Sulfitobacter alexandrii strain AM1-D1 plasmid unnamed4, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Roseobacteraceae; Sulfitobacter.
Complete genome sequence of Sulfitobacter sp. AM1-D1, a toxic bacteria associated with marine dinoflagellate Alexandrium minutum in East China Sea
Submitted (16-NOV-2016) Marine Natural Products, East China Sea Fisheries Research Institute, 300, Jungong Rd., Shanghai 200090, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP018080.1.\nBacteria and source DNA available from cuture of a marine\ndinoflagellate Alexandrium minutum.\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 Date :: 2016\nAssembly Method :: SOAPdenovo v. 2.04\nAssembly Name :: Sulfitobacter sp. AM1-D1\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 280.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 02:44:09\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) :: 4,592\nCDSs (total) :: 4,538\nGenes (coding) :: 4,464\nCDSs (with protein) :: 4,464\nGenes (RNA) :: 54\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 45\nncRNAs :: 3\nPseudo Genes (total) :: 74\nCDSs (without protein) :: 74\nPseudo Genes (ambiguous residues) :: 0 of 74\nPseudo Genes (frameshifted) :: 52 of 74\nPseudo Genes (incomplete) :: 27 of 74\nPseudo Genes (internal stop) :: 2 of 74\nPseudo Genes (multiple problems) :: 6 of 74\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
cell culture of Alexandrium minutum 1089
COORDINATES: similar to AA sequence:RefSeq:WP_012490127.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF015445.2
GO:0055085 - transmembrane transport [Evidence IEA]
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
TRAP transporter substrate-binding protein DctP
COORDINATES: protein motif:HMM:NF016200.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF018513.2
GO:0005886 - plasma membrane [Evidence IEA]; GO:0031317 - tripartite ATP-independent periplasmic transporter complex [Evidence IEA]
GO:0015556 - C4-dicarboxylate transmembrane transporter activity [Evidence IEA]
GO:0015740 - C4-dicarboxylate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008229962.1
COORDINATES: similar to AA sequence:RefSeq:WP_014876591.1
COORDINATES: similar to AA sequence:RefSeq:WP_020043035.1
ParB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008335646.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009820065.1
COORDINATES: similar to AA sequence:RefSeq:WP_009819737.1
COORDINATES: protein motif:HMM:NF020419.2
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_003523553.1
COORDINATES: protein motif:HMM:NF024880.2
GO:0008168 - methyltransferase activity [Evidence IEA]
methyltransferase domain-containing protein
COORDINATES: protein motif:HMM:NF012870.2
Mu transposase C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF017437.2
COORDINATES: protein motif:HMM:NF018259.2
COORDINATES: protein motif:HMM:NF014068.2
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0043565 - sequence-specific DNA binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014285393.1
COORDINATES: similar to AA sequence:RefSeq:WP_007977269.1
enoyl-CoA hydratase/isomerase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009808031.1
COORDINATES: similar to AA sequence:RefSeq:WP_017499968.1
COORDINATES: similar to AA sequence:RefSeq:WP_002924411.1
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_009808034.1
CaiB/BaiF CoA-transferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009808035.1
branched-chain amino acid ABC transporter permease
COORDINATES: protein motif:HMM:NF014684.2
COORDINATES: similar to AA sequence:RefSeq:WP_008560039.1
COORDINATES: similar to AA sequence:RefSeq:WP_009737123.1
COORDINATES: similar to AA sequence:RefSeq:WP_007150488.1
COORDINATES: protein motif:HMM:NF024850.2
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_019700045.1
COORDINATES: similar to AA sequence:RefSeq:WP_008305448.1
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0016614 - oxidoreductase activity, acting on CH-OH group of donors [Evidence IEA]
GMC family oxidoreductase N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF036525.2
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_009808070.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120671.1
COORDINATES: similar to AA sequence:RefSeq:WP_009803685.1
COORDINATES: similar to AA sequence:RefSeq:WP_009803686.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327387.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120675.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_010139194.1
COORDINATES: similar to AA sequence:RefSeq:WP_012187159.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327379.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010139749.1
COORDINATES: nucleotide motif:Rfam:14.4:RF00001
Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:14.4:RF02541
COORDINATES: protein motif:HMM:NF025082.2
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: nucleotide motif:Rfam:14.4:RF00177
COORDINATES: protein motif:HMM:NF014567.2
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_009819617.1
COORDINATES: protein motif:HMM:NF023010.2
COORDINATES: similar to AA sequence:RefSeq:WP_020558210.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005896519.1
carbon-nitrogen hydrolase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007008655.1
COORDINATES: similar to AA sequence:RefSeq:WP_007117903.1
dihydrodipicolinate synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015500062.1
aspartate/glutamate racemase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007117905.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007117906.1
COORDINATES: similar to AA sequence:RefSeq:WP_007117907.1
GO:0015833 - peptide transport [Evidence IEA]
dipeptide ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007117908.1
COORDINATES: similar to AA sequence:RefSeq:WP_007117909.1
COORDINATES: similar to AA sequence:RefSeq:WP_007117910.1
COORDINATES: similar to AA sequence:RefSeq:WP_007117911.1
COORDINATES: similar to AA sequence:RefSeq:WP_007117912.1
COORDINATES: similar to AA sequence:RefSeq:WP_007117913.1
COORDINATES: similar to AA sequence:RefSeq:WP_007117914.1
GO:0004157 - dihydropyrimidinase activity [Evidence IEA]
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007120599.1
GO:0016747 - acyltransferase activity, transferring groups other than amino-acyl groups [Evidence IEA]
GO:0019619 - 3,4-dihydroxybenzoate catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007803189.1
GO:0008410 - CoA-transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007803187.1
COORDINATES: similar to AA sequence:RefSeq:WP_009803906.1
IclR family transcriptional regulator C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018699260.1
COORDINATES: similar to AA sequence:RefSeq:WP_007112616.1
GO:0070403 - NAD+ binding [Evidence IEA]
GO:0006631 - fatty acid metabolic process [Evidence IEA]
3-hydroxyacyl-CoA dehydrogenase NAD-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020056852.1
COORDINATES: similar to AA sequence:RefSeq:WP_013793133.1
GO:0018659 - 4-hydroxybenzoate 3-monooxygenase activity [Evidence IEA]
GO:0018874 - benzoate metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF024242.2
COORDINATES: similar to AA sequence:RefSeq:WP_012177550.1
COORDINATES: similar to AA sequence:RefSeq:WP_009469066.1
COORDINATES: similar to AA sequence:RefSeq:WP_009175819.1
COORDINATES: similar to AA sequence:RefSeq:WP_012177558.1
COORDINATES: similar to AA sequence:RefSeq:WP_009176069.1
COORDINATES: similar to AA sequence:RefSeq:WP_011568430.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008183148.1
GO:0004109 - coproporphyrinogen oxidase activity [Evidence IEA]
GO:0006779 - porphyrin-containing compound biosynthetic process [Evidence IEA]
oxygen-dependent coproporphyrinogen oxidase
COORDINATES: protein motif:HMM:NF016462.2
COORDINATES: similar to AA sequence:RefSeq:WP_011646282.1
COORDINATES: protein motif:HMM:NF019349.2
COORDINATES: similar to AA sequence:RefSeq:WP_013960425.1
COORDINATES: similar to AA sequence:RefSeq:WP_005849095.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008229741.1
COORDINATES: similar to AA sequence:RefSeq:WP_007794553.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_010138136.1
COORDINATES: similar to AA sequence:RefSeq:WP_014528042.1
GO:0008660 - 1-aminocyclopropane-1-carboxylate deaminase activity [Evidence IEA]
GO:0042217 - 1-aminocyclopropane-1-carboxylate catabolic process [Evidence IEA]
1-aminocyclopropane-1-carboxylate deaminase
COORDINATES: similar to AA sequence:RefSeq:WP_011971051.1
Lrp/AsnC ligand binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005858687.1
COORDINATES: similar to AA sequence:RefSeq:WP_008549300.1
COORDINATES: similar to AA sequence:RefSeq:WP_009503866.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011331447.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824155.1
COORDINATES: similar to AA sequence:RefSeq:WP_020039566.1
COORDINATES: similar to AA sequence:RefSeq:WP_020039567.1
COORDINATES: similar to AA sequence:RefSeq:WP_019956010.1
COORDINATES: similar to AA sequence:RefSeq:WP_019956011.1
COORDINATES: similar to AA sequence:RefSeq:WP_008885891.1
YihY/virulence factor BrkB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013652118.1
COORDINATES: similar to AA sequence:RefSeq:WP_007008846.1
COORDINATES: similar to AA sequence:RefSeq:WP_009824259.1
TRAP transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_007067583.1
COORDINATES: similar to AA sequence:RefSeq:WP_007804101.1
COORDINATES: similar to AA sequence:RefSeq:WP_015921564.1
sugar ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_009827740.1
COORDINATES: similar to AA sequence:RefSeq:WP_008189044.1
COORDINATES: similar to AA sequence:RefSeq:WP_008560431.1
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: protein motif:HMM:NF024799.2
LacI family DNA-binding transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008755981.1
GO:0046872 - metal ion binding [Evidence IEA]
zinc ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_011453439.1
COORDINATES: similar to AA sequence:RefSeq:WP_013960403.1
COORDINATES: similar to AA sequence:RefSeq:WP_015497121.1
GO:0043190 - ATP-binding cassette (ABC) transporter complex [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007120198.1
COORDINATES: similar to AA sequence:RefSeq:WP_018698173.1
COORDINATES: similar to AA sequence:RefSeq:WP_009807563.1
COORDINATES: similar to AA sequence:RefSeq:WP_007010852.1
COORDINATES: similar to AA sequence:RefSeq:WP_018698170.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120193.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120192.1
COORDINATES: similar to AA sequence:RefSeq:WP_015497828.1
COORDINATES: similar to AA sequence:RefSeq:WP_006224156.1
COORDINATES: similar to AA sequence:RefSeq:WP_014851493.1
COORDINATES: similar to AA sequence:RefSeq:WP_016840405.1
COORDINATES: similar to AA sequence:RefSeq:WP_008905445.1
COORDINATES: similar to AA sequence:RefSeq:WP_009516103.1
COORDINATES: similar to AA sequence:RefSeq:WP_016846279.1
COORDINATES: similar to AA sequence:RefSeq:WP_012256968.1
COORDINATES: protein motif:HMM:NF012596.2
COORDINATES: protein motif:HMM:NF019958.2
COORDINATES: protein motif:HMM:NF012711.2
class I adenylate-forming enzyme family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019859239.1
COORDINATES: similar to AA sequence:RefSeq:WP_008029352.1
COORDINATES: similar to AA sequence:RefSeq:WP_018269501.1
SMP-30/gluconolactonase/LRE family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019572342.1
sugar ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_009028297.1
COORDINATES: similar to AA sequence:RefSeq:WP_013674590.1
COORDINATES: similar to AA sequence:RefSeq:WP_014100903.1
GO:0016627 - oxidoreductase activity, acting on the CH-CH group of donors [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014753284.1
COORDINATES: protein motif:HMM:NF013775.2
COORDINATES: similar to AA sequence:RefSeq:WP_014996539.1
COORDINATES: similar to AA sequence:RefSeq:WP_014743802.1
COORDINATES: protein motif:HMM:NF012655.2
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018112029.1
MaoC/PaaZ C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007187261.1
COORDINATES: similar to AA sequence:RefSeq:WP_015456896.1
COORDINATES: similar to AA sequence:RefSeq:WP_020648019.1
COORDINATES: similar to AA sequence:RefSeq:WP_020648021.1
COORDINATES: similar to AA sequence:RefSeq:WP_015456895.1
biotin carboxylase N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009803488.1
COORDINATES: similar to AA sequence:RefSeq:WP_014747236.1
carboxyl transferase domain-containing protein
COORDINATES: protein motif:HMM:NF013488.2
GO:0015035 - protein-disulfide reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003059758.1
GO:0008808 - cardiolipin synthase activity [Evidence IEA]
GO:0032049 - cardiolipin biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013960581.1
endonuclease/exonuclease/phosphatase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012187055.1
COORDINATES: similar to AA sequence:RefSeq:WP_009573269.1
COORDINATES: similar to AA sequence:RefSeq:WP_005848672.1
COORDINATES: similar to AA sequence:RefSeq:WP_005848674.1
COORDINATES: similar to AA sequence:RefSeq:WP_009823470.1
COORDINATES: protein motif:HMM:NF024846.2
COORDINATES: similar to AA sequence:RefSeq:WP_010686980.1
COORDINATES: similar to AA sequence:RefSeq:WP_009504638.1
GO:0016758 - hexosyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005854465.1
COORDINATES: similar to AA sequence:RefSeq:WP_007120545.1
COORDINATES: similar to AA sequence:RefSeq:WP_008327496.1
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008120543.1
COORDINATES: similar to AA sequence:RefSeq:WP_008886116.1
COORDINATES: similar to AA sequence:RefSeq:WP_007801650.1
COORDINATES: similar to AA sequence:RefSeq:WP_008883807.1