Sphingobium indicum B90A plasmid pSRL1, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Sphingobium.
Genome sequence of Sphingobium indicum B90A, a hexachlorocyclohexane-degrading bacterium
Complete Genome Sequence of Sphingobium indicum B90A
Submitted (28-OCT-2015) Department of Zoology, University of Delhi, Room no. 115, Molecular Biology Laboratory, Department of Zoology, University of Delhi, Delhi, Delhi 110007, India
Submitted (17-MAY-2012) Molecular Biology Laboratory, Department of Zoology, University of Delhi, Delhi, Delhi 110007, India
REFSEQ INFORMATION: The reference sequence is identical to\nCP013071.1.\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 Method :: HGAP v. unspecified\nGenome Coverage :: 397x\nSequencing Technology :: SMRT\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 02:59:04\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) :: 3,833\nCDSs (total) :: 3,772\nGenes (coding) :: 3,710\nCDSs (with protein) :: 3,710\nGenes (RNA) :: 61\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 52\nncRNAs :: 3\nPseudo Genes (total) :: 62\nCDSs (without protein) :: 62\nPseudo Genes (ambiguous residues) :: 0 of 62\nPseudo Genes (frameshifted) :: 20 of 62\nPseudo Genes (incomplete) :: 46 of 62\nPseudo Genes (internal stop) :: 5 of 62\nPseudo Genes (multiple problems) :: 8 of 62\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_017183650.1
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: similar to AA sequence:RefSeq:WP_009824075.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688081.1
COORDINATES: similar to AA sequence:RefSeq:WP_013041753.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688079.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_007688077.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010124876.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_020820500.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688073.1
GO:0008794 - arsenate reductase (glutaredoxin) activity [Evidence IEA]
This arsenate reductase requires both glutathione and glutaredoxin to convert arsenate to arsenite, after which the efflux transporter formed by ArsA and ArsB can extrude the arsenite from the cell, providing resistance; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_016744714.1
GO:0008490 - arsenite secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013849893.1
arsenic resistance N-acetyltransferase ArsN2
COORDINATES: similar to AA sequence:RefSeq:WP_007688070.1
GO:0003674 - molecular_function [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007688069.1
COORDINATES: similar to AA sequence:RefSeq:WP_013849894.1
COORDINATES: similar to AA sequence:RefSeq:WP_016744708.1
COORDINATES: similar to AA sequence:RefSeq:WP_013849896.1
COORDINATES: similar to AA sequence:RefSeq:WP_013849897.1
COORDINATES: similar to AA sequence:RefSeq:WP_016744705.1
COORDINATES: similar to AA sequence:RefSeq:WP_013849899.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688055.1
COORDINATES: similar to AA sequence:RefSeq:WP_013039043.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688045.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017182164.1
plasmid mobilization relaxosome protein MobC
COORDINATES: similar to AA sequence:RefSeq:WP_013849903.1
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013039047.1
COORDINATES: similar to AA sequence:RefSeq:WP_013849905.1
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007688040.1
COORDINATES: similar to AA sequence:RefSeq:WP_020817724.1
COORDINATES: similar to AA sequence:RefSeq:WP_013053853.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017114566.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
frameshifted; 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_019833025.1
COORDINATES: similar to AA sequence:RefSeq:WP_006020219.1
COORDINATES: similar to AA sequence:RefSeq:WP_010338969.1
GO:0004160 - dihydroxy-acid dehydratase activity [Evidence IEA]
GO:0009082 - branched-chain amino acid biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007688033.1
MarR family winged helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_019830910.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688030.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0009410 - response to xenobiotic stimulus [Evidence IEA]; GO:0006855 - xenobiotic transmembrane transport [Evidence IEA]
DHA2 family efflux MFS transporter permease subunit
COORDINATES: similar to AA sequence:RefSeq:WP_013053848.1
GO:0009279 - cell outer membrane [Evidence IEA]
GO:0015288 - porin activity [Evidence IEA]
efflux transporter outer membrane subunit
COORDINATES: similar to AA sequence:RefSeq:WP_020817732.1
methyltransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013053846.1
COORDINATES: similar to AA sequence:RefSeq:WP_020817734.1
COORDINATES: similar to AA sequence:RefSeq:WP_007685768.1
COORDINATES: nucleotide motif:Rfam:14.4:RF00001
Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:14.4:RF02541
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: nucleotide motif:Rfam:14.4:RF00177
COORDINATES: similar to AA sequence:RefSeq:WP_020818330.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688101.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688103.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818333.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818334.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688108.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688110.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818337.1
SMP-30/gluconolactonase/LRE family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007688114.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688116.1
pyrroloquinoline quinone-dependent dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_013053687.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818340.1
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013053685.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688123.1
PQQ-binding-like beta-propeller repeat protein
COORDINATES: similar to AA sequence:RefSeq:WP_007688125.1
NAD-dependent succinate-semialdehyde dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_013053683.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818343.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818344.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688132.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007688134.1
COORDINATES: similar to AA sequence:RefSeq:WP_013053679.1
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010544289.1
pyridoxamine 5'-phosphate oxidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007688140.1
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013053676.1
COORDINATES: similar to AA sequence:RefSeq:WP_013053675.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818351.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688148.1
COORDINATES: similar to AA sequence:RefSeq:WP_013053672.1
COORDINATES: similar to AA sequence:RefSeq:WP_013053671.1
COORDINATES: similar to AA sequence:RefSeq:WP_013053670.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818356.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013053668.1
COORDINATES: similar to AA sequence:RefSeq:WP_007714608.1
GO:0003842 - 1-pyrroline-5-carboxylate dehydrogenase activity [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0016620 - oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor [Evidence IEA]; GO:0004657 - proline dehydrogenase activity [Evidence IEA]
GO:0006561 - proline biosynthetic process [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
trifunctional transcriptional regulator/proline dehydrogenase/L-glutamate gamma-semialdehyde dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_007688161.1
GO:0008535 - respiratory chain complex IV assembly [Evidence IEA]
cbb3-type cytochrome oxidase assembly protein CcoS
COORDINATES: similar to AA sequence:RefSeq:WP_020818358.1
COORDINATES: similar to AA sequence:RefSeq:WP_013053665.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818360.1
cytochrome c oxidase accessory protein CcoG
COORDINATES: similar to AA sequence:RefSeq:WP_007688169.1
GO:0004129 - cytochrome-c oxidase activity [Evidence IEA]
cytochrome-c oxidase, cbb3-type subunit III
COORDINATES: similar to AA sequence:RefSeq:WP_013053662.1
cbb3-type cytochrome c oxidase subunit 3
COORDINATES: similar to AA sequence:RefSeq:WP_007688173.1
cytochrome-c oxidase, cbb3-type subunit II
COORDINATES: similar to AA sequence:RefSeq:WP_013053660.1
cytochrome-c oxidase, cbb3-type subunit I
COORDINATES: similar to AA sequence:RefSeq:WP_020818365.1
COORDINATES: protein motif:HMM:NF015857.2
COORDINATES: similar to AA sequence:RefSeq:WP_001389365.1
GO:0004803 - transposase activity [Evidence IEA]
IS6-like element IS6100 family transposase
COORDINATES: protein motif:HMM:NF014816.2
GO:0005515 - protein binding [Evidence IEA]
GO:0006749 - glutathione metabolic process [Evidence IEA]
glutathione S-transferase N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007687861.1
COORDINATES: similar to AA sequence:RefSeq:WP_015449275.1
GO:0046872 - metal ion binding [Evidence IEA]; GO:0016491 - oxidoreductase 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: similar to AA sequence:RefSeq:WP_007682395.1
COORDINATES: similar to AA sequence:RefSeq:WP_007682394.1
COORDINATES: similar to AA sequence:RefSeq:WP_013039118.1
COORDINATES: similar to AA sequence:RefSeq:WP_007682392.1
COORDINATES: similar to AA sequence:RefSeq:WP_015460488.1
nuclear transport factor 2 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007682029.1
COORDINATES: similar to AA sequence:RefSeq:WP_007682027.1
GO:0016627 - oxidoreductase activity, acting on the CH-CH group of donors [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017499594.1
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0004362 - glutathione-disulfide reductase (NADPH) activity [Evidence IEA]; GO:0050661 - NADP binding [Evidence IEA]
GO:0045454 - cell redox homeostasis [Evidence IEA]; GO:0006749 - glutathione metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007682023.1
COORDINATES: similar to AA sequence:RefSeq:WP_007682022.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818089.1
COORDINATES: similar to AA sequence:RefSeq:WP_007682525.1
COORDINATES: similar to AA sequence:RefSeq:WP_013040175.1
transketolase C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020085977.1
thiamine pyrophosphate-dependent dehydrogenase E1 component subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_007686272.1
COORDINATES: similar to AA sequence:RefSeq:WP_007686274.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006961814.1
COORDINATES: similar to AA sequence:RefSeq:WP_007686496.1
COORDINATES: similar to AA sequence:RefSeq:WP_020818759.1
COORDINATES: similar to AA sequence:RefSeq:WP_006953933.1
COORDINATES: similar to AA sequence:RefSeq:WP_020820505.1
COORDINATES: similar to AA sequence:RefSeq:WP_007686501.1
COORDINATES: similar to AA sequence:RefSeq:WP_013041559.1
COORDINATES: similar to AA sequence:RefSeq:WP_015449221.1
COORDINATES: similar to AA sequence:RefSeq:WP_017183652.1
COORDINATES: similar to AA sequence:RefSeq:WP_007688084.1