Rufibacter tibetensis strain 1351 plasmid 1, complete sequence.
Bacteria; Bacteroidota; Cytophagia; Cytophagales; Hymenobacteraceae; Rufibacter.
Complete genome sequence of Rufibacter tibetensis strain 1351t, a radiation-resistant bacterium from tibet plateau
Submitted (31-AUG-2015) College of Bioengineering, Hubei University of Technology, Nanli Road 28#, Wuhan, Hubei 430068, P.R. China
REFSEQ INFORMATION: The reference sequence is identical to\nCP012644.1.\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##Assembly-Data-START##\nAssembly Method :: SOAPdenovo v. 2.04\nCoverage :: 505\nSequencing Technology :: Illumina\n##Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 10/05/2022 14:26:44\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) :: 4,402\nCDSs (total) :: 4,342\nGenes (coding) :: 4,319\nCDSs (with protein) :: 4,319\nGenes (RNA) :: 60\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 45\nncRNAs :: 3\nPseudo Genes (total) :: 23\nCDSs (without protein) :: 23\nPseudo Genes (ambiguous residues) :: 0 of 23\nPseudo Genes (frameshifted) :: 7 of 23\nPseudo Genes (incomplete) :: 14 of 23\nPseudo Genes (internal stop) :: 6 of 23\nPseudo Genes (multiple problems) :: 3 of 23\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_013631554.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012026079.1
COORDINATES: similar to AA sequence:RefSeq:WP_008512784.1
COORDINATES: similar to AA sequence:RefSeq:WP_012909311.1
COORDINATES: similar to AA sequence:RefSeq:WP_013631410.1
COORDINATES: similar to AA sequence:RefSeq:WP_008512789.1
COORDINATES: similar to AA sequence:RefSeq:WP_015808594.1
COORDINATES: protein motif:HMM:NF019592.2
RagB/SusD family nutrient uptake outer membrane protein
COORDINATES: protein motif:HMM:TIGR04056.1
COORDINATES: similar to AA sequence:RefSeq:WP_015808595.1
COORDINATES: similar to AA sequence:RefSeq:WP_015264768.1
COORDINATES: similar to AA sequence:RefSeq:WP_019941029.1
COORDINATES: similar to AA sequence:RefSeq:WP_008467465.1
COORDINATES: similar to AA sequence:RefSeq:WP_007478686.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_015808621.1
COORDINATES: similar to AA sequence:RefSeq:WP_008512775.1
COORDINATES: similar to AA sequence:RefSeq:WP_002646813.1
COORDINATES: similar to AA sequence:RefSeq:WP_008512774.1
COORDINATES: similar to AA sequence:RefSeq:WP_015265110.1
COORDINATES: similar to AA sequence:RefSeq:WP_015265111.1
dihydrodipicolinate synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018626175.1
GO:0008736 - L-fucose isomerase activity [Evidence IEA]; GO:0030145 - manganese ion binding [Evidence IEA]
GO:0019317 - fucose catabolic process [Evidence IEA]; GO:0005996 - monosaccharide metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010601626.1
COORDINATES: protein motif:HMM:NF012516.2
COORDINATES: similar to AA sequence:RefSeq:WP_008467500.1
COORDINATES: protein motif:HMM:NF013300.2
COORDINATES: similar to AA sequence:RefSeq:WP_012026225.1
COORDINATES: similar to AA sequence:RefSeq:WP_012790960.1
zinc-binding alcohol dehydrogenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015266727.1
COORDINATES: protein motif:HMM:NF015422.2
helicase associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008508359.1
COORDINATES: similar to AA sequence:RefSeq:WP_015333482.1
COORDINATES: similar to AA sequence:RefSeq:WP_015809815.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008508354.1
fumarylacetoacetate hydrolase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_003002814.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010610500.1
frameshifted; 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.
COORDINATES: similar to AA sequence:RefSeq:WP_010420350.1
GO:0005887 - integral component of plasma membrane [Evidence IEA]
GO:0015535 - fucose:proton symporter activity [Evidence IEA]
GO:0015756 - fucose transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF013691.2
COORDINATES: protein motif:HMM:NF014581.2
TraM recognition domain-containing protein
COORDINATES: protein motif:HMM:NF040155.1
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: similar to AA sequence:RefSeq:WP_019949660.1
COORDINATES: protein motif:HMM:NF021041.2
GO:0030570 - pectate lyase activity [Evidence IEA]
GO:0045490 - pectin catabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF014567.2
HAMP domain-containing sensor histidine kinase
COORDINATES: protein motif:HMM:NF024554.2
COORDINATES: protein motif:HMM:NF040179.1
COORDINATES: protein motif:HMM:NF024982.2
COORDINATES: protein motif:HMM:NF023922.2
COORDINATES: similar to AA sequence:RefSeq:WP_010611982.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_008503722.1
COORDINATES: similar to AA sequence:RefSeq:WP_013668204.1
COORDINATES: protein motif:HMM:NF013698.2
COORDINATES: protein motif:HMM:NF024498.2
COORDINATES: similar to AA sequence:RefSeq:WP_018477462.1
COORDINATES: similar to AA sequence:RefSeq:WP_018622466.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018480076.1
COORDINATES: similar to AA sequence:RefSeq:WP_013634414.1
GO:0004072 - aspartate kinase activity [Evidence IEA]; GO:0004412 - homoserine dehydrogenase activity [Evidence IEA]; GO:0050661 - NADP binding [Evidence IEA]
GO:0009067 - aspartate family amino acid biosynthetic process [Evidence IEA]; GO:0008652 - cellular amino acid biosynthetic process [Evidence IEA]
bifunctional aspartate kinase/homoserine dehydrogenase I
COORDINATES: protein motif:HMM:NF023149.2
GO:0030246 - carbohydrate binding [Evidence IEA]
malectin domain-containing carbohydrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007309367.1
COORDINATES: protein motif:HMM:NF024242.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015404387.1
COORDINATES: similar to AA sequence:RefSeq:WP_020526921.1
GO:0003983 - UTP:glucose-1-phosphate uridylyltransferase activity [Evidence IEA]
GO:0009225 - nucleotide-sugar metabolic process [Evidence IEA]
UTP--glucose-1-phosphate uridylyltransferase GalU
COORDINATES: similar to AA sequence:RefSeq:WP_020599588.1
COORDINATES: protein motif:HMM:NF013126.2
COORDINATES: protein motif:HMM:NF014466.2
thrombospondin type 3 repeat-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013455247.1
COORDINATES: similar to AA sequence:RefSeq:WP_013620475.1
carboxypeptidase regulatory-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004570386.1
GO:0031012 - extracellular matrix [Evidence IEA]
GO:0004222 - metalloendopeptidase activity [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF012464.2
COORDINATES: protein motif:HMM:NF013862.2
patatin-like phospholipase family protein
COORDINATES: protein motif:HMM:NF025013.2
COORDINATES: protein motif:HMM:NF024842.2
COORDINATES: protein motif:HMM:NF012298.2
COORDINATES: similar to AA sequence:RefSeq:WP_015614656.1
PDDEXK nuclease domain-containing protein
COORDINATES: protein motif:HMM:NF015935.2
COORDINATES: similar to AA sequence:RefSeq:WP_014682001.1
COORDINATES: protein motif:HMM:NF013694.2
COORDINATES: similar to AA sequence:RefSeq:WP_013763352.1
COORDINATES: similar to AA sequence:RefSeq:WP_018479465.1
COORDINATES: protein motif:HMM:NF024281.2
COORDINATES: protein motif:HMM:NF012754.2
COORDINATES: similar to AA sequence:RefSeq:WP_013631412.1
COORDINATES: similar to AA sequence:RefSeq:WP_018474588.1
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: similar to AA sequence:RefSeq:WP_015267690.1
LytTR family DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF026255.2
COORDINATES: protein motif:HMM:NF013276.2
GO:0030599 - pectinesterase activity [Evidence IEA]
GO:0042545 - cell wall modification [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008512447.1
bile acid:sodium symporter family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014219801.1
aspartate/glutamate racemase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008512451.1
four-carbon acid sugar kinase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015808559.1
ribulose-bisphosphate carboxylase large subunit family protein
COORDINATES: protein motif:HMM:NF018178.2
COORDINATES: similar to AA sequence:RefSeq:WP_015330270.1
GO:0005507 - copper ion binding [Evidence IEA]; GO:0009055 - electron transfer activity [Evidence IEA]
plastocyanin/azurin family copper-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_012026056.1
GO:0004555 - alpha,alpha-trehalase activity [Evidence IEA]
GO:0005991 - trehalose metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013631384.1
COORDINATES: similar to AA sequence:RefSeq:WP_013665579.1
glycoside hydrolase N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020717774.1
COORDINATES: similar to AA sequence:RefSeq:WP_008588550.1
COORDINATES: similar to AA sequence:RefSeq:WP_015028141.1
COORDINATES: similar to AA sequence:RefSeq:WP_008640309.1
COORDINATES: protein motif:HMM:NF018123.2
COORDINATES: similar to AA sequence:RefSeq:WP_008512456.1
MaoC/PaaZ C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010603541.1
COORDINATES: similar to AA sequence:RefSeq:WP_012026099.1
sugar ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_014651375.1
CaiB/BaiF CoA-transferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008512461.1
COORDINATES: similar to AA sequence:RefSeq:WP_008615233.1
COORDINATES: similar to AA sequence:RefSeq:WP_015811621.1
COORDINATES: similar to AA sequence:RefSeq:WP_013928325.1
COORDINATES: similar to AA sequence:RefSeq:WP_010603121.1
COORDINATES: similar to AA sequence:RefSeq:WP_012789482.1
COORDINATES: similar to AA sequence:RefSeq:WP_008512822.1
COORDINATES: similar to AA sequence:RefSeq:WP_015808571.1
family 78 glycoside hydrolase catalytic domain