Neokomagataea tanensis strain AH13 = NBRC 106556 plasmid unnamed1, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodospirillales; Acetobacteraceae; Neokomagataea.
The complete genome sequence of Neokomagataea tanensis NBRC 106556(T)
Submitted (20-SEP-2018) Institute of Biological Sciences, University of Malaya, University of Malaya, Kuala Lumpur, Kuala Lumpur 50603, Malaysia
REFSEQ INFORMATION: The reference sequence is identical to\nCP032486.1.\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 Date :: 20-SEP-2018\nAssembly Method :: HGAP v. 2\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 180.0x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/25/2023 00:48:01\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) :: 2,379\nCDSs (total) :: 2,289\nGenes (coding) :: 2,221\nCDSs (with protein) :: 2,221\nGenes (RNA) :: 90\nrRNAs :: 7, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 7, 7, 7 (5S, 16S, 23S)\ntRNAs :: 65\nncRNAs :: 4\nPseudo Genes (total) :: 68\nCDSs (without protein) :: 68\nPseudo Genes (ambiguous residues) :: 0 of 68\nPseudo Genes (frameshifted) :: 46 of 68\nPseudo Genes (incomplete) :: 33 of 68\nPseudo Genes (internal stop) :: 12 of 68\nPseudo Genes (multiple problems) :: 20 of 68\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
Thailand: Tan Island, Hat Khanom-Mu Ko Thale Tai National Park, Nakhon-Si- Thammarat
Pattaraporn Yukphan, Taweesak Malimas, Yuki Muramatsu, Wanchern Potacharoen, Somboon Tanasupawat, Yasuyoshi Nakaga, Morakot Tanticharoen And Yuzo Yamada
COORDINATES: similar to AA sequence:RefSeq:WP_010404746.1
This protein belongs to the uracil DNA glycosylase superfamily, members of which act in excision repair of DNA. However, it belongs more specifically to UdgX branch, whose founding member was found to bind uracil in DNA (where it does not belong), without cleaving it, appears to promote DNA repair by a pathway involving RecA, rather than base excision; 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_006939175.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; 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_010686913.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: nucleotide motif:Rfam:14.4:RF01497
AL1L pseudoknot; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: protein motif:HMM:NF015803.2
ShlB/FhaC/HecB family hemolysin secretion/activation protein
COORDINATES: protein motif:HMM:NF024997.2
COORDINATES: protein motif:HMM:NF024795.2
COORDINATES: similar to AA sequence:RefSeq:WP_010505769.1
COORDINATES: similar to AA sequence:RefSeq:WP_012554528.1
COORDINATES: similar to AA sequence:RefSeq:WP_019088886.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [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: similar to AA sequence:RefSeq:WP_011654560.1
COORDINATES: similar to AA sequence:RefSeq:WP_009488589.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_076611905.1
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_008850234.1
COORDINATES: protein motif:HMM:NF021144.2
GO:0005886 - plasma membrane [Evidence IEA]
GO:0008556 - P-type potassium transmembrane transporter activity [Evidence IEA]
GO:0043462 - regulation of ATP-dependent activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012813133.1
GO:0031004 - potassium ion-transporting ATPase complex [Evidence IEA]
GO:0006813 - potassium ion transport [Evidence IEA]
potassium-transporting ATPase subunit KdpA
COORDINATES: similar to AA sequence:RefSeq:WP_012813134.1
potassium-transporting ATPase subunit KdpB
COORDINATES: similar to AA sequence:RefSeq:WP_012813135.1
potassium-transporting ATPase subunit KdpC
COORDINATES: similar to AA sequence:RefSeq:WP_012813136.1
COORDINATES: similar to AA sequence:RefSeq:WP_012813137.1
COORDINATES: protein motif:HMM:NF014385.2
GO:0015562 - efflux transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR01730.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_012224882.1
GO:0051139 - metal cation:proton antiporter activity [Evidence IEA]
CusA/CzcA family heavy metal efflux RND transporter
COORDINATES: similar to AA sequence:RefSeq:WP_006115455.1
COORDINATES: similar to AA sequence:RefSeq:WP_012385131.1
COORDINATES: similar to AA sequence:RefSeq:WP_008759471.1
COORDINATES: similar to AA sequence:RefSeq:WP_010968496.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_019091967.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_015075038.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_015073694.1
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF016999.2
COORDINATES: similar to AA sequence:RefSeq:WP_004544638.1
COORDINATES: protein motif:HMM:NF015431.2
COORDINATES: protein motif:HMM:NF012382.2
PLP-dependent aminotransferase family protein
COORDINATES: protein motif:HMM:NF012610.2
COORDINATES: protein motif:HMM:NF024260.2
COORDINATES: protein motif:HMM:NF015862.2
COORDINATES: similar to AA sequence:RefSeq:WP_018980510.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014500983.1
dihydrodipicolinate synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_042893601.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611975.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF019498.2
COORDINATES: similar to AA sequence:RefSeq:WP_003067182.1
GO:0015129 - lactate transmembrane transporter activity [Evidence IEA]
GO:0015727 - lactate transport [Evidence IEA]
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:WP_011251532.1
COORDINATES: protein motif:HMM:NF013324.2
COORDINATES: protein motif:HMM:NF015393.2
COORDINATES: similar to AA sequence:RefSeq:WP_015459794.1
COORDINATES: similar to AA sequence:RefSeq:WP_010505777.1
COORDINATES: similar to AA sequence:RefSeq:WP_007015959.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611992.1
COORDINATES: similar to AA sequence:RefSeq:WP_011251427.1
GO:0003824 - catalytic activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]
GO:0006304 - DNA modification [Evidence IEA]
Eco57I restriction-modification methylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011251539.1
COORDINATES: similar to AA sequence:RefSeq:WP_010505019.1
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_008852970.1
COORDINATES: protein motif:HMM:NF021154.2
COORDINATES: protein motif:HMM:TIGR02566.1
GO:0003674 - molecular_function [Evidence IEA]
GO:0043571 - maintenance of CRISPR repeat elements [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR03637.1
GO:0004520 - endodeoxyribonuclease activity [Evidence IEA]
type I-F CRISPR-associated endonuclease Cas1f
COORDINATES: protein motif:HMM:NF037707.2
GO:0004521 - endoribonuclease activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_001067784.1
COORDINATES: protein motif:HMM:NF018915.2
contact-dependent growth inhibition system immunity protein
COORDINATES: similar to AA sequence:RefSeq:WP_004636773.1
COORDINATES: similar to AA sequence:RefSeq:WP_003618721.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003618720.1
COORDINATES: similar to AA sequence:RefSeq:WP_015498857.1
COORDINATES: similar to AA sequence:RefSeq:WP_011084489.1
COORDINATES: protein motif:HMM:TIGR04415.1
COORDINATES: similar to AA sequence:RefSeq:WP_020324562.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_007281802.1
GO:0016757 - glycosyltransferase activity [Evidence IEA]
autotransporter strand-loop-strand O-heptosyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_018901396.1
COORDINATES: similar to AA sequence:RefSeq:WP_015073766.1
COORDINATES: similar to AA sequence:RefSeq:WP_008066271.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
putative DNA modification/repair radical SAM protein