Sphingomonas psychrotolerans strain Cra20 plasmid unnamed, complete sequence.
Bacteria; Proteobacteria; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Sphingomonas.
Complete genome sequence of Sphingomonas sp. Strain Cra20, a psychrotolerant potential plant growth promoting rhizobacteria
Submitted (17-NOV-2017) School of Life Science, Lanzhou University, Tianshui South Road, Lanzhou City 730000, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP024924.1.\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/\nThis genome has a base modification file available.\n\n##Genome-Assembly-Data-START##\nAssembly Method :: SMRT portal v. unspecified\nGenome Coverage :: 50x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/08/2022 00:20:08\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\nGenes (total) :: 4,655\nCDSs (total) :: 4,595\nGenes (coding) :: 4,505\nCDSs (with protein) :: 4,505\nGenes (RNA) :: 60\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 51\nncRNAs :: 3\nPseudo Genes (total) :: 90\nCDSs (without protein) :: 90\nPseudo Genes (ambiguous residues) :: 0 of 90\nPseudo Genes (frameshifted) :: 51 of 90\nPseudo Genes (incomplete) :: 45 of 90\nPseudo Genes (internal stop) :: 4 of 90\nPseudo Genes (multiple problems) :: 10 of 90\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Sphingomonas psychrotolerans
COORDINATES: similar to AA sequence:RefSeq:WP_015457622.1
GO:0006303 - double-strand break repair via nonhomologous end joining [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009407317.1
COORDINATES: similar to AA sequence:RefSeq:WP_010161902.1
COORDINATES: similar to AA sequence:RefSeq:WP_010124808.1
GO:0008408 - 3'-5' exonuclease activity [Evidence IEA]; GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010161916.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405760.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688040.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405748.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_010405746.1
COORDINATES: similar to AA sequence:RefSeq:WP_010236517.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019718197.1
COORDINATES: similar to AA sequence:RefSeq:WP_014076289.1
COORDINATES: protein motif:HMM:NF024491.2
phospholipase D-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010124788.1
COORDINATES: similar to AA sequence:RefSeq:WP_003501430.1
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013961679.1
COORDINATES: similar to AA sequence:RefSeq:WP_007015599.1
COORDINATES: similar to AA sequence:RefSeq:WP_007015600.1
conjugal transfer protein TraG N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007406607.1
COORDINATES: similar to AA sequence:RefSeq:WP_007406581.1
COORDINATES: similar to AA sequence:RefSeq:WP_008829955.1
COORDINATES: similar to AA sequence:RefSeq:WP_019054281.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818495.1
type-F conjugative transfer system pilin assembly protein TrbC
COORDINATES: similar to AA sequence:RefSeq:WP_017502431.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405700.1
COORDINATES: similar to AA sequence:RefSeq:WP_019054285.1
type-F conjugative transfer system protein TraW
COORDINATES: similar to AA sequence:RefSeq:WP_010124755.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405693.1
COORDINATES: similar to AA sequence:RefSeq:WP_007015610.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950630.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950629.1
type IV conjugative transfer system lipoprotein TraV
COORDINATES: similar to AA sequence:RefSeq:WP_010405687.1
COORDINATES: similar to AA sequence:RefSeq:WP_007406582.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405683.1
type-F conjugative transfer system secretin TraK
COORDINATES: similar to AA sequence:RefSeq:WP_011950625.1
type IV conjugative transfer system protein TraE
COORDINATES: similar to AA sequence:RefSeq:WP_015460523.1
type IV conjugative transfer system protein TraL
COORDINATES: similar to AA sequence:RefSeq:WP_010339789.1
COORDINATES: similar to AA sequence:RefSeq:WP_019054296.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405676.1
COORDINATES: similar to AA sequence:RefSeq:WP_008832023.1
transglycosylase SLT domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006953603.1
COORDINATES: similar to AA sequence:RefSeq:WP_008832021.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405672.1
COORDINATES: similar to AA sequence:RefSeq:WP_017956998.1
COORDINATES: similar to AA sequence:RefSeq:WP_017956997.1
zinc-dependent alcohol dehydrogenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_017956996.1
COORDINATES: similar to AA sequence:RefSeq:WP_003044989.1
GO:0004024 - alcohol dehydrogenase activity, zinc-dependent [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
GO:0006113 - fermentation [Evidence IEA]
zinc-binding alcohol dehydrogenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_003180827.1
COORDINATES: similar to AA sequence:RefSeq:WP_017849124.1
GO:0004375 - glycine dehydrogenase (decarboxylating) activity [Evidence IEA]
GO:0006546 - glycine catabolic process [Evidence IEA]
aminomethyl-transferring glycine dehydrogenase subunit GcvPA
COORDINATES: similar to AA sequence:RefSeq:WP_007576446.1
aminomethyl-transferring glycine dehydrogenase subunit GcvPB
COORDINATES: similar to AA sequence:RefSeq:WP_017666773.1
COORDINATES: similar to AA sequence:RefSeq:WP_003929947.1
COORDINATES: protein motif:HMM:NF019013.2
nuclear transport factor 2 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_017957014.1
COORDINATES: similar to AA sequence:RefSeq:WP_008280029.1
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_003518888.1
COORDINATES: similar to AA sequence:RefSeq:WP_007826009.1
COORDINATES: similar to AA sequence:RefSeq:WP_020094818.1
COORDINATES: protein motif:HMM:NF025034.2
COORDINATES: similar to AA sequence:RefSeq:WP_010408212.1
COORDINATES: similar to AA sequence:RefSeq:WP_017502200.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017957060.1
type II CAAX endopeptidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_020038287.1
COORDINATES: similar to AA sequence:RefSeq:WP_003577078.1
ankyrin repeat domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013637275.1
COORDINATES: protein motif:HMM:NF024966.2
COORDINATES: similar to AA sequence:RefSeq:WP_010126807.1
COORDINATES: similar to AA sequence:RefSeq:WP_005662744.1
COORDINATES: similar to AA sequence:RefSeq:WP_015457576.1
COORDINATES: similar to AA sequence:RefSeq:WP_014993624.1
COORDINATES: similar to AA sequence:RefSeq:WP_017520343.1
COORDINATES: protein motif:HMM:NF020227.2
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_015932970.1
GO:0016705 - oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen [Evidence IEA]
LLM class flavin-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_020808266.1
GO:0005451 - monovalent cation:proton antiporter activity [Evidence IEA]
GO:0006812 - cation transport [Evidence IEA]; GO:1902600 - proton transmembrane transport [Evidence IEA]
monovalent cation:proton antiporter-2 (CPA2) family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014993621.1
COORDINATES: similar to AA sequence:RefSeq:WP_018008216.1
COORDINATES: similar to AA sequence:RefSeq:WP_016930163.1
COORDINATES: similar to AA sequence:RefSeq:WP_020048947.1
COORDINATES: protein motif:HMM:NF013098.2
COORDINATES: protein motif:HMM:NF024765.2
COORDINATES: similar to AA sequence:RefSeq:WP_007788672.1
COORDINATES: similar to AA sequence:RefSeq:WP_014330897.1
COORDINATES: similar to AA sequence:RefSeq:WP_007825998.1
COORDINATES: similar to AA sequence:RefSeq:WP_005991630.1
COORDINATES: protein motif:HMM:NF024753.2
PQQ-binding-like beta-propeller repeat protein
COORDINATES: similar to AA sequence:RefSeq:WP_018497206.1
class III extradiol ring-cleavage dioxygenase
COORDINATES: protein motif:HMM:NF019654.2
GO:0003824 - catalytic activity [Evidence IEA]
GO:0018189 - pyrroloquinoline quinone biosynthetic process [Evidence IEA]
pyrroloquinoline quinone precursor peptide PqqA
COORDINATES: similar to AA sequence:RefSeq:WP_018075750.1
pyrroloquinoline quinone biosynthesis protein PqqB
COORDINATES: similar to AA sequence:RefSeq:WP_019087836.1
COORDINATES: similar to AA sequence:RefSeq:WP_008067201.1
GO:0048038 - quinone binding [Evidence IEA]
pyrroloquinoline quinone biosynthesis peptide chaperone PqqD
COORDINATES: similar to AA sequence:RefSeq:WP_012554067.1
GO:0018149 - peptide cross-linking [Evidence IEA]; GO:0018189 - pyrroloquinoline quinone biosynthetic process [Evidence IEA]
pyrroloquinoline quinone biosynthesis protein PqqE
COORDINATES: similar to AA sequence:RefSeq:WP_013209242.1
GO:0004177 - aminopeptidase activity [Evidence IEA]
GO:0030163 - protein catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019073995.1
GO:0030638 - polyketide metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015826299.1
COORDINATES: similar to AA sequence:RefSeq:WP_017183259.1
COORDINATES: similar to AA sequence:RefSeq:WP_010160445.1
GO:0003684 - damaged DNA binding [Evidence IEA]; GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007684598.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950757.1
COORDINATES: protein motif:HMM:NF022633.2
COORDINATES: similar to AA sequence:RefSeq:WP_010124790.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004212862.1
COORDINATES: similar to AA sequence:RefSeq:WP_010339856.1
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_007688084.1
COORDINATES: similar to AA sequence:RefSeq:WP_010218561.1
COORDINATES: similar to AA sequence:RefSeq:WP_008831584.1
COORDINATES: similar to AA sequence:RefSeq:WP_019054339.1
COORDINATES: similar to AA sequence:RefSeq:WP_017501041.1
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010405810.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010405807.1
COORDINATES: similar to AA sequence:RefSeq:WP_010124620.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405806.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405804.1
COORDINATES: similar to AA sequence:RefSeq:WP_013517667.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405799.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405794.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405793.1
COORDINATES: similar to AA sequence:RefSeq:WP_008831350.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405792.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405791.1
COORDINATES: similar to AA sequence:RefSeq:WP_010339728.1
COORDINATES: similar to AA sequence:RefSeq:WP_008829869.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950494.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405783.1
COORDINATES: similar to AA sequence:RefSeq:WP_006316178.1
COORDINATES: similar to AA sequence:RefSeq:WP_015460600.1
COORDINATES: similar to AA sequence:RefSeq:WP_010405780.1
COORDINATES: similar to AA sequence:RefSeq:WP_007015563.1
COORDINATES: similar to AA sequence:RefSeq:WP_011950430.1
type IV secretion system DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019054787.1
GO:0004386 - helicase activity [Evidence IEA]
GO:0006259 - DNA metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010405776.1
COORDINATES: similar to AA sequence:RefSeq:WP_014076970.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006974 - cellular response to DNA damage stimulus [Evidence IEA]; GO:0018142 - protein-DNA covalent cross-linking [Evidence IEA]
SOS response-associated peptidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015459640.1
COORDINATES: similar to AA sequence:RefSeq:WP_008994732.1
COORDINATES: similar to AA sequence:RefSeq:WP_016919787.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011950545.1
GO:0008853 - exodeoxyribonuclease III activity [Evidence IEA]