Shinella zoogloeoides strain ATCC 19623 plasmid unnamed3, complete sequence.
Bacteria; Proteobacteria; Alphaproteobacteria; Hyphomicrobiales; Rhizobiaceae; Shinella.
Cellulose-mediated floc formation by the activated sludge bacterium Shinella zoogloeoides ATCC 19623
Submitted (17-SEP-2021) Fisheries Research Institute, Anhui Academy of Agricultural Sciences, Nongke road 40, Hefei, Anhui 230031, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP086613.1.\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 :: SOAPdenovo v. Version 2.04\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 100.0x\nSequencing Technology :: Illumina Hiseq+PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/05/2022 05:09:11\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 4,735\nCDSs (total) :: 4,669\nGenes (coding) :: 4,586\nCDSs (with protein) :: 4,586\nGenes (RNA) :: 66\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 53\nncRNAs :: 4\nPseudo Genes (total) :: 83\nCDSs (without protein) :: 83\nPseudo Genes (ambiguous residues) :: 0 of 83\nPseudo Genes (frameshifted) :: 17 of 83\nPseudo Genes (incomplete) :: 68 of 83\nPseudo Genes (internal stop) :: 11 of 83\nPseudo Genes (multiple problems) :: 12 of 83\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_012333341.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:TIGR03454.1
COORDINATES: similar to AA sequence:RefSeq:WP_017265750.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF018691.2
plasmid mobilization relaxosome protein MobC
COORDINATES: protein motif:HMM:NF015397.2
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016555659.1
COORDINATES: similar to AA sequence:RefSeq:WP_018239535.1
transglutaminase-like cysteine peptidase
COORDINATES: similar to AA sequence:RefSeq:WP_007699532.1
COORDINATES: similar to AA sequence:RefSeq:WP_032490240.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012654436.1
GO:0004129 - cytochrome-c oxidase activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]
GO:0009060 - aerobic respiration [Evidence IEA]
cbb3-type cytochrome c oxidase subunit I
COORDINATES: similar to AA sequence:RefSeq:WP_003595045.1
GO:0009486 - cytochrome bo3 ubiquinol oxidase activity [Evidence IEA]
GO:0015990 - electron transport coupled proton transport [Evidence IEA]
cytochrome o ubiquinol oxidase subunit III
COORDINATES: similar to AA sequence:RefSeq:WP_012763555.1
cytochrome o ubiquinol oxidase subunit IV
COORDINATES: similar to AA sequence:RefSeq:WP_007003887.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
cation diffusion facilitator family transporter
COORDINATES: protein motif:HMM:NF019631.2
COORDINATES: similar to AA sequence:RefSeq:WP_086558194.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
phosphoethanolamine transferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_076611975.1
COORDINATES: similar to AA sequence:RefSeq:WP_011983025.1
COORDINATES: protein motif:HMM:NF013080.2
GO:0008484 - sulfuric ester hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007015372.1
COORDINATES: similar to AA sequence:RefSeq:WP_013716598.1
COORDINATES: similar to AA sequence:RefSeq:WP_009796940.1
COORDINATES: protein motif:HMM:NF016221.2
COORDINATES: similar to AA sequence:RefSeq:WP_017504242.1
COORDINATES: similar to AA sequence:RefSeq:WP_018446787.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578577.1
NAD(P)-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011578578.1
COORDINATES: similar to AA sequence:RefSeq:WP_009452593.1
GO:0005507 - copper ion binding [Evidence IEA]; GO:0009055 - electron transfer activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF033814.1
GO:0042597 - periplasmic space [Evidence IEA]
GO:0005507 - copper ion binding [Evidence IEA]
GO:0006825 - copper ion transport [Evidence IEA]
copper homeostasis periplasmic binding protein CopC
COORDINATES: protein motif:HMM:NF033808.0
copper homeostasis membrane protein CopD
COORDINATES: similar to AA sequence:RefSeq:WP_011578878.1
COORDINATES: protein motif:HMM:NF013304.2
COORDINATES: similar to AA sequence:RefSeq:WP_009452645.1
COORDINATES: protein motif:HMM:NF024545.2
GO:0003755 - peptidyl-prolyl cis-trans isomerase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018324760.1
COORDINATES: similar to AA sequence:RefSeq:WP_017268959.1
COORDINATES: similar to AA sequence:RefSeq:WP_003501188.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
GO:0009306 - protein secretion [Evidence IEA]; GO:0006508 - proteolysis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018327710.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010953869.1
COORDINATES: protein motif:HMM:NF016107.2
isoprenylcysteine carboxylmethyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018182618.1
COORDINATES: similar to AA sequence:RefSeq:WP_019995520.1
COORDINATES: similar to AA sequence:RefSeq:WP_007690842.1
COORDINATES: similar to AA sequence:RefSeq:WP_008875485.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578862.1
multicopper oxidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019903399.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0046983 - protein dimerization activity [Evidence IEA]; GO:0046914 - transition metal ion binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
manganese-binding transcriptional regulator MntR
COORDINATES: similar to AA sequence:RefSeq:WP_011078038.1
GO:0015035 - protein-disulfide reductase activity [Evidence IEA]
GO:0006457 - protein folding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008569955.1
COORDINATES: similar to AA sequence:RefSeq:WP_006933516.1
COORDINATES: similar to AA sequence:RefSeq:WP_018065858.1
COORDINATES: similar to AA sequence:RefSeq:WP_003501190.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007584679.1
COORDINATES: protein motif:HMM:NF012621.2
heavy-metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017958563.1
COORDINATES: similar to AA sequence:RefSeq:WP_017958562.1
COORDINATES: similar to AA sequence:RefSeq:WP_004119276.1
COORDINATES: protein motif:HMM:NF014581.2
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011982857.1
GO:0043684 - type IV secretion system complex [Evidence IEA]
GO:0044097 - secretion by the type IV secretion system [Evidence IEA]
COORDINATES: protein motif:HMM:NF038091.1
COORDINATES: protein motif:HMM:NF015487.2
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_006023722.1
COORDINATES: protein motif:HMM:NF016491.2
COORDINATES: protein motif:HMM:NF019608.2
COORDINATES: protein motif:HMM:NF013618.2
transglycosylase SLT domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011578642.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: protein motif:HMM:NF016957.2
VirB3 family type IV secretion system protein
COORDINATES: protein motif:HMM:NF016820.2
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018516677.1
GO:0008408 - 3'-5' exonuclease activity [Evidence IEA]; GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019565689.1
COORDINATES: similar to AA sequence:RefSeq:WP_006472564.1
COORDINATES: similar to AA sequence:RefSeq:WP_006310242.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006974 - cellular response to DNA damage stimulus [Evidence IEA]; GO:0018142 - protein-DNA covalent cross-linking [Evidence IEA]
SOS response-associated peptidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006472566.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010407971.1
COORDINATES: similar to AA sequence:RefSeq:WP_004713999.1
COORDINATES: similar to AA sequence:RefSeq:WP_019437125.1
COORDINATES: similar to AA sequence:RefSeq:WP_003528894.1
type II toxin-antitoxin system VapB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_010970262.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_013845948.1
COORDINATES: similar to AA sequence:RefSeq:WP_019200162.1
COORDINATES: similar to AA sequence:RefSeq:WP_015241491.1
COORDINATES: similar to AA sequence:RefSeq:WP_006332417.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_015497709.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_011993085.1
COORDINATES: similar to AA sequence:RefSeq:WP_007539845.1
COORDINATES: similar to AA sequence:RefSeq:WP_010400474.1
COORDINATES: similar to AA sequence:RefSeq:WP_018097301.1
antitoxin Phd_YefM type II toxin-antitoxin system
COORDINATES: similar to AA sequence:RefSeq:WP_006472570.1
COORDINATES: similar to AA sequence:RefSeq:WP_012653127.1
COORDINATES: similar to AA sequence:RefSeq:WP_013054022.1
COORDINATES: similar to AA sequence:RefSeq:WP_015241493.1
COORDINATES: similar to AA sequence:RefSeq:WP_011982948.1
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_007788514.1
COORDINATES: similar to AA sequence:RefSeq:WP_012778824.1
COORDINATES: similar to AA sequence:RefSeq:WP_012092156.1
COORDINATES: similar to AA sequence:RefSeq:WP_012092155.1
COORDINATES: similar to AA sequence:RefSeq:WP_011982810.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_006952651.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]