Pseudochrobactrum algeriensis isolate C130915_07 plasmid pPB07_3, al1l pseudoknot.
Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Brucellaceae; Pseudochrobactrum.
Pseudochrobactrum algeriensis sp. nov., isolated from lymph nodes of Algerian cattle
Submitted (17-MAY-2021) Unite Infectiologie et Sante Publique, UMR 1282, INRAE - Institut national de recherche pour l'agriculture, l'alimentation et l'environnement, Site de Tours-Nouzilly, Bat. 213, Nouzilly 37380, France
REFSEQ INFORMATION: The reference sequence is identical to\nCP075359.1.\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 :: 2018\nAssembly Method :: SMRT Analysis v. 2.3.0\nAssembly Name :: C130915_07_PacBio\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 50x\nSequencing Technology :: PacBio Sequel\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/20/2023 04:03:00\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) :: 3,688\nCDSs (total) :: 3,609\nGenes (coding) :: 3,554\nCDSs (with protein) :: 3,554\nGenes (RNA) :: 79\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 60\nncRNAs :: 4\nPseudo Genes (total) :: 55\nCDSs (without protein) :: 55\nPseudo Genes (ambiguous residues) :: 0 of 55\nPseudo Genes (frameshifted) :: 19 of 55\nPseudo Genes (incomplete) :: 40 of 55\nPseudo Genes (internal stop) :: 8 of 55\nPseudo Genes (multiple problems) :: 10 of 55\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Pseudochrobactrum algeriensis
COORDINATES: protein motif:HMM:NF015651.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
lysylphosphatidylglycerol synthase transmembrane domain-containing protein
COORDINATES: protein motif:HMM:NF024811.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611844.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017183790.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017183789.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_010687710.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820269.1
COORDINATES: similar to AA sequence:RefSeq:WP_008667376.1
COORDINATES: protein motif:HMM:NF014581.2
type IV secretory system conjugative DNA transfer family protein
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF041496.1
COORDINATES: similar to AA sequence:RefSeq:WP_007877378.1
COORDINATES: similar to AA sequence:RefSeq:WP_009207859.1
COORDINATES: similar to AA sequence:RefSeq:WP_010658462.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611561.1
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_076611960.1
COORDINATES: nucleotide motif:Rfam:14.4:RF01497
AL1L pseudoknot; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_076611557.1
frameshifted; 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:NF025025.2
COORDINATES: protein motif:HMM:NF016145.2
polysaccharide pyruvyl transferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006642845.1
GO:0003978 - UDP-glucose 4-epimerase activity [Evidence IEA]
GO:0006012 - galactose metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF012745.2
COORDINATES: similar to AA sequence:RefSeq:WP_008122595.1
GO:0008879 - glucose-1-phosphate thymidylyltransferase activity [Evidence IEA]
GO:0019305 - dTDP-rhamnose biosynthetic process [Evidence IEA]; GO:0009243 - O antigen biosynthetic process [Evidence IEA]
glucose-1-phosphate thymidylyltransferase RfbA
COORDINATES: similar to AA sequence:RefSeq:WP_010975750.1
GO:0008830 - dTDP-4-dehydrorhamnose 3,5-epimerase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019857027.1
GO:0008460 - dTDP-glucose 4,6-dehydratase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006312467.1
GO:0008831 - dTDP-4-dehydrorhamnose reductase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF016060.2
GO:0000271 - polysaccharide biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015437355.1
COORDINATES: protein motif:HMM:NF024214.2
NTP transferase domain-containing protein