Pseudosulfitobacter pseudonitzschiae strain H46 plasmid unnamed1, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Roseobacteraceae; Pseudosulfitobacter.
De novo assembly of human genomes with massively parallel short read sequencing
Submitted (05-JUN-2020) Ministry of natural resources, The first Institute of Oceanography, ZhongHan Street, QingDao 266100, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP054600.1.\nBacteria and source DNA available from China Qingdao Laoshan\nDistrict The first Institute of Oceanography Zheng Li.\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 :: CLC NGS Cell v. February-2020\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 103.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 06/01/2023 23:18:00\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) :: 4,846\nCDSs (total) :: 4,793\nGenes (coding) :: 4,747\nCDSs (with protein) :: 4,747\nGenes (RNA) :: 53\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 44\nncRNAs :: 3\nPseudo Genes (total) :: 46\nCDSs (without protein) :: 46\nPseudo Genes (ambiguous residues) :: 0 of 46\nPseudo Genes (frameshifted) :: 19 of 46\nPseudo Genes (incomplete) :: 23 of 46\nPseudo Genes (internal stop) :: 9 of 46\nPseudo Genes (multiple problems) :: 4 of 46\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
shallow sea, symbosis with harmful algal bloom algae
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF025397.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_019294510.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010398645.1
COORDINATES: similar to AA sequence:RefSeq:WP_014528042.1
GO:0008660 - 1-aminocyclopropane-1-carboxylate deaminase activity [Evidence IEA]
GO:0042217 - 1-aminocyclopropane-1-carboxylate catabolic process [Evidence IEA]
1-aminocyclopropane-1-carboxylate deaminase
COORDINATES: similar to AA sequence:RefSeq:WP_011971051.1
Lrp/AsnC family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_020039046.1
GO:0071949 - FAD binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005862472.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007002555.1
GO:0016810 - hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012483704.1
GO:0008721 - D-serine ammonia-lyase activity [Evidence IEA]; GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
GO:0046416 - D-amino acid metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008549300.1
COORDINATES: similar to AA sequence:RefSeq:WP_009451146.1
COORDINATES: similar to AA sequence:RefSeq:WP_005858689.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005858691.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005858693.1
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005858695.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_005858697.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005610316.1
COORDINATES: similar to AA sequence:RefSeq:WP_009812891.1
COORDINATES: similar to AA sequence:RefSeq:WP_007112616.1
GO:0070403 - NAD+ binding [Evidence IEA]
GO:0006631 - fatty acid metabolic process [Evidence IEA]
3-hydroxyacyl-CoA dehydrogenase NAD-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018648106.1
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_007118279.1
COORDINATES: similar to AA sequence:RefSeq:WP_007118280.1
COORDINATES: similar to AA sequence:RefSeq:WP_007118281.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005849092.1
GO:0009927 - histidine phosphotransfer kinase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007118283.1
COORDINATES: similar to AA sequence:RefSeq:WP_007117949.1
COORDINATES: similar to AA sequence:RefSeq:WP_008886499.1
DeoR/GlpR family DNA-binding transcription regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007254724.1
GO:0009331 - glycerol-3-phosphate dehydrogenase complex [Evidence IEA]
GO:0004368 - glycerol-3-phosphate dehydrogenase (quinone) activity [Evidence IEA]
GO:0006072 - glycerol-3-phosphate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007802789.1
COORDINATES: similar to AA sequence:RefSeq:WP_007802788.1
COORDINATES: similar to AA sequence:RefSeq:WP_005861105.1
COORDINATES: similar to AA sequence:RefSeq:WP_007802786.1
GO:0008643 - carbohydrate transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005861099.1
COORDINATES: similar to AA sequence:RefSeq:WP_005861097.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011569024.1
GO:0004370 - glycerol kinase activity [Evidence IEA]
GO:0006071 - glycerol metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF012678.2
GO:0046872 - metal ion binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008228647.1
COORDINATES: similar to AA sequence:RefSeq:WP_008960506.1
COORDINATES: similar to AA sequence:RefSeq:WP_005859913.1
GO:0015562 - efflux transmembrane transporter activity [Evidence IEA]
GO:0042908 - xenobiotic transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008229524.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_018000147.1
COORDINATES: protein motif:HMM:NF024904.2
COORDINATES: similar to AA sequence:RefSeq:WP_020043350.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]; GO:0042578 - phosphoric ester hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007791799.1
GO:0008864 - formyltetrahydrofolate deformylase activity [Evidence IEA]
GO:0009152 - purine ribonucleotide biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011749697.1
GO:0009279 - cell outer membrane [Evidence IEA]
GO:0015288 - porin activity [Evidence IEA]
efflux transporter outer membrane subunit
COORDINATES: similar to AA sequence:RefSeq:WP_013384101.1
COORDINATES: similar to AA sequence:RefSeq:WP_005851763.1
COORDINATES: similar to AA sequence:RefSeq:WP_007170259.1
helix-turn-helix domain-containing protein
DnaA N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009562031.1
COORDINATES: similar to AA sequence:RefSeq:WP_007121353.1
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016736809.1
COORDINATES: similar to AA sequence:RefSeq:WP_007680698.1
GO:0016787 - hydrolase activity [Evidence IEA]; GO:0016810 - hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013651523.1
COORDINATES: similar to AA sequence:RefSeq:WP_008599282.1
COORDINATES: similar to AA sequence:RefSeq:WP_008837266.1
COORDINATES: similar to AA sequence:RefSeq:WP_015042038.1
COORDINATES: similar to AA sequence:RefSeq:WP_004342763.1
COORDINATES: similar to AA sequence:RefSeq:WP_011513114.1
COORDINATES: protein motif:HMM:NF013434.2
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008942916.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010926599.1
COORDINATES: protein motif:HMM:NF024808.2
COORDINATES: protein motif:HMM:NF012235.2
COORDINATES: similar to AA sequence:RefSeq:WP_008942920.1
COORDINATES: similar to AA sequence:RefSeq:WP_008942918.1
COORDINATES: protein motif:HMM:NF013584.2
COORDINATES: similar to AA sequence:RefSeq:WP_019561660.1
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008227223.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007119601.1
COORDINATES: similar to AA sequence:RefSeq:WP_013960298.1
GO:0000256 - allantoin catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013960299.1
GO:0019628 - urate catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010438076.1
GO:0001216 - DNA-binding transcription activator activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007803835.1
COORDINATES: similar to AA sequence:RefSeq:WP_011540017.1
COORDINATES: similar to AA sequence:RefSeq:WP_019294495.1
GO:0004854 - xanthine dehydrogenase activity [Evidence IEA]
GO:0009115 - xanthine catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019294494.1
GO:0043546 - molybdopterin cofactor binding [Evidence IEA]; GO:0004854 - xanthine dehydrogenase activity [Evidence IEA]
xanthine dehydrogenase molybdopterin binding subunit
COORDINATES: similar to AA sequence:RefSeq:WP_009816822.1
GO:0043546 - molybdopterin cofactor binding [Evidence IEA]
GO:0065003 - protein-containing complex assembly [Evidence IEA]; GO:0009115 - xanthine catabolic process [Evidence IEA]
xanthine dehydrogenase accessory protein XdhC
COORDINATES: similar to AA sequence:RefSeq:WP_008193871.1
COORDINATES: similar to AA sequence:RefSeq:WP_009816820.1
GO:0008892 - guanine deaminase activity [Evidence IEA]
GO:0006147 - guanine catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008186267.1
GO:0004037 - allantoicase activity [Evidence IEA]; GO:0071522 - ureidoglycine aminohydrolase activity [Evidence IEA]
GO:0010136 - ureide catabolic process [Evidence IEA]
bifunctional allantoicase/(S)-ureidoglycine aminohydrolase
COORDINATES: similar to AA sequence:RefSeq:WP_014283799.1
COORDINATES: similar to AA sequence:RefSeq:WP_007803861.1
COORDINATES: similar to AA sequence:RefSeq:WP_009178240.1
aminotransferase class V-fold PLP-dependent enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_008195124.1