Aliarcobacter faecis strain CCUG 66484 plasmid pAFAEC, complete sequence.
Aliarcobacter faecis (Arcobacter faecis)
Bacteria; Proteobacteria; Epsilonproteobacteria; Campylobacterales; Arcobacteraceae; Aliarcobacter.
Complete genome sequencing of Campylobacter and Arcobacter type strains
Submitted (20-MAY-2020) Produce Safety and Microbiology, USDA, ARS, WRRC, 800 Buchanan St., Albany, CA 94710, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP053838.1.\nBacteria and source DNA available from Bacteria available from the\nLMG culture collection.\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 :: Newbler v. 2.6\nGenome Coverage :: 646x\nSequencing Technology :: PacBio; Illumina MiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/01/2022 03:03:25\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) :: 2,445\nCDSs (total) :: 2,378\nGenes (coding) :: 2,363\nCDSs (with protein) :: 2,363\nGenes (RNA) :: 67\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 50\nncRNAs :: 2\nPseudo Genes (total) :: 15\nCDSs (without protein) :: 15\nPseudo Genes (ambiguous residues) :: 0 of 15\nPseudo Genes (frameshifted) :: 2 of 15\nPseudo Genes (incomplete) :: 12 of 15\nPseudo Genes (internal stop) :: 3 of 15\nPseudo Genes (multiple problems) :: 2 of 15\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF025080.2
GO:0004803 - transposase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012798.2
COORDINATES: similar to AA sequence:RefSeq:WP_076612006.1
GO:0030246 - carbohydrate binding [Evidence IEA]; GO:0003824 - catalytic activity [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF016341.2
COORDINATES: similar to AA sequence:RefSeq:WP_015361457.1
COORDINATES: similar to AA sequence:RefSeq:WP_013141641.1
COORDINATES: similar to AA sequence:RefSeq:WP_014474132.1
COORDINATES: similar to AA sequence:RefSeq:WP_013135460.1
DUF2116 family Zn-ribbon domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004509426.1
GO:0003935 - GTP cyclohydrolase II activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF000768.0
GO:0004635 - phosphoribosyl-AMP cyclohydrolase activity [Evidence IEA]
GO:0000105 - histidine biosynthetic process [Evidence IEA]
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_014474936.1
GO:0004151 - dihydroorotase activity [Evidence IEA]
GO:0009220 - pyrimidine ribonucleotide biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014474935.1
6-pyruvoyl tetrahydropterin synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014704190.1
COORDINATES: similar to AA sequence:RefSeq:WP_013134489.1
COORDINATES: protein motif:HMM:NF012235.2
ATP-binding cassette domain-containing protein
COORDINATES: protein motif:HMM:NF013465.2
metal ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF033527.1
COORDINATES: similar to AA sequence:RefSeq:WP_011372580.1
COORDINATES: similar to AA sequence:RefSeq:WP_014473913.1
COORDINATES: protein motif:HMM:NF022633.2
COORDINATES: similar to AA sequence:RefSeq:WP_014776743.1
COORDINATES: similar to AA sequence:RefSeq:WP_017096190.1
COORDINATES: similar to AA sequence:RefSeq:WP_017096189.1
COORDINATES: protein motif:HMM:NF013964.2
GO:0004519 - endonuclease activity [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008335272.1
COORDINATES: protein motif:HMM:NF013232.2
COORDINATES: protein motif:HMM:NF040013.1
COORDINATES: similar to AA sequence:RefSeq:WP_012856902.1
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF019421.2
type II toxin-antitoxin system HipA family toxin
COORDINATES: protein motif:HMM:NF022635.2
COORDINATES: similar to AA sequence:RefSeq:WP_012012511.1
COORDINATES: protein motif:HMM:NF019315.2
COORDINATES: protein motif:HMM:NF012301.2
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014468686.1
GO:0008832 - dGTPase activity [Evidence IEA]; GO:0000287 - magnesium ion binding [Evidence IEA]
GO:0006203 - dGTP catabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF024487.2
COORDINATES: similar to AA sequence:RefSeq:WP_010504311.1
COORDINATES: similar to AA sequence:RefSeq:WP_013135330.1
COORDINATES: protein motif:HMM:NF024991.2
GO:0004386 - helicase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009315590.1
COORDINATES: similar to AA sequence:RefSeq:WP_011371874.1
COORDINATES: protein motif:HMM:NF024867.2
COORDINATES: similar to AA sequence:RefSeq:WP_004509363.1
exonuclease SbcCD subunit D C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF016488.2
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:NF014273.2
ParB N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF013235.2
COORDINATES: protein motif:HMM:NF015736.2
COORDINATES: protein motif:HMM:NF024242.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004510895.1
COORDINATES: similar to AA sequence:RefSeq:WP_014473573.1
PepSY-associated TM helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004511235.1
COORDINATES: similar to AA sequence:RefSeq:WP_014473125.1
COORDINATES: similar to AA sequence:RefSeq:WP_014475290.1
GO:0015036 - disulfide oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004509953.1
COORDINATES: protein motif:HMM:NF012493.2
COORDINATES: protein motif:HMM:NF020419.2
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: protein motif:HMM:NF012792.2
COORDINATES: similar to AA sequence:RefSeq:WP_002778131.1
COORDINATES: similar to AA sequence:RefSeq:WP_013459637.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013459638.1
class I SAM-dependent DNA methyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_019933750.1
putative DNA binding domain-containing protein
COORDINATES: protein motif:HMM:NF013579.2
GO:0006304 - DNA modification [Evidence IEA]
COORDINATES: protein motif:HMM:NF025495.2
COORDINATES: similar to AA sequence:RefSeq:WP_013621292.1
COORDINATES: protein motif:HMM:NF040700.1
VPA1262 family N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF033581.1
COORDINATES: similar to AA sequence:RefSeq:WP_013836030.1
COORDINATES: protein motif:HMM:NF014691.2
COORDINATES: protein motif:HMM:NF019846.2
GO:0008168 - methyltransferase activity [Evidence IEA]
methyltransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013135301.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]