Salipiger abyssi strain JLT2014 plasmid pPABY4, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Roseobacteraceae; Salipiger.
Deep-sea bacteria in the southern Pacific
Submitted (06-APR-2016) State Key Laboratory for Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University, Zhoulongquan Building A2-319, Xianan, Xiamen 361005, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP015095.1.\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 :: 02/06/2023 04:28:10\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) :: 5,147\nCDSs (total) :: 5,091\nGenes (coding) :: 5,023\nCDSs (with protein) :: 5,023\nGenes (RNA) :: 56\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 46\nncRNAs :: 4\nPseudo Genes (total) :: 68\nCDSs (without protein) :: 68\nPseudo Genes (ambiguous residues) :: 0 of 68\nPseudo Genes (frameshifted) :: 32 of 68\nPseudo Genes (incomplete) :: 33 of 68\nPseudo Genes (internal stop) :: 6 of 68\nPseudo Genes (multiple problems) :: 2 of 68\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_019198747.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_019198745.1
Zn-ribbon domain-containing OB-fold protein
COORDINATES: similar to AA sequence:RefSeq:WP_008905386.1
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018000533.1
GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]
COORDINATES: protein motif:HMM:NF025885.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0008134 - transcription factor binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma 54-interacting transcriptional regulator
COORDINATES: protein motif:HMM:NF015445.2
C4-dicarboxylate TRAP transporter substrate-binding protein
GO:0055085 - transmembrane transport [Evidence IEA]
TRAP transporter substrate-binding protein DctP
COORDINATES: protein motif:HMM:NF016200.2
COORDINATES: similar to AA sequence:RefSeq:WP_015684052.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611905.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; 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_076611556.1
COORDINATES: similar to AA sequence:RefSeq:WP_018442790.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013522.2
GO:0016853 - isomerase activity [Evidence IEA]
GO:0006725 - cellular aromatic compound metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009475381.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011654913.1
NAD-dependent succinate-semialdehyde dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_010138897.1
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_018332626.1
carboxymuconolactone decarboxylase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018904891.1
COORDINATES: similar to AA sequence:RefSeq:WP_011654922.1
COORDINATES: similar to AA sequence:RefSeq:WP_019859239.1
sugar ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_009615920.1
COORDINATES: similar to AA sequence:RefSeq:WP_006338719.1
SMP-30/gluconolactonase/LRE family protein
COORDINATES: protein motif:HMM:NF024799.2
sugar ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_006338726.1
COORDINATES: protein motif:HMM:NF012334.2
COORDINATES: protein motif:HMM:NF013757.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF019322.2
COORDINATES: similar to AA sequence:RefSeq:WP_020203601.1
GO:0016829 - lyase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF014628.2
COORDINATES: protein motif:HMM:NF024772.2
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_008594619.1
COORDINATES: similar to AA sequence:RefSeq:WP_003258714.1
COORDINATES: similar to AA sequence:RefSeq:WP_009502643.1
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007803648.1
COORDINATES: similar to AA sequence:RefSeq:WP_020043698.1
COORDINATES: protein motif:HMM:NF012257.2
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007800782.1
GO:0046872 - metal ion binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
2Fe-2S iron-sulfur cluster-binding protein
COORDINATES: protein motif:HMM:NF014758.2
COORDINATES: protein motif:HMM:NF024777.2
COORDINATES: protein motif:HMM:NF037995.1
COORDINATES: similar to AA sequence:RefSeq:WP_014996518.1
COORDINATES: similar to AA sequence:RefSeq:WP_018000544.1
COORDINATES: similar to AA sequence:RefSeq:WP_017998903.1
alcohol dehydrogenase catalytic domain-containing protein
COORDINATES: protein motif:HMM:NF015431.2
LysR substrate-binding domain-containing protein
COORDINATES: protein motif:HMM:NF015905.2
COORDINATES: similar to AA sequence:RefSeq:WP_012406020.1
COORDINATES: protein motif:HMM:NF016999.2
COORDINATES: similar to AA sequence:RefSeq:WP_006915338.1
GO:0016627 - oxidoreductase activity, acting on the CH-CH group of donors [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018000534.1
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0016614 - oxidoreductase activity, acting on CH-OH group of donors [Evidence IEA]
GMC family oxidoreductase N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013131831.1
COORDINATES: similar to AA sequence:RefSeq:WP_009522055.1
enoyl-CoA hydratase/isomerase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005796364.1
COORDINATES: protein motif:HMM:NF015411.2
COORDINATES: protein motif:HMM:NF024938.2
COORDINATES: similar to AA sequence:RefSeq:WP_009211061.1
COORDINATES: similar to AA sequence:RefSeq:WP_014332818.1
COORDINATES: similar to AA sequence:RefSeq:WP_014332817.1
COORDINATES: similar to AA sequence:RefSeq:WP_003808221.1
GO:0004061 - arylformamidase activity [Evidence IEA]
GO:0019441 - tryptophan catabolic process to kynurenine [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011046470.1
electron transfer flavoprotein subunit beta/FixA family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009503032.1
COORDINATES: similar to AA sequence:RefSeq:WP_011808032.1
COORDINATES: similar to AA sequence:RefSeq:WP_010141133.1
COORDINATES: similar to AA sequence:RefSeq:WP_018313065.1
COORDINATES: similar to AA sequence:RefSeq:WP_012248228.1
class I adenylate-forming enzyme family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019198733.1
COORDINATES: similar to AA sequence:RefSeq:WP_011582263.1
COORDINATES: similar to AA sequence:RefSeq:WP_002711317.1
COORDINATES: protein motif:HMM:NF014757.2
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_011582270.1
CaiB/BaiF CoA-transferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006399053.1
NADPH:quinone oxidoreductase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019646106.1
COORDINATES: similar to AA sequence:RefSeq:WP_007682796.1
COORDINATES: similar to AA sequence:RefSeq:WP_019398663.1
GO:0071949 - FAD binding [Evidence IEA]; GO:0008762 - UDP-N-acetylmuramate dehydrogenase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020186561.1
COORDINATES: similar to AA sequence:RefSeq:WP_006389195.1
COORDINATES: similar to AA sequence:RefSeq:WP_008888068.1
COORDINATES: similar to AA sequence:RefSeq:WP_009572708.1
COORDINATES: protein motif:HMM:NF013756.2
COORDINATES: similar to AA sequence:RefSeq:WP_015915955.1
COORDINATES: similar to AA sequence:RefSeq:WP_018495487.1
COORDINATES: similar to AA sequence:RefSeq:WP_007798597.1
COORDINATES: similar to AA sequence:RefSeq:WP_020039406.1
COORDINATES: similar to AA sequence:RefSeq:WP_020039405.1
COORDINATES: similar to AA sequence:RefSeq:WP_020039404.1
NAD(P)-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003600331.1
COORDINATES: similar to AA sequence:RefSeq:WP_020040290.1
COORDINATES: similar to AA sequence:RefSeq:WP_014761739.1
COORDINATES: similar to AA sequence:RefSeq:WP_015499949.1
COORDINATES: similar to AA sequence:RefSeq:WP_009572598.1
COORDINATES: similar to AA sequence:RefSeq:WP_008885105.1
GO:0008851 - ethanolamine ammonia-lyase activity [Evidence IEA]
GO:0006520 - amino acid metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008884350.1
COORDINATES: similar to AA sequence:RefSeq:WP_019294475.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_012187059.1
GO:0051983 - regulation of chromosome segregation [Evidence IEA]
type II toxin-antitoxin system ParD family antitoxin
COORDINATES: protein motif:HMM:NF013722.2
MaoC/PaaZ C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016693545.1
COORDINATES: protein motif:HMM:NF014564.2
COORDINATES: similar to AA sequence:RefSeq:WP_018000531.1
xanthine dehydrogenase family protein molybdopterin-binding subunit
COORDINATES: similar to AA sequence:RefSeq:WP_009571914.1
COORDINATES: protein motif:HMM:NF012656.2
COORDINATES: similar to AA sequence:RefSeq:WP_011808043.1
COORDINATES: protein motif:HMM:NF012596.2
COORDINATES: similar to AA sequence:RefSeq:WP_011046507.1
GO:0016747 - acyltransferase activity, transferring groups other than amino-acyl groups [Evidence IEA]
GO:0019619 - 3,4-dihydroxybenzoate catabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF024212.2
MarR family winged helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_019564151.1
COORDINATES: protein motif:HMM:NF024675.2