Niveispirillum cyanobacteriorum strain TH16 plasmid unnamed2, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodospirillales; Azospirillaceae; Niveispirillum.
Genomes of bacteria within cyanobacterial aggregates
Submitted (28-DEC-2017) Chinese Academy of Sciences, Nanjing Institute of Geography and Limnology, 73 East Beijing Road, Nanjing 210008, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP025614.1.\nBacteria and source DNA available from haiyuan cai.\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 :: SPAdes v. 3.11\nExpected Final Version :: yes\nGenome Coverage :: 1500.0x\nSequencing Technology :: Complete Genomics\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/04/2023 04:53:49\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 5,365\nCDSs (total) :: 5,289\nGenes (coding) :: 5,212\nCDSs (with protein) :: 5,212\nGenes (RNA) :: 76\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 60\nncRNAs :: 4\nPseudo Genes (total) :: 77\nCDSs (without protein) :: 77\nPseudo Genes (ambiguous residues) :: 0 of 77\nPseudo Genes (frameshifted) :: 30 of 77\nPseudo Genes (incomplete) :: 62 of 77\nPseudo Genes (internal stop) :: 12 of 77\nPseudo Genes (multiple problems) :: 23 of 77\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Niveispirillum cyanobacteriorum
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
SMP-30/gluconolactonase/LRE family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012569079.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006633661.1
frameshifted; incomplete; partial in the middle of a contig; missing N-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_007225611.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_004617742.1
COORDINATES: similar to AA sequence:RefSeq:WP_004617744.1
COORDINATES: similar to AA sequence:RefSeq:WP_010544049.1
COORDINATES: protein motif:HMM:NF013235.2
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017331162.1
NAD-dependent succinate-semialdehyde dehydrogenase
COORDINATES: protein motif:HMM:NF007922.1
GO:0051287 - NAD binding [Evidence IEA]; GO:0043115 - precorrin-2 dehydrogenase activity [Evidence IEA]; GO:0051266 - sirohydrochlorin ferrochelatase activity [Evidence IEA]; GO:0004851 - uroporphyrin-III C-methyltransferase activity [Evidence IEA]
GO:0019354 - siroheme biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009541390.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009541391.1
GO:0051537 - 2 iron, 2 sulfur cluster binding [Evidence IEA]; GO:0008942 - nitrite reductase [NAD(P)H] activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009541392.1
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0050661 - NADP binding [Evidence IEA]; GO:0008942 - nitrite reductase [NAD(P)H] activity [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
GO:0042128 - nitrate assimilation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006913192.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007091383.1
COORDINATES: protein motif:HMM:NF024772.2
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
CmpA/NrtA family ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF022795.2
COORDINATES: protein motif:HMM:NF013965.2
GO:0008657 - DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) inhibitor activity [Evidence IEA]
GO:0006276 - plasmid maintenance [Evidence IEA]
COORDINATES: protein motif:HMM:NF019009.2
type II toxin-antitoxin system CcdA family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_018269273.1
COORDINATES: similar to AA sequence:RefSeq:WP_012048694.1
COORDINATES: similar to AA sequence:RefSeq:WP_012238944.1
COORDINATES: similar to AA sequence:RefSeq:WP_019488203.1
COORDINATES: similar to AA sequence:RefSeq:WP_013248685.1
COORDINATES: protein motif:HMM:NF024822.2
COORDINATES: similar to AA sequence:RefSeq:WP_012345042.1
TerB family tellurite resistance protein
COORDINATES: similar to AA sequence:RefSeq:WP_009666953.1
organic hydroperoxide resistance protein
COORDINATES: protein motif:HMM:NF016139.2
COORDINATES: similar to AA sequence:RefSeq:WP_012569066.1
COORDINATES: protein motif:HMM:NF013224.2
Lrp/AsnC family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_012565673.1
GO:0006865 - amino acid transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF017885.2
COORDINATES: protein motif:HMM:NF012403.2
COORDINATES: similar to AA sequence:RefSeq:WP_012568929.1
GO:0016787 - hydrolase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020400365.1
COORDINATES: protein motif:HMM:TIGR00254.1
GO:0009975 - cyclase activity [Evidence IEA]
GO:0009966 - regulation of signal transduction [Evidence IEA]
ligand-binding sensor domain-containing diguanylate cyclase
COORDINATES: similar to AA sequence:RefSeq:WP_008942842.1
COORDINATES: similar to AA sequence:RefSeq:WP_010237124.1
proton-conducting transporter membrane subunit
COORDINATES: similar to AA sequence:RefSeq:WP_008942840.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009207025.1
COORDINATES: similar to AA sequence:RefSeq:WP_014248506.1
COORDINATES: similar to AA sequence:RefSeq:WP_014415461.1
HlyD family efflux transporter periplasmic adaptor subunit
COORDINATES: protein motif:HMM:NF025605.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
TetR/AcrR family transcriptional regulator
COORDINATES: protein motif:HMM:NF012245.2
GO:0020037 - heme binding [Evidence IEA]; GO:0019825 - oxygen binding [Evidence IEA]
ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF012772.2
COORDINATES: similar to AA sequence:RefSeq:WP_018061822.1
LacI family DNA-binding transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_015459278.1
COORDINATES: similar to AA sequence:RefSeq:WP_016836653.1
GO:0016836 - hydro-lyase activity [Evidence IEA]; GO:0051536 - iron-sulfur cluster binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019368444.1
COORDINATES: similar to AA sequence:RefSeq:WP_013039694.1
COORDINATES: similar to AA sequence:RefSeq:WP_013479405.1
fumarylacetoacetate hydrolase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018083627.1
GO:0004553 - hydrolase activity, hydrolyzing O-glycosyl compounds [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
glycoside hydrolase family 3 N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF015585.2
COORDINATES: similar to AA sequence:RefSeq:WP_014647204.1
GO:0046559 - alpha-glucuronidase activity [Evidence IEA]
GO:0045493 - xylan catabolic process [Evidence IEA]
alpha-glucuronidase family glycosyl hydrolase
COORDINATES: similar to AA sequence:RefSeq:WP_014242052.1
COORDINATES: similar to AA sequence:RefSeq:WP_007577226.1
D-galactonate dehydratase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018113197.1
COORDINATES: similar to AA sequence:RefSeq:WP_010215530.1
GO:0019867 - outer membrane [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015826814.1
COORDINATES: similar to AA sequence:RefSeq:WP_010403417.1
COORDINATES: similar to AA sequence:RefSeq:WP_012977208.1
GO:0001216 - DNA-binding transcription activator activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003536470.1
COORDINATES: similar to AA sequence:RefSeq:WP_002944545.1
CaiB/BaiF CoA-transferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012568462.1
NAD/NADP transhydrogenase alpha subunit-like protein
COORDINATES: protein motif:HMM:NF012913.2
COORDINATES: similar to AA sequence:RefSeq:WP_008447816.1
COORDINATES: protein motif:HMM:TIGR00229.1
COORDINATES: protein motif:HMM:NF024891.2
GO:0004141 - dethiobiotin synthase activity [Evidence IEA]
GO:0009102 - biotin biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003618448.1
GO:0051537 - 2 iron, 2 sulfur cluster binding [Evidence IEA]; GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:0004076 - biotin synthase activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013640427.1
GO:0004015 - adenosylmethionine-8-amino-7-oxononanoate transaminase activity [Evidence IEA]
adenosylmethionine--8-amino-7-oxononanoate transaminase
COORDINATES: similar to AA sequence:RefSeq:WP_009540336.1
GO:0008710 - 8-amino-7-oxononanoate synthase activity [Evidence IEA]; GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024880.2
methyltransferase domain-containing protein
COORDINATES: protein motif:HMM:TIGR02937.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma-70 family RNA polymerase sigma factor
COORDINATES: protein motif:HMM:NF021633.2
COORDINATES: similar to AA sequence:RefSeq:WP_006833436.1
GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]
COORDINATES: protein motif:HMM:NF016648.2
COORDINATES: similar to AA sequence:RefSeq:WP_006201666.1
type II toxin-antitoxin system PemK/MazF family toxin
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF012801.2
GO:0015267 - channel activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF014396.2
GO:0016158 - 3-phytase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012371.2
COORDINATES: similar to AA sequence:RefSeq:WP_016745156.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327636.1
COORDINATES: similar to AA sequence:RefSeq:WP_012048480.1
GO:0015891 - siderophore transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR02385.1
type II toxin-antitoxin system mRNA interferase toxin, RelE/StbE family
COORDINATES: similar to AA sequence:RefSeq:WP_009803608.1
COORDINATES: similar to AA sequence:RefSeq:WP_013079043.1
GO:0016740 - transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015452001.1
3-oxoacyl-[acyl-carrier-protein] synthase III C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008519234.1
aromatic ring-hydroxylating dioxygenase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_018458263.1
COORDINATES: similar to AA sequence:RefSeq:WP_012048476.1
COORDINATES: protein motif:HMM:NF015925.2
GO:0004497 - monooxygenase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012048482.1
COORDINATES: similar to AA sequence:RefSeq:WP_011911466.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:TIGR02292.1
COORDINATES: similar to AA sequence:RefSeq:WP_018268846.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_076611896.1
GO:0007165 - signal transduction [Evidence IEA]
HAMP domain-containing methyl-accepting chemotaxis protein
COORDINATES: similar to AA sequence:RefSeq:WP_076612221.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011970376.1
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_011983064.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012976033.1
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_018302964.1
GO:0009325 - nitrate reductase complex [Evidence IEA]
GO:0008940 - nitrate reductase activity [Evidence IEA]
GO:0042126 - nitrate metabolic process [Evidence IEA]
periplasmic nitrate reductase, NapE protein
COORDINATES: protein motif:HMM:NF024585.2
4Fe-4S dicluster domain-containing protein
COORDINATES: protein motif:HMM:NF015861.2
COORDINATES: similar to AA sequence:RefSeq:WP_014246629.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:0030151 - molybdenum ion binding [Evidence IEA]; GO:0043546 - molybdopterin cofactor binding [Evidence IEA]; GO:0008940 - nitrate reductase activity [Evidence IEA]
nitrate reductase catalytic subunit NapA
COORDINATES: similar to AA sequence:RefSeq:WP_014241888.1
nitrate reductase cytochrome c-type subunit
COORDINATES: similar to AA sequence:RefSeq:WP_019645412.1
COORDINATES: protein motif:HMM:NF024753.2
PQQ-binding-like beta-propeller repeat protein
COORDINATES: similar to AA sequence:RefSeq:WP_012975307.1
COORDINATES: similar to AA sequence:RefSeq:WP_010339849.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF013757.2
COORDINATES: similar to AA sequence:RefSeq:WP_012521874.1
COORDINATES: protein motif:HMM:NF012596.2
GO:0003824 - catalytic activity [Evidence IEA]
enoyl-CoA hydratase/isomerase family protein
COORDINATES: protein motif:HMM:NF015048.2
GO:0047617 - acyl-CoA hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024685.2
COORDINATES: similar to AA sequence:RefSeq:WP_007227333.1
COORDINATES: protein motif:HMM:NF025050.2
COORDINATES: similar to AA sequence:RefSeq:WP_008327651.1
MaoC/PaaZ C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004210272.1
GO:0009055 - electron transfer activity [Evidence IEA]; GO:0051536 - iron-sulfur cluster binding [Evidence IEA]
2Fe-2S iron-sulfur cluster-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007976916.1
COORDINATES: similar to AA sequence:RefSeq:WP_010403637.1
GO:0051537 - 2 iron, 2 sulfur cluster binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008327643.1
GO:0016627 - oxidoreductase activity, acting on the CH-CH group of donors [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013836707.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327662.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327641.1
thiamine pyrophosphate-dependent dehydrogenase E1 component subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_012048485.1
alpha-ketoacid dehydrogenase subunit beta
COORDINATES: protein motif:HMM:NF012424.2
COORDINATES: protein motif:HMM:TIGR01782.1
COORDINATES: similar to AA sequence:RefSeq:WP_013079173.1
COORDINATES: protein motif:HMM:NF016693.2
COORDINATES: similar to AA sequence:RefSeq:YP_002518271.1
COORDINATES: similar to AA sequence:RefSeq:YP_002518272.1
COORDINATES: similar to AA sequence:RefSeq:WP_010968496.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_014246950.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_008434046.1
COORDINATES: similar to AA sequence:RefSeq:WP_013478163.1
COORDINATES: similar to AA sequence:RefSeq:WP_017669726.1
COORDINATES: similar to AA sequence:RefSeq:WP_019371191.1
COORDINATES: protein motif:HMM:NF021576.2
COORDINATES: similar to AA sequence:RefSeq:WP_018972410.1
GO:0000155 - phosphorelay sensor kinase activity [Evidence IEA]
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017916840.1
LytTR family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012285259.1
COORDINATES: similar to AA sequence:RefSeq:WP_018062601.1
GO:0008233 - peptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019833611.1
COORDINATES: similar to AA sequence:RefSeq:WP_018062603.1
GO:0009436 - glyoxylate catabolic process [Evidence IEA]; GO:0071704 - organic substance metabolic process [Evidence IEA]
dihydrodipicolinate synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019833606.1
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_018326737.1
COORDINATES: protein motif:HMM:NF012706.2
peptide ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_010247188.1
COORDINATES: similar to AA sequence:RefSeq:WP_007667964.1
COORDINATES: similar to AA sequence:RefSeq:WP_018098280.1
GO:0016810 - hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007687286.1
COORDINATES: similar to AA sequence:RefSeq:WP_003533623.1
COORDINATES: protein motif:HMM:TIGR01730.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_009541553.1
COORDINATES: protein motif:HMM:NF027421.2
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: similar to AA sequence:RefSeq:WP_011541052.1
GO:0008869 - galactonate dehydratase activity [Evidence IEA]
GO:0009063 - amino acid catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009538776.1
GO:0004370 - glycerol kinase activity [Evidence IEA]
GO:0006071 - glycerol metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012695149.1
COORDINATES: similar to AA sequence:RefSeq:WP_013478732.1
glycoside hydrolase family 2 TIM barrel-domain containing protein
COORDINATES: protein motif:HMM:NF018928.2
COORDINATES: similar to AA sequence:RefSeq:WP_018113009.1