Novosphingobium decolorationis strain 502str22 plasmid unnamed1, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Novosphingobium.
Submitted (11-JUN-2020) College of Biological and Environmental Sciences, Zhejiang Wanli University, No.8, Qianhu South Road, Ningbo, Zhejiang 315100, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP054857.1.\nBacteria and source DNA available from Jigang Chen, Zhejiang Wanli\nUniversity.\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 Method :: Canu v. v 1.5\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 207.46x\nSequencing Technology :: Oxford Nanopore PromethION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/06/2023 04:28:25\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 4,425\nCDSs (total) :: 4,351\nGenes (coding) :: 4,237\nCDSs (with protein) :: 4,237\nGenes (RNA) :: 74\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 59\nncRNAs :: 3\nPseudo Genes (total) :: 114\nCDSs (without protein) :: 114\nPseudo Genes (ambiguous residues) :: 0 of 114\nPseudo Genes (frameshifted) :: 63 of 114\nPseudo Genes (incomplete) :: 59 of 114\nPseudo Genes (internal stop) :: 5 of 114\nPseudo Genes (multiple problems) :: 13 of 114\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Novosphingobium decolorationis
COORDINATES: similar to AA sequence:RefSeq:WP_018250814.1
GO:0070403 - NAD+ binding [Evidence IEA]
GO:0006631 - fatty acid metabolic process [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
3-hydroxyacyl-CoA dehydrogenase/enoyl-CoA hydratase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008832266.1
GO:0016746 - acyltransferase activity [Evidence IEA]
GO:0006635 - fatty acid beta-oxidation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_001389365.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_004206966.1
COORDINATES: similar to AA sequence:RefSeq:WP_016744466.1
GO:0015288 - porin activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004206964.1
COORDINATES: similar to AA sequence:RefSeq:WP_017503287.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
MerR family DNA-binding transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_019726113.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006939175.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_004207069.1
GO:0052621 - diguanylate cyclase activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]; GO:0019825 - oxygen binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010542917.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_019368253.1
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_010217637.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0015105 - arsenite transmembrane transporter activity [Evidence IEA]
GO:0046685 - response to arsenic-containing substance [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019368255.1
GO:0003674 - molecular_function [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007011060.1
COORDINATES: similar to AA sequence:RefSeq:WP_017502826.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010404396.1
COORDINATES: similar to AA sequence:RefSeq:WP_019368164.1
NAD-dependent succinate-semialdehyde dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_019016573.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_015449233.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213247.1
GO:0016152 - mercury (II) reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004213249.1
GO:0046872 - metal ion binding [Evidence IEA]
heavy metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004213251.1
mercuric transporter MerT family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014072603.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004213255.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012251879.1
COORDINATES: similar to AA sequence:RefSeq:WP_012049888.1
COORDINATES: similar to AA sequence:RefSeq:WP_013301786.1
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013833506.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013959889.1
GO:0008168 - methyltransferase activity [Evidence IEA]
isoprenylcysteine carboxylmethyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009820155.1
COORDINATES: similar to AA sequence:RefSeq:WP_007117292.1
COORDINATES: similar to AA sequence:RefSeq:WP_011413847.1
COORDINATES: similar to AA sequence:RefSeq:WP_007163859.1
COORDINATES: similar to AA sequence:RefSeq:WP_008603941.1
GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013833504.1
GO:0005507 - copper ion binding [Evidence IEA]; GO:0005375 - copper ion transmembrane transporter activity [Evidence IEA]
GO:0006825 - copper ion transport [Evidence IEA]
copper resistance system multicopper oxidase
COORDINATES: similar to AA sequence:RefSeq:WP_007013919.1
COORDINATES: similar to AA sequence:RefSeq:WP_010512303.1
COORDINATES: similar to AA sequence:RefSeq:WP_019368198.1
GO:0016787 - hydrolase activity [Evidence IEA]
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004212886.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0019829 - ATPase-coupled monoatomic cation transmembrane transporter activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]; GO:0015662 - P-type ion transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004212885.1
GO:0008324 - monoatomic cation transmembrane transporter activity [Evidence IEA]
GO:0006812 - monoatomic cation transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004212882.1
COORDINATES: similar to AA sequence:RefSeq:WP_017183574.1
COORDINATES: similar to AA sequence:RefSeq:WP_004212880.1
COORDINATES: similar to AA sequence:RefSeq:WP_020820506.1
COORDINATES: similar to AA sequence:RefSeq:WP_018251219.1
GO:0051139 - metal cation:proton antiporter activity [Evidence IEA]
CusA/CzcA family heavy metal efflux RND transporter
COORDINATES: similar to AA sequence:RefSeq:WP_004212877.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_013039111.1
GO:0015562 - efflux transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017980802.1
COORDINATES: similar to AA sequence:RefSeq:WP_017183571.1
COORDINATES: similar to AA sequence:RefSeq:WP_004212870.1
COORDINATES: similar to AA sequence:RefSeq:WP_007406847.1
COORDINATES: similar to AA sequence:RefSeq:WP_013039112.1
COORDINATES: similar to AA sequence:RefSeq:WP_004212865.1
COORDINATES: similar to AA sequence:RefSeq:WP_004212864.1
Mu transposase C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009824028.1
COORDINATES: similar to AA sequence:RefSeq:WP_004212862.1
COORDINATES: similar to AA sequence:RefSeq:WP_011906627.1
COORDINATES: similar to AA sequence:RefSeq:WP_012553005.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014528003.1
COORDINATES: similar to AA sequence:RefSeq:WP_008067867.1
COORDINATES: similar to AA sequence:RefSeq:WP_008994863.1
COORDINATES: similar to AA sequence:RefSeq:WP_014811252.1
COORDINATES: similar to AA sequence:RefSeq:WP_008066485.1
COORDINATES: similar to AA sequence:RefSeq:WP_008997212.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_007688084.1
COORDINATES: similar to AA sequence:RefSeq:WP_017183650.1
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
COORDINATES: protein motif:HMM:NF024755.2
COORDINATES: similar to AA sequence:RefSeq:WP_020486683.1
COORDINATES: similar to AA sequence:RefSeq:WP_017500318.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007396836.1
COORDINATES: protein motif:HMM:NF024013.2
COORDINATES: protein motif:HMM:NF033542.1
COORDINATES: similar to AA sequence:RefSeq:WP_006313350.1
COORDINATES: protein motif:HMM:TIGR00180.1
COORDINATES: similar to AA sequence:RefSeq:WP_019054139.1
COORDINATES: similar to AA sequence:RefSeq:WP_010188850.1
COORDINATES: similar to AA sequence:RefSeq:WP_006189474.1
COORDINATES: protein motif:HMM:NF015397.2
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013836233.1
COORDINATES: similar to AA sequence:RefSeq:WP_020493507.1
COORDINATES: similar to AA sequence:RefSeq:WP_017980852.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010219621.1
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_013836242.1
COORDINATES: similar to AA sequence:RefSeq:WP_013836243.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612221.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_018062986.1
GO:0000036 - acyl carrier activity [Evidence IEA]
GO:0006633 - fatty acid biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004207574.1
polyhydroxyalkanoic acid system family protein
COORDINATES: similar to AA sequence:RefSeq:WP_004206979.1
GO:0047617 - acyl-CoA hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006948580.1
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]
electron transfer flavoprotein subunit alpha/FixB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013831505.1
GO:0009055 - electron transfer activity [Evidence IEA]
electron transfer flavoprotein subunit beta/FixA family protein
COORDINATES: similar to AA sequence:RefSeq:WP_017503706.1
GO:0010181 - FMN binding [Evidence IEA]; GO:0016703 - oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of one atom of oxygen (internal monooxygenases or internal mixed function oxidases) [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017503705.1
acyl-CoA dehydrogenase C-terminal domain-containing protein