Prosthecochloris aestuarii DSM 271 plasmid pPAES01, complete sequence.
Bacteria; Chlorobiota; Chlorobiia; Chlorobiales; Chlorobiaceae; Prosthecochloris.
Complete sequence of plasmid of Prosthecochloris aestuarii DSM 271
Submitted (25-JUN-2008) US DOE Joint Genome Institute, 2800 Mitchell Drive B100, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP001109.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 3634472\nSource DNA available from Donald A. Bryant (dab14@psu.edu)\nBacteria available from DSMZ: DSM 271\nContacts: Donald A. Bryant (dab14@psu.edu)\n David Bruce (microbe@cuba.jgi-psf.org)\nAnnotation done by JGI-ORNL and JGI-PGF\nFinishing done by Pennsylvania State University\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. it is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376).\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 :: 04/22/2023 01:01:02\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) :: 2,400\nCDSs (total) :: 2,348\nGenes (coding) :: 2,316\nCDSs (with protein) :: 2,316\nGenes (RNA) :: 52\nrRNAs :: 1, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 1, 1, 1 (5S, 16S, 23S)\ntRNAs :: 46\nncRNAs :: 3\nPseudo Genes (total) :: 32\nCDSs (without protein) :: 32\nPseudo Genes (ambiguous residues) :: 0 of 32\nPseudo Genes (frameshifted) :: 12 of 32\nPseudo Genes (incomplete) :: 21 of 32\nPseudo Genes (internal stop) :: 8 of 32\nPseudo Genes (multiple problems) :: 7 of 32\nCRISPR Arrays :: 4\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Prosthecochloris aestuarii
COORDINATES: protein motif:HMM:NF022077.2
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: protein motif:HMM:NF021981.2
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
GO:0009306 - protein secretion [Evidence IEA]; GO:0006465 - signal peptide processing [Evidence IEA]
COORDINATES: protein motif:HMM:NF023271.2
COORDINATES: protein motif:HMM:NF010450.0
COORDINATES: similar to AA sequence:RefSeq:WP_012474135.1
COORDINATES: similar to AA sequence:RefSeq:WP_012506271.1
COORDINATES: similar to AA sequence:RefSeq:WP_012286067.1
COORDINATES: similar to AA sequence:RefSeq:WP_012506269.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_012506268.1
COORDINATES: protein motif:HMM:TIGR02780.1
GO:0009291 - unidirectional conjugation [Evidence IEA]
P-type conjugative transfer protein TrbJ
COORDINATES: protein motif:HMM:TIGR02783.1
P-type conjugative transfer protein TrbL
COORDINATES: similar to AA sequence:RefSeq:WP_012506264.1
COORDINATES: similar to AA sequence:RefSeq:WP_012506263.1
P-type conjugative transfer protein TrbG
COORDINATES: similar to AA sequence:RefSeq:WP_012506262.1
COORDINATES: protein motif:HMM:NF021549.2
COORDINATES: protein motif:HMM:NF024554.2
GO:0006260 - DNA replication [Evidence IEA]
DUF3991 and TOPRIM domain-containing protein
COORDINATES: protein motif:HMM:NF014626.2
GO:0008233 - peptidase activity [Evidence IEA]; GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0018142 - protein-DNA covalent cross-linking [Evidence IEA]; GO:0009432 - SOS response [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011744527.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: protein motif:HMM:NF013014.2
COORDINATES: similar to AA sequence:RefSeq:WP_019027533.1
COORDINATES: similar to AA sequence:RefSeq:WP_015325373.1
COORDINATES: protein motif:HMM:NF014821.2
COORDINATES: protein motif:HMM:TIGR04064.1
GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
GO:0030152 - bacteriocin biosynthetic process [Evidence IEA]; GO:0031179 - peptide modification [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR03798.1
Nif11-like leader peptide family natural product precursor
COORDINATES: similar to AA sequence:RefSeq:WP_013362734.1
COORDINATES: similar to AA sequence:RefSeq:WP_012506732.1
COORDINATES: similar to AA sequence:RefSeq:WP_020579820.1
COORDINATES: similar to AA sequence:RefSeq:WP_012505673.1
FxSxx-COOH system tetratricopeptide repeat protein
COORDINATES: similar to AA sequence:RefSeq:WP_012509577.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012502293.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012509585.1
formylglycine-generating enzyme family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005223264.1
COORDINATES: similar to AA sequence:RefSeq:WP_005223263.1
diversity-generating retroelement protein Avd
COORDINATES: protein motif:HMM:NF012779.2
COORDINATES: protein motif:HMM:NF015722.2
COORDINATES: similar to AA sequence:RefSeq:WP_011357593.1
COORDINATES: similar to AA sequence:RefSeq:WP_012639699.1
COORDINATES: similar to AA sequence:RefSeq:WP_000134257.1
GO:0015666 - restriction endodeoxyribonuclease activity [Evidence IEA]; GO:0009007 - site-specific DNA-methyltransferase (adenine-specific) activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]; GO:0009307 - DNA restriction-modification system [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
type I restriction-modification system subunit M
COORDINATES: similar to AA sequence:RefSeq:WP_011711830.1
COORDINATES: similar to AA sequence:RefSeq:WP_015600300.1
GO:0006304 - DNA modification [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: protein motif:HMM:NF013579.2
COORDINATES: similar to AA sequence:RefSeq:WP_018405016.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0004386 - helicase activity [Evidence IEA]; GO:0009035 - type I site-specific deoxyribonuclease activity [Evidence IEA]
type I restriction endonuclease subunit R
COORDINATES: protein motif:HMM:NF024816.2
GO:0005515 - protein binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF023168.2
COORDINATES: similar to AA sequence:RefSeq:WP_005321784.1
COORDINATES: similar to AA sequence:RefSeq:WP_018417332.1