Azospirillum humicireducens strain SgZ-5 plasmid pYZ3.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodospirillales; Azospirillaceae; Azospirillum.
Complete genome sequence of the nitrogen-fixing bacterium Azospirillum humicireducens type strain SgZ-5
Submitted (19-APR-2018) Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Guangdong Institute of Eco-Environmental Science & Technology, No. 808 Tianyuan Road, Guangzhou, Guangdong 510650, China
Genome reannotated when plasmids were added to the assembly
Submitted (12-APR-2018) Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Guangdong Institute of Eco-Environmental Science & Technology, No. 808 Tianyuan Road, Guangzhou, Guangdong 510650, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP028904.1.\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 :: A5-Miseq v. v20150522\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 259.0x\nSequencing Technology :: Illumina HiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 11:12:00\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) :: 6,141\nCDSs (total) :: 6,057\nGenes (coding) :: 5,874\nCDSs (with protein) :: 5,874\nGenes (RNA) :: 84\nrRNAs :: 4, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 5, 4 (5S, 16S, 23S)\npartial rRNAs :: 1 (23S)\ntRNAs :: 66\nncRNAs :: 4\nPseudo Genes (total) :: 183\nCDSs (without protein) :: 183\nPseudo Genes (ambiguous residues) :: 0 of 183\nPseudo Genes (frameshifted) :: 30 of 183\nPseudo Genes (incomplete) :: 166 of 183\nPseudo Genes (internal stop) :: 10 of 183\nPseudo Genes (multiple problems) :: 21 of 183\nCRISPR Arrays :: 3\n##Genome-Annotation-Data-END##
type strain of Azospirillum humicireducens
COORDINATES: protein motif:HMM:NF015803.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
ShlB/FhaC/HecB family hemolysin secretion/activation protein
COORDINATES: protein motif:HMM:NF017658.2
COORDINATES: protein motif:HMM:NF018482.2
invasion associated locus B family protein
COORDINATES: protein motif:HMM:NF014567.2
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_008598503.1
COORDINATES: similar to AA sequence:RefSeq:WP_006939175.1
GO:0004803 - transposase activity [Evidence IEA]
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_076611557.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
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_018915330.1
COORDINATES: similar to AA sequence:RefSeq:WP_016492505.1
COORDINATES: similar to AA sequence:RefSeq:WP_003454012.1
COORDINATES: similar to AA sequence:RefSeq:WP_003180897.1
GO:0008236 - serine-type peptidase activity [Evidence IEA]
prolyl oligopeptidase family serine peptidase
COORDINATES: similar to AA sequence:RefSeq:WP_010954091.1
GO:0003824 - catalytic activity [Evidence IEA]
NAD-dependent epimerase/dehydratase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007943858.1
fumarylacetoacetate hydrolase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_016492506.1
COORDINATES: similar to AA sequence:RefSeq:WP_014336550.1
COORDINATES: similar to AA sequence:RefSeq:WP_012763690.1
COORDINATES: similar to AA sequence:RefSeq:WP_016492495.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024946.2
COORDINATES: protein motif:HMM:NF019310.2
COORDINATES: protein motif:HMM:NF015431.2
COORDINATES: similar to AA sequence:RefSeq:WP_007012507.1
COORDINATES: protein motif:HMM:NF005313.0
COORDINATES: protein motif:HMM:NF013098.2
COORDINATES: protein motif:HMM:NF025887.2
nuclear transport factor 2 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_020125791.1
COORDINATES: similar to AA sequence:RefSeq:WP_014761193.1
frameshifted; internal stop; 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:TIGR01733.1
COORDINATES: similar to AA sequence:RefSeq:WP_003159266.1
COORDINATES: similar to AA sequence:RefSeq:WP_012339596.1
COORDINATES: protein motif:HMM:TIGR00543.1
GO:0008909 - isochorismate synthase activity [Evidence IEA]
GO:0009234 - menaquinone biosynthetic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF012873.2
COORDINATES: protein motif:HMM:NF012901.2
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_015037385.1
aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme
COORDINATES: protein motif:HMM:NF024826.2
COORDINATES: protein motif:HMM:NF013166.2
GO:0009058 - biosynthetic process [Evidence IEA]
hybrid non-ribosomal peptide synthetase/type I polyketide synthase
COORDINATES: similar to AA sequence:RefSeq:WP_008598406.1
COORDINATES: similar to AA sequence:RefSeq:WP_011747810.1
COORDINATES: similar to AA sequence:RefSeq:WP_011747809.1
GO:0045892 - negative regulation of DNA-templated transcription [Evidence IEA]
TetR/AcrR family transcriptional regulator C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF024242.2
COORDINATES: protein motif:HMM:NF012801.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012976461.1
GGDEF domain-containing phosphodiesterase
COORDINATES: protein motif:HMM:NF012245.2
COORDINATES: protein motif:HMM:NF012876.2
GO:0007165 - signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008063854.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976464.1
COORDINATES: similar to AA sequence:RefSeq:WP_018422955.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976466.1
COORDINATES: protein motif:HMM:NF012787.2
COORDINATES: similar to AA sequence:RefSeq:WP_012976468.1
COORDINATES: similar to AA sequence:RefSeq:WP_019962922.1
GO:0051983 - regulation of chromosome segregation [Evidence IEA]
type II toxin-antitoxin system ParD family antitoxin
COORDINATES: protein motif:HMM:NF016876.2
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: protein motif:HMM:NF013714.2
COORDINATES: similar to AA sequence:RefSeq:WP_012978206.1
COORDINATES: protein motif:HMM:NF019350.2
GO:0000155 - phosphorelay sensor kinase activity [Evidence IEA]; GO:0046983 - protein dimerization activity [Evidence IEA]
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR03794.1
NHLP bacteriocin system secretion protein
COORDINATES: protein motif:HMM:TIGR03796.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]; GO:0008233 - peptidase activity [Evidence IEA]
GO:0006508 - proteolysis [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
NHLP family bacteriocin export ABC transporter peptidase/permease/ATPase subunit
COORDINATES: protein motif:HMM:NF012235.2
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014189807.1
COORDINATES: similar to AA sequence:RefSeq:WP_014189806.1
COORDINATES: similar to AA sequence:RefSeq:WP_014189805.1
L-2-amino-thiazoline-4-carboxylic acid hydrolase
COORDINATES: similar to AA sequence:RefSeq:WP_014189804.1
COORDINATES: similar to AA sequence:RefSeq:WP_014189803.1
COORDINATES: similar to AA sequence:RefSeq:WP_014189802.1
branched-chain amino acid ABC transporter permease
COORDINATES: similar to AA sequence:RefSeq:WP_014189801.1
COORDINATES: similar to AA sequence:RefSeq:WP_014189800.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_014200207.1
COORDINATES: similar to AA sequence:RefSeq:WP_014189798.1
PLP-dependent cysteine synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014189797.1
GO:0019239 - deaminase activity [Evidence IEA]
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014189796.1
Lrp/AsnC family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_012976866.1
GO:0008783 - agmatinase activity [Evidence IEA]
GO:0008295 - spermidine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012976867.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976868.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_012976869.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976870.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976871.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976872.1
COORDINATES: similar to AA sequence:RefSeq:WP_006481203.1
COORDINATES: similar to AA sequence:RefSeq:WP_020684098.1
COORDINATES: similar to AA sequence:RefSeq:WP_015886816.1
COORDINATES: similar to AA sequence:RefSeq:WP_014332662.1
COORDINATES: similar to AA sequence:RefSeq:WP_019052850.1
COORDINATES: similar to AA sequence:RefSeq:WP_015918564.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
substrate-binding domain-containing protein
COORDINATES: protein motif:HMM:NF024949.2
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
LacI family DNA-binding transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_012978475.1
COORDINATES: similar to AA sequence:RefSeq:WP_018604441.1
COORDINATES: similar to AA sequence:RefSeq:WP_003467659.1
COORDINATES: similar to AA sequence:RefSeq:WP_012978472.1
GO:0008927 - mannonate dehydratase activity [Evidence IEA]
GO:0006064 - glucuronate catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012978471.1
FadR/GntR family transcriptional regulator
COORDINATES: protein motif:HMM:TIGR01783.1
GO:0019867 - outer membrane [Evidence IEA]
GO:0015343 - siderophore-iron transmembrane transporter activity [Evidence IEA]
GO:0015891 - siderophore transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012976183.1
PepSY-associated TM helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_076611132.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976880.1
COORDINATES: similar to AA sequence:RefSeq:WP_017967592.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976878.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976877.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976876.1
MarR family winged helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_015688082.1
aromatic ring-hydroxylating dioxygenase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_012976874.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976873.1
COORDINATES: similar to AA sequence:RefSeq:WP_014189236.1
COORDINATES: similar to AA sequence:RefSeq:WP_014189237.1
sugar ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_014189238.1
TMAO reductase system periplasmic protein TorT
COORDINATES: similar to AA sequence:RefSeq:WP_018245289.1
biotin-dependent carboxyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014189240.1
carboxyltransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012975671.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016874 - ligase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
acetyl-CoA carboxylase biotin carboxylase subunit
COORDINATES: similar to AA sequence:RefSeq:WP_014189242.1
GO:0009317 - acetyl-CoA carboxylase complex [Evidence IEA]
GO:0003989 - acetyl-CoA carboxylase activity [Evidence IEA]
GO:0006633 - fatty acid biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014189243.1
COORDINATES: similar to AA sequence:RefSeq:WP_012975674.1
COORDINATES: similar to AA sequence:RefSeq:WP_012978208.1
COORDINATES: similar to AA sequence:RefSeq:WP_008973958.1
COORDINATES: similar to AA sequence:RefSeq:WP_011471537.1
COORDINATES: protein motif:HMM:NF014420.2
energy-coupling factor transporter transmembrane protein EcfT
COORDINATES: similar to AA sequence:RefSeq:WP_009208988.1
COORDINATES: similar to AA sequence:RefSeq:WP_007956737.1
GO:0005342 - organic acid transmembrane transporter activity [Evidence IEA]
GO:0015849 - organic acid transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011471533.1
COORDINATES: similar to AA sequence:RefSeq:WP_011389083.1
acetyl-CoA carboxylase biotin carboxyl carrier protein subunit
COORDINATES: similar to AA sequence:RefSeq:WP_011471531.1
GO:0051191 - prosthetic group biosynthetic process [Evidence IEA]
malonate decarboxylase holo-[acyl-carrier-protein] synthase
COORDINATES: similar to AA sequence:RefSeq:WP_011471530.1
COORDINATES: similar to AA sequence:RefSeq:WP_011471529.1
GO:0044262 - cellular carbohydrate metabolic process [Evidence IEA]
biotin-independent malonate decarboxylase subunit gamma
COORDINATES: similar to AA sequence:RefSeq:WP_011471528.1
GO:0003989 - acetyl-CoA carboxylase activity [Evidence IEA]; GO:0016831 - carboxy-lyase activity [Evidence IEA]
GO:0044262 - cellular carbohydrate metabolic process [Evidence IEA]; GO:0006633 - fatty acid biosynthetic process [Evidence IEA]
biotin-independent malonate decarboxylase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_011471527.1
malonate decarboxylase acyl carrier protein
COORDINATES: similar to AA sequence:RefSeq:WP_004174181.1
GO:0015451 - decarboxylation-driven active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011442179.1
GO:0004077 - biotin-[acetyl-CoA-carboxylase] ligase activity [Evidence IEA]
GO:0036211 - protein modification process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011442180.1
Na+-transporting malonate decarboxylase, carboxybiotin decarboxylase subunit
COORDINATES: similar to AA sequence:RefSeq:WP_011471523.1
GO:0046917 - triphosphoribosyl-dephospho-CoA synthase activity [Evidence IEA]
GO:0019361 - 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA biosynthetic process [Evidence IEA]
triphosphoribosyl-dephospho-CoA synthase MdcB
COORDINATES: protein motif:HMM:NF014135.2
COORDINATES: similar to AA sequence:RefSeq:WP_010969691.1
PLP-dependent aminotransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014199320.1
frameshifted; internal stop; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:WP_012977469.1
HlyD family efflux transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_012977468.1
COORDINATES: similar to AA sequence:RefSeq:WP_012045159.1
COORDINATES: similar to AA sequence:RefSeq:WP_012977466.1
COORDINATES: similar to AA sequence:RefSeq:WP_012977464.1
COORDINATES: similar to AA sequence:RefSeq:WP_003849483.1
GO:0016872 - intramolecular lyase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012976864.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976863.1
COORDINATES: similar to AA sequence:RefSeq:WP_014285460.1
ribose ABC transporter substrate-binding protein RbsB
COORDINATES: similar to AA sequence:RefSeq:WP_012976861.1
COORDINATES: similar to AA sequence:RefSeq:WP_012976860.1
GO:0004747 - ribokinase activity [Evidence IEA]
GO:0019303 - D-ribose catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_032492267.1
frameshifted; 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: protein motif:HMM:NF017416.2
COORDINATES: similar to AA sequence:RefSeq:WP_011389073.1
COORDINATES: similar to AA sequence:RefSeq:WP_011907855.1
COORDINATES: similar to AA sequence:RefSeq:WP_014250219.1
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: similar to AA sequence:RefSeq:WP_014239656.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_006479394.1
COORDINATES: similar to AA sequence:RefSeq:WP_002730450.1
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_010659844.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611193.1
COORDINATES: similar to AA sequence:RefSeq:WP_015437063.1
COORDINATES: similar to AA sequence:RefSeq:WP_012975707.1
COORDINATES: similar to AA sequence:RefSeq:WP_012975708.1
COORDINATES: similar to AA sequence:RefSeq:WP_012975710.1
COORDINATES: similar to AA sequence:RefSeq:WP_019643459.1
COORDINATES: similar to AA sequence:RefSeq:WP_014188348.1
COORDINATES: similar to AA sequence:RefSeq:WP_014188349.1
COORDINATES: similar to AA sequence:RefSeq:WP_014188350.1
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: similar to AA sequence:RefSeq:WP_014199341.1
flagellar hook capping FlgD N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014249820.1
COORDINATES: similar to AA sequence:RefSeq:WP_014249819.1
COORDINATES: similar to AA sequence:RefSeq:WP_014249818.1
COORDINATES: similar to AA sequence:RefSeq:WP_014249817.1
GO:0009424 - bacterial-type flagellum hook [Evidence IEA]
GO:0005198 - structural molecule activity [Evidence IEA]
GO:0001539 - cilium or flagellum-dependent cell motility [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014249816.1
COORDINATES: similar to AA sequence:RefSeq:WP_014249815.1
GO:0071973 - bacterial-type flagellum-dependent cell motility [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014249814.1
GO:0009288 - bacterial-type flagellum [Evidence IEA]
GO:0007155 - cell adhesion [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014249813.1
COORDINATES: similar to AA sequence:RefSeq:WP_014249812.1
COORDINATES: similar to AA sequence:RefSeq:WP_014249811.1
COORDINATES: similar to AA sequence:RefSeq:WP_014249810.1
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_014200331.1
COORDINATES: similar to AA sequence:RefSeq:WP_014249967.1
frameshifted; 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_014250234.1
multidrug efflux RND transporter permease subunit
COORDINATES: similar to AA sequence:RefSeq:WP_012977901.1
COORDINATES: similar to AA sequence:RefSeq:WP_014250231.1