Gemmobacter fulva strain con5 plasmid p3, complete sequence.
Bacteria; Proteobacteria; Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae; Gemmobacter.
Submitted (01-JUN-2021) College of Biology and the Environment, Nanjing Forestry University, Longpan 59, Nanjing, Jiangsu 210000, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP076364.1.\nBacteria and source DNA available from KCTC 82246.\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. 3.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 200.0x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 09/20/2022 07:36:12\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.2\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 4,524\nCDSs (total) :: 4,463\nGenes (coding) :: 4,393\nCDSs (with protein) :: 4,393\nGenes (RNA) :: 61\nrRNAs :: 3, 2, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 2, 3 (5S, 16S, 23S)\ntRNAs :: 50\nncRNAs :: 3\nPseudo Genes (total) :: 70\nCDSs (without protein) :: 70\nPseudo Genes (ambiguous residues) :: 0 of 70\nPseudo Genes (frameshifted) :: 18 of 70\nPseudo Genes (incomplete) :: 60 of 70\nPseudo Genes (internal stop) :: 6 of 70\nPseudo Genes (multiple problems) :: 12 of 70\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_016706816.1
GO:0008988 - rRNA (adenine-N6-)-methyltransferase activity [Evidence IEA]
GO:0006364 - rRNA processing [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
23S rRNA (adenine(1618)-N(6))-methyltransferase RlmF
COORDINATES: similar to AA sequence:RefSeq:WP_006325814.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_013165605.1
GO:0051983 - regulation of chromosome segregation [Evidence IEA]
type II toxin-antitoxin system ParD family antitoxin
COORDINATES: protein motif:HMM:NF017691.2
excalibur calcium-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007818398.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007818399.1
COORDINATES: similar to AA sequence:RefSeq:WP_011841553.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010967994.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_010456066.1
COORDINATES: similar to AA sequence:RefSeq:WP_008973944.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007767542.1
GO:0015297 - antiporter activity [Evidence IEA]; GO:0042910 - xenobiotic transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003226858.1
GO:0004315 - 3-oxoacyl-[acyl-carrier-protein] synthase activity [Evidence IEA]
GO:0006633 - fatty acid biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_076611808.1
GO:0015074 - DNA integration [Evidence IEA]
internal stop; incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:WP_008759231.1
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011748684.1
COORDINATES: protein motif:HMM:NF014581.2
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008335602.1
COORDINATES: protein motif:HMM:NF015688.2
COORDINATES: protein motif:HMM:NF015487.2
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: protein motif:HMM:NF016238.2
COORDINATES: protein motif:HMM:NF016491.2
COORDINATES: protein motif:HMM:NF019608.2
COORDINATES: similar to AA sequence:RefSeq:WP_004398858.1
lytic transglycosylase domain-containing protein
COORDINATES: protein motif:HMM:NF015118.2
type IV secretion system DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF016957.2
VirB3 family type IV secretion system protein
COORDINATES: protein motif:HMM:NF016820.2
COORDINATES: similar to AA sequence:RefSeq:WP_007427511.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187317.1
COORDINATES: similar to AA sequence:RefSeq:WP_008336115.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611979.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012040825.1
GO:0050112 - inositol 2-dehydrogenase activity [Evidence IEA]
GO:0019310 - inositol catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019857102.1
GO:0003864 - 3-methyl-2-oxobutanoate hydroxymethyltransferase activity [Evidence IEA]
GO:0015940 - pantothenate biosynthetic process [Evidence IEA]
3-methyl-2-oxobutanoate hydroxymethyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_009572681.1
COORDINATES: similar to AA sequence:RefSeq:WP_006202552.1
COORDINATES: similar to AA sequence:RefSeq:WP_003519613.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007700380.1
COORDINATES: similar to AA sequence:RefSeq:WP_007795711.1
substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006202557.1
COORDINATES: similar to AA sequence:RefSeq:WP_009179310.1
LacI family DNA-binding transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_011982890.1
COORDINATES: similar to AA sequence:RefSeq:WP_013963221.1
COORDINATES: protein motif:HMM:NF019498.2
COORDINATES: protein motif:HMM:NF012428.2
aspartate aminotransferase family protein
COORDINATES: protein motif:HMM:NF015747.2
NAD(P)-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_076612078.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012573.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611302.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_016159824.1
polysaccharide pyruvyl transferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007803217.1
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_011907856.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612406.1
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_020181771.1
UTP--glucose-1-phosphate uridylyltransferase
COORDINATES: protein motif:HMM:NF028237.2
COORDINATES: protein motif:HMM:TIGR00254.1
GO:0009975 - cyclase activity [Evidence IEA]
GO:0009966 - regulation of signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002720497.1
GO:0004553 - hydrolase activity, hydrolyzing O-glycosyl compounds [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF015149.2
GO:0006011 - UDP-glucose metabolic process [Evidence IEA]
cellulose biosynthesis cyclic di-GMP-binding regulatory protein BcsB
COORDINATES: similar to AA sequence:RefSeq:WP_011841353.1
GO:0016759 - cellulose synthase activity [Evidence IEA]; GO:0035438 - cyclic-di-GMP binding [Evidence IEA]
GO:0030244 - cellulose biosynthetic process [Evidence IEA]; GO:0006011 - UDP-glucose metabolic process [Evidence IEA]
UDP-forming cellulose synthase catalytic subunit
COORDINATES: protein motif:HMM:NF012772.2
COORDINATES: similar to AA sequence:RefSeq:WP_017501607.1
sensor domain-containing diguanylate cyclase
COORDINATES: protein motif:HMM:NF033516.0
COORDINATES: similar to AA sequence:RefSeq:WP_018009737.1
COORDINATES: similar to AA sequence:RefSeq:WP_009503864.1
COORDINATES: similar to AA sequence:RefSeq:WP_008030564.1
COORDINATES: similar to AA sequence:RefSeq:WP_008030559.1
COORDINATES: similar to AA sequence:RefSeq:WP_009827217.1
COORDINATES: similar to AA sequence:RefSeq:WP_010398657.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_009827215.1
COORDINATES: similar to AA sequence:RefSeq:WP_013844596.1
COORDINATES: similar to AA sequence:RefSeq:WP_007677508.1
COORDINATES: similar to AA sequence:RefSeq:WP_010398665.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820079.1
COORDINATES: similar to AA sequence:RefSeq:WP_005859736.1
COORDINATES: similar to AA sequence:RefSeq:WP_006933982.1
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_009814261.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187343.1
COORDINATES: similar to AA sequence:RefSeq:WP_020179139.1
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_009827208.1
COORDINATES: similar to AA sequence:RefSeq:WP_018065906.1
COORDINATES: similar to AA sequence:RefSeq:WP_008335995.1
COORDINATES: similar to AA sequence:RefSeq:WP_007803272.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820087.1
COORDINATES: similar to AA sequence:RefSeq:WP_009179395.1
COORDINATES: similar to AA sequence:RefSeq:WP_006018700.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820090.1
COORDINATES: similar to AA sequence:RefSeq:WP_005859716.1
COORDINATES: similar to AA sequence:RefSeq:WP_010398687.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820093.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931093.1
COORDINATES: similar to AA sequence:RefSeq:WP_020809971.1
COORDINATES: similar to AA sequence:RefSeq:WP_008495843.1
COORDINATES: similar to AA sequence:RefSeq:WP_015914912.1
COORDINATES: similar to AA sequence:RefSeq:WP_007803284.1
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018065917.1
type IV toxin-antitoxin system AbiEi family antitoxin
COORDINATES: protein motif:HMM:NF024949.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012218152.1
COORDINATES: similar to AA sequence:RefSeq:WP_011689592.1
COORDINATES: similar to AA sequence:RefSeq:WP_007803278.1
COORDINATES: similar to AA sequence:RefSeq:WP_020038226.1
COORDINATES: similar to AA sequence:RefSeq:WP_007803282.1
COORDINATES: similar to AA sequence:RefSeq:WP_009820102.1
COORDINATES: similar to AA sequence:RefSeq:WP_012047444.1
COORDINATES: similar to AA sequence:RefSeq:WP_019867575.1
COORDINATES: similar to AA sequence:RefSeq:WP_008877992.1
COORDINATES: similar to AA sequence:RefSeq:WP_010408889.1
COORDINATES: similar to AA sequence:RefSeq:WP_008877989.1
COORDINATES: similar to AA sequence:RefSeq:WP_010398702.1
strawberry notch C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010137734.1
COORDINATES: similar to AA sequence:RefSeq:WP_008030512.1
COORDINATES: similar to AA sequence:RefSeq:WP_010394568.1
COORDINATES: similar to AA sequence:RefSeq:WP_009449226.1
ABC-F family ATP-binding cassette domain-containing protein
COORDINATES: protein motif:HMM:NF013677.2
COORDINATES: similar to AA sequence:RefSeq:WP_007817478.1
COORDINATES: protein motif:HMM:NF017528.2
TnpB, as the term is used for proteins encoded by IS66 family insertion elements, is considered an accessory protein, since TnpC, encoded by a neighboring gene, is a DDE family transposase.; TnpB, as the term is used for proteins encoded by IS66 family insertion elements, is considered an accessory protein, since TnpC, encoded by a neighboring gene, is a DDE family transposase; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: similar to AA sequence:RefSeq:WP_012975328.1
COORDINATES: similar to AA sequence:RefSeq:WP_007602188.1
COORDINATES: protein motif:HMM:NF012492.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF020452.2
COORDINATES: similar to AA sequence:RefSeq:WP_003168228.1
COORDINATES: protein motif:HMM:NF016167.2
COORDINATES: similar to AA sequence:RefSeq:WP_014753315.1
LA2681 family HEPN domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011504324.1
COORDINATES: protein motif:HMM:NF017539.2
COORDINATES: similar to AA sequence:RefSeq:WP_003180825.1
COORDINATES: similar to AA sequence:RefSeq:WP_003180827.1
COORDINATES: similar to AA sequence:RefSeq:WP_017849124.1
GO:0004375 - glycine dehydrogenase (decarboxylating) activity [Evidence IEA]
GO:0006546 - glycine catabolic process [Evidence IEA]
aminomethyl-transferring glycine dehydrogenase subunit GcvPA
COORDINATES: similar to AA sequence:RefSeq:WP_017338344.1
aminomethyl-transferring glycine dehydrogenase subunit GcvPB
COORDINATES: similar to AA sequence:RefSeq:WP_020191070.1
COORDINATES: similar to AA sequence:RefSeq:WP_012271456.1
COORDINATES: similar to AA sequence:RefSeq:WP_018000194.1
COORDINATES: similar to AA sequence:RefSeq:WP_012433003.1
COORDINATES: protein motif:HMM:NF021214.2
COORDINATES: similar to AA sequence:RefSeq:WP_008030505.1
COORDINATES: similar to AA sequence:RefSeq:WP_012758561.1
COORDINATES: similar to AA sequence:RefSeq:WP_006952557.1
COORDINATES: protein motif:HMM:NF018691.2
COORDINATES: protein motif:HMM:NF017524.2
plasmid mobilization relaxosome protein MobC
COORDINATES: protein motif:HMM:NF015397.2
relaxase/mobilization nuclease domain-containing protein
COORDINATES: protein motif:HMM:NF012774.2
COORDINATES: protein motif:HMM:NF015642.2
COORDINATES: protein motif:HMM:NF025445.2
COORDINATES: similar to AA sequence:RefSeq:WP_003517586.1
benzoate/H(+) symporter BenE family transporter
COORDINATES: similar to AA sequence:RefSeq:WP_002726701.1
PLP-dependent aminotransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011502720.1
GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
YggS family pyridoxal phosphate-dependent enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_019644148.1
COORDINATES: similar to AA sequence:RefSeq:WP_011087397.1
COORDINATES: similar to AA sequence:RefSeq:WP_009570750.1
COORDINATES: similar to AA sequence:RefSeq:WP_006728118.1
COORDINATES: protein motif:HMM:NF025001.2