Granulicella tundricola MP5ACTX9 plasmid pACIX902, complete sequence.
Bacteria; Acidobacteriota; Terriglobia; Terriglobales; Acidobacteriaceae; Granulicella.
Complete sequence of plasmid2 of Granulicella sp. MP5ACTX9
Submitted (24-JAN-2011) US DOE Joint Genome Institute, 2800 Mitchell Drive B310, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP002482.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4088693\nSource DNA and organism available from Max M. Haggblom\n(haggblom@aesop.rutgers.edu)\nContacts: Max M. Haggblom (haggblom@aesop.rutgers.edu)\n Tanja Woyke (microbe@cuba.jgi-psf.org)\nAnnotation done by JGI-ORNL and JGI-PGF\nFinishing done by JGI-LANL\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. it is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376).\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##MIGS-Data-START##\ninvestigation_type :: bacteria_archaea\nproject_name :: Granulicella sp. MP5ACTX9\ncollection_date :: Missing\nlat_lon :: Missing\ndepth :: Missing\nalt_elev :: Missing\ncountry :: Missing\nenvironment :: Acid mine\nnum_replicons :: 6\nref_biomaterial :: Missing\nbiotic_relationship :: Missing\ntrophic_level :: Chemoorganotroph\nrel_to_oxygen :: Aerobe\nisol_growth_condt :: Missing\nsequencing_meth :: WGS\nassembly :: Newbler v. 2.3 (pre-release)\nfinishing_strategy :: Finished\nGOLD Stamp ID :: Gi06612\nFunding Program :: DOE-CSP 2010\nGene Calling Method :: Glimmer\nGram Staining :: Gram-\nPhenotypes :: Acidophile\n##MIGS-Data-END##\n\n##Genome-Assembly-Data-START##\nFinishing Goal :: Finished\nCurrent Finishing Status :: Finished\nAssembly Method :: Newbler v. 2.3\nGenome Coverage :: 30x\nSequencing Technology :: WGS\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/29/2022 02:35:13\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 4,705\nCDSs (total) :: 4,652\nGenes (coding) :: 4,604\nCDSs (with protein) :: 4,604\nGenes (RNA) :: 53\nrRNAs :: 1, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 1, 1, 1 (5S, 16S, 23S)\ntRNAs :: 46\nncRNAs :: 4\nPseudo Genes (total) :: 48\nCDSs (without protein) :: 48\nPseudo Genes (ambiguous residues) :: 0 of 48\nPseudo Genes (frameshifted) :: 17 of 48\nPseudo Genes (incomplete) :: 33 of 48\nPseudo Genes (internal stop) :: 14 of 48\nPseudo Genes (multiple problems) :: 16 of 48\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_014266860.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
mandelate racemase/muconate lactonizing enzyme family protein
COORDINATES: protein motif:HMM:NF025006.2
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:TIGR02103.1
GO:0051060 - pullulanase activity [Evidence IEA]
GO:0051678 - pullulan catabolic process [Evidence IEA]; GO:0005983 - starch catabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF014567.2
COORDINATES: similar to AA sequence:RefSeq:WP_015896437.1
COORDINATES: protein motif:HMM:NF020846.2
COORDINATES: similar to AA sequence:RefSeq:WP_014265132.1
COORDINATES: similar to AA sequence:RefSeq:WP_013567325.1
COORDINATES: similar to AA sequence:RefSeq:WP_020715021.1
COORDINATES: similar to AA sequence:RefSeq:WP_014787230.1
COORDINATES: similar to AA sequence:RefSeq:WP_020714780.1
COORDINATES: similar to AA sequence:RefSeq:WP_013569488.1
COORDINATES: similar to AA sequence:RefSeq:WP_014266634.1
COORDINATES: similar to AA sequence:RefSeq:WP_020750061.1
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF021778.2
COORDINATES: similar to AA sequence:RefSeq:WP_020710288.1
GO:0019213 - deacetylase activity [Evidence IEA]; GO:0016810 - hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds [Evidence IEA]
amidohydrolase/deacetylase family metallohydrolase
COORDINATES: similar to AA sequence:RefSeq:WP_014786156.1
GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
GO:0019346 - transsulfuration [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014266649.1
COORDINATES: similar to AA sequence:RefSeq:WP_020714822.1
aminotransferase class V-fold PLP-dependent enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_020710293.1
COORDINATES: similar to AA sequence:RefSeq:WP_020714825.1
carboxypeptidase regulatory-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020714826.1
COORDINATES: similar to AA sequence:RefSeq:WP_020714827.1
COORDINATES: similar to AA sequence:RefSeq:WP_020714828.1
COORDINATES: similar to AA sequence:RefSeq:WP_005918986.1
COORDINATES: similar to AA sequence:RefSeq:WP_002812019.1
GO:0004560 - alpha-L-fucosidase activity [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020712819.1
COORDINATES: similar to AA sequence:RefSeq:WP_020712818.1
COORDINATES: similar to AA sequence:RefSeq:WP_020714013.1
COORDINATES: similar to AA sequence:RefSeq:WP_020721676.1
carboxypeptidase-like regulatory domain-containing protein
COORDINATES: protein motif:HMM:NF025042.2
COORDINATES: similar to AA sequence:RefSeq:WP_013568089.1
FadR/GntR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_014784644.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF020498.2
COORDINATES: similar to AA sequence:RefSeq:WP_014267720.1
COORDINATES: protein motif:HMM:NF027952.2
COORDINATES: protein motif:HMM:NF012698.2
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
winged helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011688964.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020712977.1
GO:0016811 - hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014785054.1
COORDINATES: similar to AA sequence:RefSeq:WP_020712975.1
PAS domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_020712974.1
COORDINATES: protein motif:HMM:NF025965.2
COORDINATES: similar to AA sequence:RefSeq:WP_020716922.1
COORDINATES: similar to AA sequence:RefSeq:WP_020715025.1
COORDINATES: similar to AA sequence:RefSeq:WP_015898317.1
fumarylacetoacetate hydrolase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_020710984.1
COORDINATES: similar to AA sequence:RefSeq:WP_014266126.1
COORDINATES: similar to AA sequence:RefSeq:WP_015875821.1
COORDINATES: similar to AA sequence:RefSeq:WP_020716426.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611759.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; 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:NF012356.2
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013569261.1
COORDINATES: similar to AA sequence:RefSeq:WP_013573333.1
COORDINATES: protein motif:HMM:NF026041.2
COORDINATES: protein motif:HMM:NF013753.2
COORDINATES: similar to AA sequence:RefSeq:WP_011427422.1
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_018085591.1
COORDINATES: protein motif:HMM:NF014732.2
GO:0009103 - lipopolysaccharide biosynthetic process [Evidence IEA]
Wzz/FepE/Etk N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF013884.2
COORDINATES: similar to AA sequence:RefSeq:WP_014265814.1
polysaccharide biosynthesis/export family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013570737.1
COORDINATES: protein motif:HMM:NF012745.2
COORDINATES: protein motif:HMM:NF025025.2
COORDINATES: protein motif:HMM:NF024831.2
COORDINATES: similar to AA sequence:RefSeq:WP_013567058.1
COORDINATES: similar to AA sequence:RefSeq:WP_086558108.1
COORDINATES: similar to AA sequence:RefSeq:WP_086558229.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: protein motif:HMM:NF027798.2
COORDINATES: protein motif:HMM:NF025224.2
leucine-rich repeat domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013573007.1
COORDINATES: protein motif:HMM:NF016154.2
COORDINATES: similar to AA sequence:RefSeq:WP_013573009.1
COORDINATES: similar to AA sequence:RefSeq:WP_013573010.1
COORDINATES: similar to AA sequence:RefSeq:WP_013573011.1
COORDINATES: similar to AA sequence:RefSeq:WP_013573012.1
COORDINATES: protein motif:HMM:NF012931.2
GO:0004553 - hydrolase activity, hydrolyzing O-glycosyl compounds [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014265716.1
COORDINATES: similar to AA sequence:RefSeq:WP_014265222.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF033550.5
COORDINATES: protein motif:HMM:NF024940.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013569126.1
phytanoyl-CoA dioxygenase family protein
COORDINATES: protein motif:HMM:NF021576.2
COORDINATES: similar to AA sequence:RefSeq:WP_013569123.1
COORDINATES: protein motif:HMM:NF016830.2
GO:0015288 - porin activity [Evidence IEA]
GO:0008643 - carbohydrate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014786537.1
glycoside hydrolase family 3 C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014785363.1
aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_011522784.1
PLP-dependent aspartate aminotransferase family protein
COORDINATES: protein motif:HMM:NF014677.2
COORDINATES: similar to AA sequence:RefSeq:WP_013569283.1
COORDINATES: similar to AA sequence:RefSeq:WP_014786208.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_006977711.1
COORDINATES: similar to AA sequence:RefSeq:WP_020711591.1
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_020713033.1
COORDINATES: similar to AA sequence:RefSeq:WP_011521116.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578918.1
COORDINATES: similar to AA sequence:RefSeq:WP_013567605.1
COORDINATES: protein motif:HMM:NF024824.2
tetratricopeptide repeat-containing glycosyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_020713334.1
FMN-binding negative transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_020075877.1
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_020717524.1
COORDINATES: similar to AA sequence:RefSeq:WP_018174369.1
GO:0003824 - catalytic activity [Evidence IEA]; GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
GO:0009058 - biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014265730.1
COORDINATES: similar to AA sequence:RefSeq:WP_014265731.1
COORDINATES: similar to AA sequence:RefSeq:WP_013566938.1
GO:0009326 - formate dehydrogenase complex [Evidence IEA]
GO:0008863 - formate dehydrogenase (NAD+) activity [Evidence IEA]
GO:0015942 - formate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012927693.1
GO:0016783 - sulfurtransferase activity [Evidence IEA]
formate dehydrogenase accessory sulfurtransferase FdhD
COORDINATES: similar to AA sequence:RefSeq:WP_014265734.1
COORDINATES: similar to AA sequence:RefSeq:WP_015897588.1
COORDINATES: similar to AA sequence:RefSeq:WP_014265736.1
COORDINATES: similar to AA sequence:RefSeq:WP_014785394.1
COORDINATES: similar to AA sequence:RefSeq:WP_020700802.1
COORDINATES: similar to AA sequence:RefSeq:WP_020406497.1
GO:0005515 - protein binding [Evidence IEA]; GO:0004856 - xylulokinase activity [Evidence IEA]
GO:0042732 - D-xylose metabolic process [Evidence IEA]; GO:0005997 - xylulose metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012432719.1
nuclear transport factor 2 family protein
COORDINATES: protein motif:HMM:NF019459.2
COORDINATES: similar to AA sequence:RefSeq:WP_015162912.1
sulfite exporter TauE/SafE family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014263256.1
COORDINATES: similar to AA sequence:RefSeq:WP_014265663.1
COORDINATES: similar to AA sequence:RefSeq:WP_014786296.1
COORDINATES: similar to AA sequence:RefSeq:WP_014267981.1
COORDINATES: similar to AA sequence:RefSeq:WP_011537400.1
GO:0000287 - magnesium ion binding [Evidence IEA]; GO:0009045 - xylose isomerase activity [Evidence IEA]
GO:0042732 - D-xylose metabolic process [Evidence IEA]; GO:0006098 - pentose-phosphate shunt [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014265135.1
COORDINATES: protein motif:HMM:NF019335.2
COORDINATES: protein motif:HMM:NF012546.2
COORDINATES: protein motif:HMM:NF012257.2
Crp/Fnr family transcriptional regulator
COORDINATES: nucleotide motif:Rfam:14.4:RF00174
cobalamin riboswitch; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: protein motif:HMM:TIGR02435.1
GO:0016709 - oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen [Evidence IEA]
GO:0019250 - aerobic cobalamin biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018349496.1
GO:0016993 - precorrin-8X methylmutase activity [Evidence IEA]
GO:0009236 - cobalamin biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014056940.1
GO:0030788 - precorrin-2 C20-methyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014265014.1
bifunctional cobalt-precorrin-7 (C(5))-methyltransferase/cobalt-precorrin-6B (C(15))-methyltransferase
COORDINATES: protein motif:HMM:NF014006.2
COORDINATES: similar to AA sequence:RefSeq:WP_014265016.1
GO:0046026 - precorrin-4 C11-methyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014265017.1
GO:0016994 - precorrin-6A reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018043548.1
GO:0043819 - precorrin-6A synthase (deacetylating) activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024826.2
COORDINATES: protein motif:HMM:NF014805.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF014606.2
COORDINATES: protein motif:HMM:NF012744.2
COORDINATES: protein motif:HMM:NF014051.2
COORDINATES: protein motif:HMM:NF016800.2
COORDINATES: protein motif:HMM:NF025072.2
COORDINATES: protein motif:HMM:NF017183.2
COORDINATES: similar to AA sequence:RefSeq:WP_013572885.1
COORDINATES: protein motif:HMM:NF016670.2
COORDINATES: similar to AA sequence:RefSeq:WP_013570417.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020707951.1
rhodanese-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014784710.1
COORDINATES: similar to AA sequence:RefSeq:WP_014784709.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_019691286.1
PDDEXK nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010683470.1
carboxymuconolactone decarboxylase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014263388.1
GO:0071704 - organic substance metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008918347.1
COORDINATES: similar to AA sequence:RefSeq:WP_010235849.1
COORDINATES: similar to AA sequence:RefSeq:WP_020713822.1
COORDINATES: similar to AA sequence:RefSeq:WP_020716441.1
COORDINATES: similar to AA sequence:RefSeq:WP_014267315.1
LacI family DNA-binding transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013566832.1
GO:0042597 - periplasmic space [Evidence IEA]
GO:0016829 - lyase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019921186.1
COORDINATES: protein motif:HMM:NF024827.2
COORDINATES: similar to AA sequence:RefSeq:WP_020717048.1
COORDINATES: similar to AA sequence:RefSeq:WP_014266221.1
COORDINATES: similar to AA sequence:RefSeq:WP_020707429.1
glycoside hydrolase family 30 beta sandwich domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014263320.1
COORDINATES: similar to AA sequence:RefSeq:WP_013568755.1
glycosyl hydrolase family 28-related protein
GO:0008236 - serine-type peptidase activity [Evidence IEA]
prolyl oligopeptidase family serine peptidase