Runella rosea strain HYN0085 plasmid unnamed4, 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\nCP030854.1.\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_020607390.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
TonB-dependent receptor plug domain-containing protein
COORDINATES: protein motif:HMM:NF014686.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_008512042.1
RagB/SusD family nutrient uptake outer membrane protein
COORDINATES: similar to AA sequence:RefSeq:WP_020597686.1
COORDINATES: similar to AA sequence:RefSeq:WP_008512049.1
COORDINATES: similar to AA sequence:RefSeq:WP_013768971.1
COORDINATES: similar to AA sequence:RefSeq:WP_015026408.1
COORDINATES: protein motif:HMM:NF025019.2
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013753.2
COORDINATES: protein motif:HMM:NF026041.2
COORDINATES: similar to AA sequence:RefSeq:WP_020602102.1
GO:0004518 - nuclease activity [Evidence IEA]
GO:0043571 - maintenance of CRISPR repeat elements [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018621545.1
GO:0004521 - endoribonuclease activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019989962.1
GO:0004520 - endodeoxyribonuclease activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019989963.1
COORDINATES: similar to AA sequence:RefSeq:WP_012930468.1
GO:0004386 - helicase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012930467.1
COORDINATES: similar to AA sequence:RefSeq:WP_009781475.1
GO:0003674 - molecular_function [Evidence IEA]
type I-B CRISPR-associated protein Cas7/Cst2/DevR
COORDINATES: similar to AA sequence:RefSeq:WP_012930465.1
COORDINATES: protein motif:HMM:NF024676.2
COORDINATES: similar to AA sequence:RefSeq:WP_015031144.1
COORDINATES: protein motif:HMM:NF024436.2
COORDINATES: similar to AA sequence:RefSeq:WP_002972302.1
COORDINATES: protein motif:HMM:TIGR04183.1
T9SS type A sorting domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009282327.1
COORDINATES: similar to AA sequence:RefSeq:WP_009282324.1
COORDINATES: similar to AA sequence:RefSeq:WP_010856498.1
GO:0018467 - formaldehyde dehydrogenase activity [Evidence IEA]
GO:0046292 - formaldehyde metabolic process [Evidence IEA]
formaldehyde dehydrogenase, glutathione-independent
COORDINATES: protein motif:HMM:NF016296.2
LytTR family DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF018305.2
GO:0016021 - integral component of membrane [Evidence IEA]
GO:0000155 - phosphorelay sensor kinase activity [Evidence IEA]
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: protein motif:HMM:NF014068.2
nuclear transport factor 2 family protein
COORDINATES: protein motif:HMM:NF026255.2
COORDINATES: similar to AA sequence:RefSeq:WP_019538881.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611196.1
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_003361459.1
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_020605466.1
COORDINATES: similar to AA sequence:RefSeq:WP_006582017.1
type I restriction-modification system subunit M N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010325989.1