Clavibacter phaseoli strain LPPA 982 plasmid pCP, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Micrococcales; Microbacteriaceae; Clavibacter.
Comparative genomics of all nine subspecies of the complex genus Clavibacter
Submitted (31-MAY-2019) Plant and Environmental Protection Sciences, University of Hawaii, 3091 Maile Way St. John 312, Honolulu, HI 96822, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP040787.1.\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 :: 04-APR-2019\nAssembly Method :: HGAP v. 4\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 468.0x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/12/2023 00:06:28\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) :: 3,095\nCDSs (total) :: 3,041\nGenes (coding) :: 3,028\nCDSs (with protein) :: 3,028\nGenes (RNA) :: 54\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 45\nncRNAs :: 3\nPseudo Genes (total) :: 13\nCDSs (without protein) :: 13\nPseudo Genes (ambiguous residues) :: 0 of 13\nPseudo Genes (frameshifted) :: 2 of 13\nPseudo Genes (incomplete) :: 9 of 13\nPseudo Genes (internal stop) :: 2 of 13\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Clavibacter michiganensis subsp. phaseoli
COORDINATES: similar to AA sequence:RefSeq:WP_013115611.1
GO:0042625 - ATPase-coupled ion transmembrane transporter activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012725094.1
COORDINATES: similar to AA sequence:RefSeq:WP_019180754.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_015101961.1
predicted Zn-dependent protease with a strongly conserved HExxH motif; Derived by automated computational analysis using gene prediction method: Protein Homology.
DUF2268 domain-containing putative Zn-dependent protease
COORDINATES: similar to AA sequence:RefSeq:WP_017545820.1
TipAS antibiotic-recognition domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018171099.1
sigma-70 family RNA polymerase sigma factor
COORDINATES: similar to AA sequence:RefSeq:WP_012865558.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_018762725.1
COORDINATES: similar to AA sequence:RefSeq:WP_002854163.1
COORDINATES: protein motif:HMM:TIGR01258.1
GO:0004619 - phosphoglycerate mutase activity [Evidence IEA]
GO:0006096 - glycolytic process [Evidence IEA]
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
2,3-bisphosphoglycerate-dependent phosphoglycerate mutase
COORDINATES: similar to AA sequence:RefSeq:WP_002854165.1
COORDINATES: similar to AA sequence:RefSeq:WP_017885694.1
COORDINATES: similar to AA sequence:RefSeq:WP_017885695.1
COORDINATES: similar to AA sequence:RefSeq:WP_017885696.1
GO:0004634 - phosphopyruvate hydratase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017885697.1
COORDINATES: similar to AA sequence:RefSeq:WP_017885698.1
COORDINATES: similar to AA sequence:RefSeq:WP_006549288.1
COORDINATES: similar to AA sequence:RefSeq:WP_019137194.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF015596.2
COORDINATES: similar to AA sequence:RefSeq:WP_016463503.1
COORDINATES: similar to AA sequence:RefSeq:WP_005049587.1
COORDINATES: similar to AA sequence:RefSeq:WP_011185217.1
GO:0017004 - cytochrome complex assembly [Evidence IEA]
COORDINATES: protein motif:HMM:NF025700.2
COORDINATES: protein motif:HMM:NF013421.2
COORDINATES: similar to AA sequence:RefSeq:WP_017882772.1
COORDINATES: similar to AA sequence:RefSeq:WP_020578697.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: protein motif:HMM:NF012621.2
COORDINATES: similar to AA sequence:RefSeq:WP_012297940.1
COORDINATES: similar to AA sequence:RefSeq:WP_015491357.1
COORDINATES: similar to AA sequence:RefSeq:WP_005054332.1
COORDINATES: similar to AA sequence:RefSeq:WP_019179523.1
COORDINATES: similar to AA sequence:RefSeq:WP_020076872.1
COORDINATES: similar to AA sequence:RefSeq:WP_017488133.1
GO:0008490 - arsenite secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018191004.1
COORDINATES: similar to AA sequence:RefSeq:WP_017885631.1
NAD(P)-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005051316.1
COORDINATES: similar to AA sequence:RefSeq:WP_017836496.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931187.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931186.1
COORDINATES: similar to AA sequence:RefSeq:WP_012300334.1
COORDINATES: similar to AA sequence:RefSeq:WP_012300335.1
COORDINATES: similar to AA sequence:RefSeq:WP_017824630.1
COORDINATES: similar to AA sequence:RefSeq:WP_010242552.1
COORDINATES: similar to AA sequence:RefSeq:WP_007472489.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931645.1
LacI family DNA-binding transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_017201750.1
sugar ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_011931643.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_020488144.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931641.1
COORDINATES: similar to AA sequence:RefSeq:WP_020015986.1
COORDINATES: protein motif:HMM:NF016497.2
GO:0004553 - hydrolase activity, hydrolyzing O-glycosyl compounds [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013733488.1
COORDINATES: protein motif:HMM:NF017810.2
COORDINATES: similar to AA sequence:RefSeq:WP_013005305.1
COORDINATES: protein motif:HMM:NF024212.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006391139.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF024777.2
COORDINATES: protein motif:HMM:NF024854.2
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007818912.1
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: protein motif:HMM:NF037625.2
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_016663658.1
COORDINATES: protein motif:HMM:NF014717.2
COORDINATES: similar to AA sequence:RefSeq:WP_011931286.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931285.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931182.1
COORDINATES: protein motif:HMM:NF024248.2
COORDINATES: similar to AA sequence:RefSeq:WP_005053976.1
COORDINATES: similar to AA sequence:RefSeq:WP_005053970.1
COORDINATES: similar to AA sequence:RefSeq:WP_012296855.1
COORDINATES: protein motif:HMM:NF014581.2
TraM recognition domain-containing protein
COORDINATES: protein motif:HMM:NF027584.2
COORDINATES: protein motif:HMM:NF041492.1
COORDINATES: similar to AA sequence:RefSeq:WP_017885604.1
COORDINATES: similar to AA sequence:RefSeq:WP_013347376.1
COORDINATES: similar to AA sequence:RefSeq:WP_007270927.1
COORDINATES: similar to AA sequence:RefSeq:WP_005053885.1
COORDINATES: similar to AA sequence:RefSeq:WP_011689844.1
relaxase/mobilization nuclease domain-containing protein
COORDINATES: protein motif:HMM:NF017524.2
plasmid mobilization relaxosome protein MobC
COORDINATES: protein motif:HMM:NF039499.1
COORDINATES: protein motif:HMM:NF013700.2
heavy metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012725926.1