Runella rosea strain HYN0085 plasmid unnamed2, complete sequence.
Bacteria; Bacteroidota; Cytophagia; Cytophagales; Spirosomaceae; Runella.
Submitted (05-JUL-2018) College of Health Science, Korea University, Anam-ro 145, Seoul 02841, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP030852.1.\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 :: PacBio SMRT Analysis v. v2.3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 221.79x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 10/05/2022 20:30:59\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;\n repeat_region\nGenes (total) :: 5,939\nCDSs (total) :: 5,885\nGenes (coding) :: 5,857\nCDSs (with protein) :: 5,857\nGenes (RNA) :: 54\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 43\nncRNAs :: 2\nPseudo Genes (total) :: 28\nCDSs (without protein) :: 28\nPseudo Genes (ambiguous residues) :: 0 of 28\nPseudo Genes (frameshifted) :: 12 of 28\nPseudo Genes (incomplete) :: 19 of 28\nPseudo Genes (internal stop) :: 2 of 28\nPseudo Genes (multiple problems) :: 4 of 28\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_013926065.1
incomplete; too short partial abutting assembly gap; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013926064.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF025019.2
COORDINATES: similar to AA sequence:RefSeq:WP_018623238.1
LLM class flavin-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_013921609.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF021182.2
COORDINATES: protein motif:HMM:NF012920.2
COORDINATES: similar to AA sequence:RefSeq:WP_011584228.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_020607608.1
COORDINATES: similar to AA sequence:RefSeq:WP_013926285.1
gluconate 2-dehydrogenase subunit 3 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008243405.1
GO:0016787 - hydrolase activity [Evidence IEA]
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015813695.1
COORDINATES: similar to AA sequence:RefSeq:WP_012930695.1
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013921659.1
COORDINATES: similar to AA sequence:RefSeq:WP_020602288.1
COORDINATES: similar to AA sequence:RefSeq:WP_018612158.1
COORDINATES: similar to AA sequence:RefSeq:WP_013928991.1
phytanoyl-CoA dioxygenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013848929.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013429.2
COORDINATES: similar to AA sequence:RefSeq:WP_013928989.1
COORDINATES: similar to AA sequence:RefSeq:WP_013928988.1
COORDINATES: protein motif:HMM:NF024242.2
COORDINATES: similar to AA sequence:RefSeq:WP_013931235.1
COORDINATES: protein motif:HMM:NF040179.1
COORDINATES: protein motif:HMM:NF024961.2
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:NF025651.2
COORDINATES: similar to AA sequence:RefSeq:WP_013931290.1
COORDINATES: protein motif:HMM:NF019421.2
COORDINATES: similar to AA sequence:RefSeq:WP_008769435.1
HipA N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013931287.1
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF024554.2
COORDINATES: similar to AA sequence:RefSeq:WP_013768036.1
COORDINATES: similar to AA sequence:RefSeq:WP_012931039.1
COORDINATES: similar to AA sequence:RefSeq:WP_012930563.1
COORDINATES: similar to AA sequence:RefSeq:WP_012925184.1
GO:0004066 - asparagine synthase (glutamine-hydrolyzing) activity [Evidence IEA]
GO:0006529 - asparagine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020607021.1
COORDINATES: similar to AA sequence:RefSeq:WP_020607020.1
GO:0008234 - cysteine-type peptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF014567.2
COORDINATES: protein motif:HMM:NF012301.2
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: protein motif:HMM:NF018884.2
GO:0016791 - phosphatase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012792.2
COORDINATES: protein motif:HMM:NF012801.2
COORDINATES: protein motif:HMM:NF012618.2
COORDINATES: similar to AA sequence:RefSeq:WP_017715351.1
COORDINATES: similar to AA sequence:RefSeq:WP_009631312.1
GO:0045152 - antisigma factor binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
This anti-anti-sigma factor, or anti-sigma factor antagonist, belongs to a family that includes characterized members SpoIIAA, RsbV, RsfA, and RsfB; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_019502114.1
GO:0004133 - glycogen debranching enzyme activity [Evidence IEA]
GO:0005980 - glycogen catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014413638.1
COORDINATES: similar to AA sequence:RefSeq:WP_014413639.1
COORDINATES: similar to AA sequence:RefSeq:WP_012408678.1
COORDINATES: similar to AA sequence:RefSeq:WP_006527122.1
COORDINATES: similar to AA sequence:RefSeq:WP_017715368.1
COORDINATES: similar to AA sequence:RefSeq:WP_012593743.1
nuclear transport factor 2 family protein
COORDINATES: protein motif:HMM:NF019013.2
COORDINATES: protein motif:HMM:NF024092.2
COORDINATES: similar to AA sequence:RefSeq:WP_017715365.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015956647.1
COORDINATES: similar to AA sequence:RefSeq:WP_006594489.1
COORDINATES: similar to AA sequence:RefSeq:WP_020605729.1
incomplete; too short partial abutting assembly gap; missing N-terminus; Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.