Vibrio azureus strain LC2-005 plasmid unnamed2, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Vibrionales; Vibrionaceae; Vibrio.
Submitted (05-DEC-2016) Marine Microbiology, Atmosphere and Ocean Research Institute, The University of Tokyo, 5-1-5, Kashiwanoha, Kashiwa-shi, Chiba 277-8564, Japan
REFSEQ INFORMATION: The reference sequence is identical to\nCP018619.1.\nMolecules not circularized.\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. 2.7\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 55.6x\nSequencing Technology :: 454\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 07:52:38\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) :: 4,319\nCDSs (total) :: 4,170\nGenes (coding) :: 4,102\nCDSs (with protein) :: 4,102\nGenes (RNA) :: 149\nrRNAs :: 11, 10, 10 (5S, 16S, 23S)\ncomplete rRNAs :: 11, 10, 10 (5S, 16S, 23S)\ntRNAs :: 114\nncRNAs :: 4\nPseudo Genes (total) :: 68\nCDSs (without protein) :: 68\nPseudo Genes (ambiguous residues) :: 0 of 68\nPseudo Genes (frameshifted) :: 28 of 68\nPseudo Genes (incomplete) :: 52 of 68\nPseudo Genes (internal stop) :: 16 of 68\nPseudo Genes (multiple problems) :: 24 of 68\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_011176793.1
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_005383355.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF017470.2
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF025789.2
COORDINATES: similar to AA sequence:RefSeq:WP_017110305.1
TIGR03761 family integrating conjugative element protein
COORDINATES: protein motif:HMM:NF022645.2
STY4526/YPO1902 family pathogenicity island replication protein
COORDINATES: protein motif:HMM:NF041494.1
COORDINATES: protein motif:HMM:NF024835.2
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_004745287.1
COORDINATES: similar to AA sequence:RefSeq:WP_003855844.1
COORDINATES: similar to AA sequence:RefSeq:WP_005500642.1
COORDINATES: similar to AA sequence:RefSeq:WP_019276581.1
COORDINATES: similar to AA sequence:RefSeq:WP_019825407.1
conjugal transfer protein TraG N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017108816.1
COORDINATES: similar to AA sequence:RefSeq:WP_017108817.1
TIGR03756 family integrating conjugative element protein
COORDINATES: similar to AA sequence:RefSeq:WP_019825414.1
GO:0005575 - cellular_component [Evidence IEA]
GO:0008150 - biological_process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017108819.1
GO:0003674 - molecular_function [Evidence IEA]
TIGR03751 family conjugal transfer lipoprotein
COORDINATES: similar to AA sequence:RefSeq:WP_017108820.1
GO:0005886 - plasma membrane [Evidence IEA]
TIGR03752 family integrating conjugative element protein
COORDINATES: similar to AA sequence:RefSeq:WP_020477266.1
TIGR03749 family integrating conjugative element protein
COORDINATES: similar to AA sequence:RefSeq:WP_019825420.1
TIGR03746 family integrating conjugative element protein
COORDINATES: similar to AA sequence:RefSeq:WP_019825422.1
COORDINATES: similar to AA sequence:RefSeq:WP_006712054.1
COORDINATES: protein motif:HMM:TIGR03758.1
TIGR03758 family integrating conjugative element protein
COORDINATES: similar to AA sequence:RefSeq:WP_019825425.1
RAQPRD family integrative conjugative element protein
COORDINATES: similar to AA sequence:RefSeq:WP_019825427.1
COORDINATES: similar to AA sequence:RefSeq:WP_017108828.1
type IV conjugative transfer system coupling protein TraD
COORDINATES: similar to AA sequence:RefSeq:WP_019825429.1
COORDINATES: similar to AA sequence:RefSeq:WP_006712065.1
COORDINATES: similar to AA sequence:RefSeq:WP_014620958.1
COORDINATES: similar to AA sequence:RefSeq:WP_019825432.1
TIGR03759 family integrating conjugative element protein
COORDINATES: similar to AA sequence:RefSeq:WP_017077951.1
COORDINATES: protein motif:HMM:NF012318.2
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
type II secretion system F family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019820693.1
COORDINATES: similar to AA sequence:RefSeq:WP_016984129.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_019280871.1
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_004744719.1
COORDINATES: similar to AA sequence:RefSeq:WP_006713899.1
COORDINATES: similar to AA sequence:RefSeq:WP_000817271.1
RNA-guided endonuclease TnpB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019821571.1
COORDINATES: similar to AA sequence:RefSeq:WP_006714202.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011839996.1
COORDINATES: similar to AA sequence:RefSeq:WP_017059568.1
COORDINATES: similar to AA sequence:RefSeq:WP_009842387.1
BspA family leucine-rich repeat surface protein
COORDINATES: similar to AA sequence:RefSeq:WP_005534401.1
GO:0007155 - cell adhesion [Evidence IEA]
COORDINATES: protein motif:HMM:NF025113.2
COORDINATES: similar to AA sequence:RefSeq:WP_015312969.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611745.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013124.2
COORDINATES: similar to AA sequence:RefSeq:WP_017058604.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017098631.1
COORDINATES: similar to AA sequence:RefSeq:WP_017098630.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017789123.1
COORDINATES: similar to AA sequence:RefSeq:WP_012548890.1
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF018400.2
COORDINATES: protein motif:HMM:NF014668.2
COORDINATES: similar to AA sequence:RefSeq:WP_086558335.1
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_011218085.1
COORDINATES: similar to AA sequence:RefSeq:WP_012550496.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_017082926.1
GO:0015288 - porin activity [Evidence IEA]
GO:0008643 - carbohydrate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011847801.1
COORDINATES: similar to AA sequence:RefSeq:WP_019816047.1
COORDINATES: similar to AA sequence:RefSeq:WP_008219613.1
COORDINATES: similar to AA sequence:RefSeq:WP_013739748.1
GO:0004521 - endoribonuclease activity [Evidence IEA]
GO:0043571 - maintenance of CRISPR repeat elements [Evidence IEA]
type I-E CRISPR-associated endoribonuclease Cas2e
COORDINATES: similar to AA sequence:RefSeq:WP_012768664.1
GO:0004520 - endodeoxyribonuclease activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
GO:0051607 - defense response to virus [Evidence IEA]; GO:0043571 - maintenance of CRISPR repeat elements [Evidence IEA]
type I-E CRISPR-associated endonuclease Cas1e
COORDINATES: similar to AA sequence:RefSeq:WP_017938163.1
type I-E CRISPR-associated protein Cas5/CasD
COORDINATES: similar to AA sequence:RefSeq:WP_008903304.1
type I-E CRISPR-associated protein Cas7/Cse4/CasC
COORDINATES: similar to AA sequence:RefSeq:WP_001292113.1
type I-E CRISPR-associated protein Cas6/Cse3/CasE
COORDINATES: similar to AA sequence:RefSeq:WP_012505971.1
type I-E CRISPR-associated protein Cse2/CasB
COORDINATES: similar to AA sequence:RefSeq:WP_020802906.1
type I-E CRISPR-associated protein Cse1/CasA
COORDINATES: similar to AA sequence:RefSeq:WP_001214919.1
GO:0004386 - helicase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005372765.1
COORDINATES: similar to AA sequence:RefSeq:WP_005372767.1
COORDINATES: similar to AA sequence:RefSeq:WP_017052758.1