Pseudovibrio brasiliensis strain Ab134 plasmid pAb134-04, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Stappiaceae; Pseudovibrio.
A novel family of nonribosomal peptides modulate collective behavior in Pseudovibrio bacteria isolated from marine sponges
Submitted (03-MAY-2021) Department of Pharmaceutical Sciences, University of Illinois at Chicago, 900 S. Ashland Ave, Chicago, IL 60607, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP074130.1.\nBacteria and source DNA available from Alessandra S. Eustaquio,\nUniversity of Illinois at Chicago.\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 :: SPAdes v. SEP-2017\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 400.0x\nSequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/28/2023 11:08:44\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) :: 5,418\nCDSs (total) :: 5,324\nGenes (coding) :: 5,296\nCDSs (with protein) :: 5,296\nGenes (RNA) :: 94\nrRNAs :: 6, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 6, 6 (5S, 16S, 23S)\ntRNAs :: 72\nncRNAs :: 4\nPseudo Genes (total) :: 28\nCDSs (without protein) :: 28\nPseudo Genes (ambiguous residues) :: 0 of 28\nPseudo Genes (frameshifted) :: 5 of 28\nPseudo Genes (incomplete) :: 24 of 28\nPseudo Genes (internal stop) :: 8 of 28\nPseudo Genes (multiple problems) :: 6 of 28\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Pseudovibrio brasiliensis
Brazil: Joao Fernandinho Beach, Buzios, state of Rio de Janeiro
COORDINATES: protein motif:HMM:NF040974.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_018234293.1
GO:0008168 - methyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017085251.1
GO:0003824 - catalytic activity [Evidence IEA]
phosphoadenosine phosphosulfate reductase family protein
COORDINATES: protein motif:HMM:NF013311.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: protein motif:HMM:NF024949.2
helix-turn-helix transcriptional regulator
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_008549198.1
GO:0033103 - protein secretion by the type VI secretion system [Evidence IEA]
Hcp family type VI secretion system effector
COORDINATES: similar to AA sequence:RefSeq:WP_014290239.1
COORDINATES: similar to AA sequence:RefSeq:WP_014284002.1
GO:0003674 - molecular_function [Evidence IEA]
type VI secretion system tip protein VgrG
COORDINATES: similar to AA sequence:RefSeq:WP_013760980.1
COORDINATES: protein motif:HMM:NF024894.2
COORDINATES: protein motif:HMM:NF024758.2
GO:0008233 - peptidase activity [Evidence IEA]; GO:0008236 - serine-type peptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013540.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:TIGR01414.1
autotransporter domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019295126.1
GO:0008379 - thioredoxin peroxidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013753.2
COORDINATES: similar to AA sequence:RefSeq:WP_013652230.1
COORDINATES: similar to AA sequence:RefSeq:WP_019964516.1
GO:0016757 - glycosyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019621157.1
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: protein motif:HMM:TIGR01730.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: protein motif:HMM:NF014717.2
COORDINATES: protein motif:HMM:NF012925.2
COORDINATES: protein motif:HMM:NF024252.2
COORDINATES: protein motif:HMM:NF012792.2
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF020265.2
COORDINATES: similar to AA sequence:RefSeq:WP_006314261.1
COORDINATES: similar to AA sequence:RefSeq:WP_004211497.1
COORDINATES: similar to AA sequence:RefSeq:WP_019053929.1
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:NF016820.2
COORDINATES: protein motif:HMM:NF015118.2
VirB4 family type IV secretion system protein
COORDINATES: protein motif:HMM:NF016491.2
GO:0030255 - protein secretion by the type IV secretion system [Evidence IEA]
COORDINATES: protein motif:HMM:NF016238.2
COORDINATES: protein motif:HMM:NF015487.2
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: protein motif:HMM:NF015688.2
COORDINATES: similar to AA sequence:RefSeq:WP_006939197.1
COORDINATES: similar to AA sequence:RefSeq:WP_020592872.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: protein motif:HMM:NF024755.2
COORDINATES: protein motif:HMM:NF015397.2
TraI/MobA(P) family conjugative relaxase
COORDINATES: protein motif:HMM:NF013594.2
GO:0004222 - metalloendopeptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR04393.1
COORDINATES: protein motif:HMM:NF015497.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611339.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
frameshifted; internal stop; 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_076612398.1
GO:0004803 - transposase activity [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:TIGR03454.1