Paracoccus liaowanqingii strain 2251 plasmid unnamed4, complete sequence.
Bacteria; Proteobacteria; Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae; Paracoccus.
Paracoccus liaowanqingii sp. nov., isolated from Tibetan antelope (Pantholops hodgsonii)
Submitted (29-MAY-2019) National Institue for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping District Changbai Road, No. 155, Beijing, Beijing 102206, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP040763.1.\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-Assembly-Data-START##\nAssembly Method :: SOAPdenovo v. 4.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 100.0x\nSequencing Technology :: Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/23/2022 04:22:22\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) :: 4,759\nCDSs (total) :: 4,694\nGenes (coding) :: 4,486\nCDSs (with protein) :: 4,486\nGenes (RNA) :: 65\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 53\nncRNAs :: 3\nPseudo Genes (total) :: 208\nCDSs (without protein) :: 208\nPseudo Genes (ambiguous residues) :: 0 of 208\nPseudo Genes (frameshifted) :: 104 of 208\nPseudo Genes (incomplete) :: 126 of 208\nPseudo Genes (internal stop) :: 32 of 208\nPseudo Genes (multiple problems) :: 49 of 208\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type material of Paracoccus liaowanqingii
COORDINATES: protein motif:HMM:NF021524.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014267094.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_020716754.1
methyltransferase domain-containing protein
COORDINATES: protein motif:HMM:NF013646.2
COORDINATES: similar to AA sequence:RefSeq:WP_002712988.1
COORDINATES: similar to AA sequence:RefSeq:WP_007114283.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF012573.2
COORDINATES: protein motif:HMM:NF024795.2
COORDINATES: similar to AA sequence:RefSeq:WP_008959439.1
COORDINATES: similar to AA sequence:RefSeq:WP_004673808.1
COORDINATES: similar to AA sequence:RefSeq:WP_019016842.1
COORDINATES: similar to AA sequence:RefSeq:WP_018062823.1
COORDINATES: similar to AA sequence:RefSeq:WP_019016840.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007628822.1
COORDINATES: similar to AA sequence:RefSeq:WP_018458723.1
COORDINATES: similar to AA sequence:RefSeq:WP_011569788.1
GO:0000287 - magnesium ion binding [Evidence IEA]; GO:0009045 - xylose isomerase activity [Evidence IEA]
GO:0042732 - D-xylose metabolic process [Evidence IEA]; GO:0006098 - pentose-phosphate shunt [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014763764.1
COORDINATES: similar to AA sequence:RefSeq:WP_003505180.1
GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]; GO:0031317 - tripartite ATP-independent periplasmic transporter complex [Evidence IEA]
GO:0005488 - binding [Evidence IEA]; GO:0005215 - transporter activity [Evidence IEA]
DctP family TRAP transporter solute-binding subunit
COORDINATES: similar to AA sequence:RefSeq:WP_014528228.1
GO:0005886 - plasma membrane [Evidence IEA]; GO:0031317 - tripartite ATP-independent periplasmic transporter complex [Evidence IEA]
GO:0015556 - C4-dicarboxylate transmembrane transporter activity [Evidence IEA]
GO:0015740 - C4-dicarboxylate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014131732.1
COORDINATES: similar to AA sequence:RefSeq:WP_007879381.1
fumarylacetoacetate hydrolase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007761234.1
FadR/GntR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_019965191.1
COORDINATES: similar to AA sequence:RefSeq:WP_018096425.1
COORDINATES: similar to AA sequence:RefSeq:WP_007600758.1
COORDINATES: similar to AA sequence:RefSeq:WP_012640069.1
dihydroxy-acid dehydratase family protein
COORDINATES: protein motif:HMM:NF013395.2
GO:0016787 - hydrolase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013384080.1
COORDINATES: similar to AA sequence:RefSeq:WP_011913260.1
COORDINATES: protein motif:HMM:NF016221.2
COORDINATES: similar to AA sequence:RefSeq:WP_007801278.1
COORDINATES: similar to AA sequence:RefSeq:WP_013065882.1
COORDINATES: similar to AA sequence:RefSeq:WP_013065884.1
COORDINATES: similar to AA sequence:RefSeq:WP_007801282.1
GO:0016791 - phosphatase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006931197.1
COORDINATES: similar to AA sequence:RefSeq:WP_015497841.1
COORDINATES: similar to AA sequence:RefSeq:WP_007803762.1
COORDINATES: similar to AA sequence:RefSeq:WP_009452001.1
COORDINATES: similar to AA sequence:RefSeq:WP_007812056.1
COORDINATES: similar to AA sequence:RefSeq:WP_018208417.1
COORDINATES: similar to AA sequence:RefSeq:WP_009452004.1
COORDINATES: similar to AA sequence:RefSeq:WP_011338476.1
GO:0008927 - mannonate dehydratase activity [Evidence IEA]
GO:0006064 - glucuronate catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012093423.1
COORDINATES: similar to AA sequence:RefSeq:WP_012093422.1
COORDINATES: similar to AA sequence:RefSeq:WP_012093421.1
COORDINATES: similar to AA sequence:RefSeq:WP_008888148.1
TRAP transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007803722.1
COORDINATES: similar to AA sequence:RefSeq:WP_017927016.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004255658.1
COORDINATES: similar to AA sequence:RefSeq:WP_009504635.1
GAF domain-containing sensor histidine kinase
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_015499593.1
COORDINATES: similar to AA sequence:RefSeq:WP_015499592.1
COORDINATES: similar to AA sequence:RefSeq:WP_015499591.1
GO:0016811 - hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018388818.1
COORDINATES: similar to AA sequence:RefSeq:WP_012320261.1
COORDINATES: similar to AA sequence:RefSeq:WP_006610594.1
COORDINATES: similar to AA sequence:RefSeq:WP_015499587.1
branched-chain amino acid ABC transporter permease
COORDINATES: similar to AA sequence:RefSeq:WP_006610596.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]
GO:0033221 - ATPase-coupled urea transmembrane transporter activity [Evidence IEA]; GO:0033219 - urea binding [Evidence IEA]
GO:0015840 - urea transport [Evidence IEA]
urea ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF015799.2
COORDINATES: similar to AA sequence:RefSeq:WP_011157959.1
transporter substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020186093.1
phospholipase D-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011455181.1
YihY/virulence factor BrkB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018071842.1
COORDINATES: similar to AA sequence:RefSeq:WP_009505045.1
COORDINATES: similar to AA sequence:RefSeq:WP_010464770.1
COORDINATES: similar to AA sequence:RefSeq:WP_005855629.1
COORDINATES: similar to AA sequence:RefSeq:WP_009504147.1
COORDINATES: similar to AA sequence:RefSeq:WP_018260801.1
COORDINATES: similar to AA sequence:RefSeq:WP_009504145.1
COORDINATES: similar to AA sequence:RefSeq:WP_009504144.1
COORDINATES: similar to AA sequence:RefSeq:WP_005855639.1
GO:0036361 - racemase activity, acting on amino acids and derivatives [Evidence IEA]
GO:0006807 - nitrogen compound metabolic process [Evidence IEA]
aspartate/glutamate racemase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008032997.1
COORDINATES: similar to AA sequence:RefSeq:WP_007799280.1
COORDINATES: similar to AA sequence:RefSeq:WP_012641014.1
COORDINATES: similar to AA sequence:RefSeq:WP_010969591.1
COORDINATES: similar to AA sequence:RefSeq:WP_012641012.1
COORDINATES: similar to AA sequence:RefSeq:WP_002723877.1
COORDINATES: similar to AA sequence:RefSeq:WP_015314625.1
COORDINATES: protein motif:HMM:NF021098.2
COORDINATES: similar to AA sequence:RefSeq:WP_015824003.1
COORDINATES: similar to AA sequence:RefSeq:WP_008964953.1
COORDINATES: protein motif:HMM:NF013736.2
GO:0005515 - protein binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF017238.2
GO:0008757 - S-adenosylmethionine-dependent methyltransferase activity [Evidence IEA]
GO:0009877 - nodulation [Evidence IEA]; GO:0009312 - oligosaccharide biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007256461.1
COORDINATES: protein motif:HMM:NF025025.2
COORDINATES: similar to AA sequence:RefSeq:WP_008227223.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
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_009210494.1
COORDINATES: similar to AA sequence:RefSeq:WP_006469503.1
COORDINATES: similar to AA sequence:RefSeq:WP_012494902.1
COORDINATES: similar to AA sequence:RefSeq:WP_007007325.1
COORDINATES: similar to AA sequence:RefSeq:WP_019965168.1
COORDINATES: similar to AA sequence:RefSeq:WP_011046957.1
COORDINATES: similar to AA sequence:RefSeq:WP_007007322.1
COORDINATES: similar to AA sequence:RefSeq:WP_013396229.1
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009816149.1
COORDINATES: similar to AA sequence:RefSeq:WP_008182659.1
COORDINATES: similar to AA sequence:RefSeq:WP_005861591.1
COORDINATES: similar to AA sequence:RefSeq:WP_020040569.1
COORDINATES: similar to AA sequence:RefSeq:WP_008558591.1
COORDINATES: similar to AA sequence:RefSeq:WP_018001451.1
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006332371.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_020378520.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_013640721.1
COORDINATES: similar to AA sequence:RefSeq:WP_003572082.1
COORDINATES: protein motif:HMM:NF012772.2
COORDINATES: similar to AA sequence:RefSeq:WP_011331267.1
COORDINATES: protein motif:HMM:NF024934.2
COORDINATES: similar to AA sequence:RefSeq:WP_007254330.1
COORDINATES: protein motif:HMM:NF012257.2
Crp/Fnr family transcriptional regulator
COORDINATES: protein motif:HMM:NF013530.2
NAD-dependent epimerase/dehydratase family protein
COORDINATES: protein motif:HMM:NF024751.2
COORDINATES: protein motif:HMM:NF033540.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011842705.1
COORDINATES: similar to AA sequence:RefSeq:WP_011339061.1
internal stop; 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_076611116.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010434731.1
COORDINATES: similar to AA sequence:RefSeq:WP_002943955.1
COORDINATES: similar to AA sequence:RefSeq:WP_012452662.1
COORDINATES: similar to AA sequence:RefSeq:WP_016834080.1
COORDINATES: protein motif:HMM:NF024895.2
COORDINATES: protein motif:HMM:NF013632.2
COORDINATES: similar to AA sequence:RefSeq:WP_006275369.1
COORDINATES: protein motif:HMM:NF015867.2
GO:0009306 - protein secretion [Evidence IEA]
COORDINATES: protein motif:HMM:NF023044.2
prepilin-type N-terminal cleavage/methylation domain-containing protein
COORDINATES: protein motif:HMM:NF024850.2
COORDINATES: similar to AA sequence:RefSeq:WP_010543186.1
type II secretion system F family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019367871.1
GO:0015627 - type II protein secretion system complex [Evidence IEA]
GO:0015628 - protein secretion by the type II secretion system [Evidence IEA]
COORDINATES: protein motif:HMM:NF016493.2
COORDINATES: protein motif:HMM:TIGR01709.2
COORDINATES: similar to AA sequence:RefSeq:WP_005848557.1
type II secretion system major pseudopilin GspG
COORDINATES: protein motif:HMM:NF019575.2
COORDINATES: protein motif:HMM:NF014551.2
type II secretion system minor pseudopilin GspI
COORDINATES: protein motif:HMM:NF022800.2
COORDINATES: similar to AA sequence:RefSeq:WP_005848548.1
COORDINATES: protein motif:HMM:NF022135.2
COORDINATES: similar to AA sequence:RefSeq:WP_011456228.1
COORDINATES: protein motif:HMM:NF024116.2
COORDINATES: protein motif:HMM:NF013465.2
GO:0046872 - metal ion binding [Evidence IEA]
zinc ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_011456230.1
COORDINATES: protein motif:HMM:NF024583.2
COORDINATES: similar to AA sequence:RefSeq:WP_020096522.1
COORDINATES: similar to AA sequence:RefSeq:WP_017927275.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611724.1
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: similar to AA sequence:RefSeq:WP_012497347.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020095765.1
COORDINATES: protein motif:HMM:NF016807.2
COORDINATES: similar to AA sequence:RefSeq:WP_003577065.1
COORDINATES: similar to AA sequence:RefSeq:WP_011907535.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011805842.1
COORDINATES: protein motif:HMM:TIGR00254.1
sensor domain-containing diguanylate cyclase
COORDINATES: similar to AA sequence:RefSeq:WP_010396354.1
COORDINATES: similar to AA sequence:RefSeq:WP_011747520.1
COORDINATES: similar to AA sequence:RefSeq:WP_015496440.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
glycine/betaine ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_015500730.1
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007120397.1
GO:0043190 - ATP-binding cassette (ABC) transporter complex [Evidence IEA]; GO:0009898 - cytoplasmic side of plasma membrane [Evidence IEA]
GO:0015837 - amine transport [Evidence IEA]
Members of the family are the ATP-binding subunit of ABC transporters for substrates such as betaine, L-proline or other amino acids, choline, carnitine, etc. The substrate specificity is best determined from the substrate-binding subunit, rather than this subunit, as it interacts with the permease subunit and not with substrate directly; Derived by automated computational analysis using gene prediction method: Protein Homology.
betaine/proline/choline family ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_008117934.1
COORDINATES: similar to AA sequence:RefSeq:WP_012640921.1
COORDINATES: similar to AA sequence:RefSeq:WP_019955909.1
COORDINATES: similar to AA sequence:RefSeq:WP_011836264.1
cation diffusion facilitator family transporter
COORDINATES: similar to AA sequence:RefSeq:WP_011840058.1
COORDINATES: similar to AA sequence:RefSeq:WP_009817264.1
COORDINATES: similar to AA sequence:RefSeq:WP_008884917.1
COORDINATES: similar to AA sequence:RefSeq:WP_041531465.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611946.1
COORDINATES: similar to AA sequence:RefSeq:WP_002722743.1
GO:0003933 - GTP cyclohydrolase activity [Evidence IEA]
GO:0035998 - 7,8-dihydroneopterin 3'-triphosphate biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006472448.1
COORDINATES: similar to AA sequence:RefSeq:WP_020812001.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611178.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611445.1
COORDINATES: similar to AA sequence:RefSeq:WP_009540515.1
COORDINATES: similar to AA sequence:RefSeq:WP_020041040.1
COORDINATES: similar to AA sequence:RefSeq:WP_015497206.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611443.1
frameshifted; internal stop; 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:NF013080.2
GO:0008484 - sulfuric ester hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018857894.1
GO:0004553 - hydrolase activity, hydrolyzing O-glycosyl compounds [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012187425.1
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_017156638.1
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_012654342.1
COORDINATES: similar to AA sequence:RefSeq:WP_018327152.1
COORDINATES: similar to AA sequence:RefSeq:WP_011537005.1
COORDINATES: similar to AA sequence:RefSeq:WP_018064440.1
COORDINATES: similar to AA sequence:RefSeq:WP_008492077.1
COORDINATES: similar to AA sequence:RefSeq:WP_003492753.1
COORDINATES: similar to AA sequence:RefSeq:WP_018689282.1
COORDINATES: similar to AA sequence:RefSeq:WP_018064444.1
zinc-binding alcohol dehydrogenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018689284.1
COORDINATES: similar to AA sequence:RefSeq:WP_012061880.1
COORDINATES: similar to AA sequence:RefSeq:WP_008196010.1
COORDINATES: similar to AA sequence:RefSeq:WP_013529210.1
COORDINATES: similar to AA sequence:RefSeq:WP_011746597.1
MurR/RpiR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_011746596.1
COORDINATES: similar to AA sequence:RefSeq:WP_018481983.1
sugar ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_011746594.1
substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014762636.1
COORDINATES: similar to AA sequence:RefSeq:WP_011339001.1
COORDINATES: similar to AA sequence:RefSeq:WP_009286200.1
esterase-like activity of phytase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007089844.1
GO:0031004 - potassium ion-transporting ATPase complex [Evidence IEA]
GO:0008556 - P-type potassium transmembrane transporter activity [Evidence IEA]
GO:0006813 - potassium ion transport [Evidence IEA]
potassium-transporting ATPase subunit KdpA
COORDINATES: similar to AA sequence:RefSeq:WP_008386535.1
potassium-transporting ATPase subunit KdpB
COORDINATES: similar to AA sequence:RefSeq:WP_020087326.1
potassium-transporting ATPase subunit KdpC
COORDINATES: similar to AA sequence:RefSeq:WP_020043193.1
COORDINATES: similar to AA sequence:RefSeq:WP_015921583.1
COORDINATES: similar to AA sequence:RefSeq:WP_015316678.1
COORDINATES: similar to AA sequence:RefSeq:WP_013077983.1
COORDINATES: similar to AA sequence:RefSeq:WP_009805029.1
GO:0006303 - double-strand break repair via nonhomologous end joining [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018235529.1
GO:0045027 - DNA end binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012643358.1
COORDINATES: protein motif:HMM:NF020376.2
GO:0016818 - hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]