, Germany
REFSEQ INFORMATION: The reference sequence is identical to\nCP003120.1.\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/22/2023 14:50:07\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 5,243\nCDSs (total) :: 5,181\nGenes (coding) :: 5,111\nCDSs (with protein) :: 5,111\nGenes (RNA) :: 62\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 50\nncRNAs :: 3\nPseudo Genes (total) :: 70\nCDSs (without protein) :: 70\nPseudo Genes (ambiguous residues) :: 0 of 70\nPseudo Genes (frameshifted) :: 33 of 70\nPseudo Genes (incomplete) :: 39 of 70\nPseudo Genes (internal stop) :: 6 of 70\nPseudo Genes (multiple problems) :: 7 of 70\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: protein motif:HMM:NF012341.2
GO:0004634 - phosphopyruvate hydratase activity [Evidence IEA]
GO:0006096 - glycolytic process [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF014841.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_076611184.1
frameshifted; internal stop; 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: similar to AA sequence:RefSeq:WP_076611777.1
frameshifted; 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: similar to AA sequence:RefSeq:WP_010850118.1
internal stop; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_076612120.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005118249.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024109.2
COORDINATES: similar to AA sequence:RefSeq:WP_014212743.1
COORDINATES: protein motif:HMM:NF024212.2
MarR family winged helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_014050003.1
COORDINATES: similar to AA sequence:RefSeq:WP_010843589.1
COORDINATES: similar to AA sequence:RefSeq:WP_019925165.1
COORDINATES: protein motif:HMM:NF013918.2
ferric reductase-like transmembrane domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019925163.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]
NADH-ubiquinone oxidoreductase-F iron-sulfur binding region domain-containing protein
COORDINATES: protein motif:HMM:NF018595.2
COORDINATES: similar to AA sequence:RefSeq:WP_007323227.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_018505793.1
GO:0070967 - coenzyme F420 binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
GO:0008150 - biological_process [Evidence IEA]
TIGR03618 family F420-dependent PPOX class oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_007322550.1
COORDINATES: similar to AA sequence:RefSeq:WP_019071834.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_019306091.1
COORDINATES: similar to AA sequence:RefSeq:WP_006436533.1
COORDINATES: protein motif:HMM:NF022353.2
COORDINATES: similar to AA sequence:RefSeq:WP_005207354.1
COORDINATES: similar to AA sequence:RefSeq:WP_014360448.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362125.1
COORDINATES: similar to AA sequence:RefSeq:WP_006331332.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
nitroreductase/quinone reductase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005148620.1
COORDINATES: similar to AA sequence:RefSeq:WP_007238238.1
COORDINATES: similar to AA sequence:RefSeq:WP_117422811.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612236.1
COORDINATES: similar to AA sequence:RefSeq:WP_010470080.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007624390.1
COORDINATES: similar to AA sequence:RefSeq:WP_006865066.1
nitroreductase family deazaflavin-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_006368101.1
COORDINATES: similar to AA sequence:RefSeq:WP_012392460.1
GO:0004030 - aldehyde dehydrogenase [NAD(P)+] activity [Evidence IEA]
NADP-dependent succinic semialdehyde dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_020171132.1
GO:0019152 - acetoin dehydrogenase activity [Evidence IEA]
GO:0045150 - acetoin catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006368098.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368097.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368096.1
GO:0016829 - lyase activity [Evidence IEA]
GO:0006520 - amino acid metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014362164.1
LLM class flavin-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_014362165.1
acyl-CoA thioester hydrolase/BAAT C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006368093.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368092.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171137.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368090.1
GO:0004764 - shikimate 3-dehydrogenase (NADP+) activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004572290.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171140.1
GO:0000287 - magnesium ion binding [Evidence IEA]; GO:0052737 - pyruvate dehydrogenase (quinone) activity [Evidence IEA]; GO:0030976 - thiamine pyrophosphate binding [Evidence IEA]
GO:0006090 - pyruvate metabolic process [Evidence IEA]
ubiquinone-dependent pyruvate dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_020171141.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368086.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368085.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362173.1
GO:0000700 - mismatch base pair DNA N-glycosylase activity [Evidence IEA]
GO:0006285 - base-excision repair, AP site formation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006368083.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362175.1
GO:0005575 - cellular_component [Evidence IEA]
GO:0008976 - polyphosphate kinase activity [Evidence IEA]
GO:0006793 - phosphorus metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020171146.1
GO:0016615 - malate dehydrogenase activity [Evidence IEA]
GO:0006108 - malate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006368080.1
COORDINATES: similar to AA sequence:RefSeq:WP_014926987.1
GO:0006886 - intracellular protein transport [Evidence IEA]; GO:0017038 - protein import [Evidence IEA]; GO:0006605 - protein targeting [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006368078.1
CDP-alcohol phosphatidyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010843805.1
GO:0003824 - catalytic activity [Evidence IEA]
GO:0019464 - glycine decarboxylation via glycine cleavage system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006368076.1
GO:0005515 - protein binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006360905.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
MerR family DNA-binding transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006368074.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368073.1
COORDINATES: nucleotide motif:Rfam:14.4:RF00504
glycine riboswitch; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_006368072.1
GO:0004375 - glycine dehydrogenase (decarboxylating) activity [Evidence IEA]
aminomethyl-transferring glycine dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_020171151.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368070.1
GO:0004474 - malate synthase activity [Evidence IEA]
GO:0006097 - glyoxylate cycle [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020171153.1
COORDINATES: similar to AA sequence:RefSeq:WP_006360912.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368067.1
COORDINATES: similar to AA sequence:RefSeq:WP_005058524.1
GO:0003938 - IMP dehydrogenase activity [Evidence IEA]
GuaB1 family IMP dehydrogenase-related protein
COORDINATES: similar to AA sequence:RefSeq:WP_004022153.1
GO:0050661 - NADP binding [Evidence IEA]; GO:0004616 - phosphogluconate dehydrogenase (decarboxylating) activity [Evidence IEA]
GO:0006098 - pentose-phosphate shunt [Evidence IEA]
NADP-dependent phosphogluconate dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_006368064.1
COORDINATES: similar to AA sequence:RefSeq:WP_010843819.1
GO:0045892 - negative regulation of DNA-templated transcription [Evidence IEA]
BlaI/MecI/CopY family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006368062.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171157.1
COORDINATES: similar to AA sequence:RefSeq:WP_019047675.1
GO:0016151 - nickel cation binding [Evidence IEA]; GO:0009039 - urease activity [Evidence IEA]
GO:0043419 - urea catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020171159.1
GO:0035550 - urease complex [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020171160.1
GO:0006807 - nitrogen compound metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005206830.1
GO:0016151 - nickel cation binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006368056.1
GO:0046872 - metal ion binding [Evidence IEA]; GO:0016530 - metallochaperone activity [Evidence IEA]
GO:0019627 - urea metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006368055.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368054.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362198.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362199.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362200.1
GO:0009338 - exodeoxyribonuclease V complex [Evidence IEA]
GO:0008854 - exodeoxyribonuclease V activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006281 - DNA repair [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006368048.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362201.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368044.1
COORDINATES: similar to AA sequence:RefSeq:WP_012834483.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0051082 - unfolded protein binding [Evidence IEA]
GO:0006457 - protein folding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006368038.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368037.1
GO:0003824 - catalytic activity [Evidence IEA]; GO:0070967 - coenzyme F420 binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014362205.1
crotonase/enoyl-CoA hydratase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007622955.1
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: similar to AA sequence:RefSeq:WP_014362206.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368034.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362208.1
COORDINATES: similar to AA sequence:RefSeq:WP_007241253.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171166.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171167.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171168.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368028.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171170.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362214.1
GO:0004845 - uracil phosphoribosyltransferase activity [Evidence IEA]
GO:0009116 - nucleoside metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005206778.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368024.1
GO:0003935 - GTP cyclohydrolase II activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006368023.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368022.1
COORDINATES: similar to AA sequence:RefSeq:WP_005177057.1
GO:0004096 - catalase activity [Evidence IEA]; GO:0004601 - peroxidase activity [Evidence IEA]
GO:0006979 - response to oxidative stress [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014362220.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362221.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171176.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171177.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171178.1
COORDINATES: similar to AA sequence:RefSeq:WP_006370060.1
PPOX class F420-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_011780902.1
GO:0042625 - ATPase-coupled ion transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006333022.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_020171179.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362229.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362230.1
carboxyl transferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006368681.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362232.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362233.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171184.1
GO:0016639 - oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006368685.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171185.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368687.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171187.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368689.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362239.1
COORDINATES: similar to AA sequence:RefSeq:WP_014362240.1
GO:0018784 - (S)-2-haloacid dehalogenase activity [Evidence IEA]
GO:0006805 - xenobiotic metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006368693.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171191.1
COORDINATES: similar to AA sequence:RefSeq:WP_005255166.1
COORDINATES: protein motif:HMM:NF022894.2
COORDINATES: similar to AA sequence:RefSeq:WP_011780141.1
type II toxin-antitoxin system PemK/MazF family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_020173050.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171197.1
GO:0008490 - arsenite secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014362247.1
low molecular weight phosphatase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_020171199.1
ArsI/CadI family heavy metal resistance metalloenzyme
COORDINATES: similar to AA sequence:RefSeq:WP_006902070.1
Rv2640c family ArsR-like transcriptional regulator
COORDINATES: protein motif:HMM:NF017437.2
COORDINATES: protein motif:HMM:NF020859.2
Mu transposase C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF033179.1
TnsA-like heteromeric transposase endonuclease subunit
COORDINATES: similar to AA sequence:RefSeq:WP_007317751.1
COORDINATES: similar to AA sequence:RefSeq:WP_007317752.1
COORDINATES: similar to AA sequence:RefSeq:WP_007620882.1
COORDINATES: similar to AA sequence:RefSeq:WP_019049025.1
COORDINATES: similar to AA sequence:RefSeq:WP_014358297.1
IS256-like element ISGpo1 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_076612158.1
COORDINATES: similar to AA sequence:RefSeq:WP_014358741.1