Marinomonas algicola strain SM1966 plasmid punamed1, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Oceanospirillales; Oceanospirillaceae; Marinomonas.
Marinomonas sp. nov., isolated from the Ulva pertusa algae of Rongcheng,China
Submitted (21-SEP-2020) College of Life Sciences, Shandong Normal University, 88 Wenhua East Road, Jinan, Shandong 250014, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP061942.1.\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 :: HGAP v. 4\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 413.1293x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/16/2023 03:21:03\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) :: 4,119\nCDSs (total) :: 4,003\nGenes (coding) :: 3,956\nCDSs (with protein) :: 3,956\nGenes (RNA) :: 116\nrRNAs :: 10, 9, 9 (5S, 16S, 23S)\ncomplete rRNAs :: 10, 9, 9 (5S, 16S, 23S)\ntRNAs :: 84\nncRNAs :: 4\nPseudo Genes (total) :: 47\nCDSs (without protein) :: 47\nPseudo Genes (ambiguous residues) :: 0 of 47\nPseudo Genes (frameshifted) :: 14 of 47\nPseudo Genes (incomplete) :: 34 of 47\nPseudo Genes (internal stop) :: 10 of 47\nPseudo Genes (multiple problems) :: 10 of 47\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: protein motif:HMM:NF013793.2
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:NF015038.2
COORDINATES: similar to AA sequence:RefSeq:WP_012516968.1
GO:0003964 - RNA-directed DNA polymerase activity [Evidence IEA]
GO:0000373 - Group II intron splicing [Evidence IEA]
group II intron reverse transcriptase/maturase
COORDINATES: similar to AA sequence:RefSeq:WP_012472779.1
frameshifted; 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:NF014814.2
helix-turn-helix domain-containing protein
DDE-type integrase/transposase/recombinase
COORDINATES: protein motif:HMM:NF013776.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611225.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011514665.1
COORDINATES: similar to AA sequence:RefSeq:WP_011327121.1
COORDINATES: protein motif:HMM:NF017528.2
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_009836234.1
COORDINATES: similar to AA sequence:RefSeq:WP_017087771.1
COORDINATES: similar to AA sequence:RefSeq:WP_008110853.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008110852.1
GO:0016152 - mercury (II) reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008110850.1
COORDINATES: similar to AA sequence:RefSeq:WP_013755197.1
GO:0045340 - mercury ion binding [Evidence IEA]
mercury resistance system periplasmic binding protein MerP
COORDINATES: similar to AA sequence:RefSeq:WP_008110845.1
mercuric transporter MerT family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009787605.1
COORDINATES: similar to AA sequence:RefSeq:WP_008110844.1
GO:0001228 - DNA-binding transcription activator activity, RNA polymerase II-specific [Evidence IEA]
Hg(II)-responsive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008110837.1
COORDINATES: similar to AA sequence:RefSeq:WP_001527814.1
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_012564931.1
COORDINATES: similar to AA sequence:RefSeq:WP_032495017.1
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_017413146.1
COORDINATES: similar to AA sequence:RefSeq:WP_018929440.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013700.2
COORDINATES: protein motif:HMM:TIGR00077.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
GO:0009306 - protein secretion [Evidence IEA]; GO:0006508 - proteolysis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006079711.1
GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]
GO:0015036 - disulfide oxidoreductase activity [Evidence IEA]
GO:0017004 - cytochrome complex assembly [Evidence IEA]
DsbE family thiol:disulfide interchange protein
COORDINATES: similar to AA sequence:RefSeq:WP_018989944.1
COORDINATES: similar to AA sequence:RefSeq:WP_014769670.1
GO:0015035 - protein-disulfide reductase activity [Evidence IEA]
GO:0006457 - protein folding [Evidence IEA]
COORDINATES: protein motif:HMM:NF019430.2
Spy/CpxP family protein refolding chaperone
COORDINATES: similar to AA sequence:RefSeq:WP_019621165.1
COORDINATES: protein motif:HMM:NF024853.2
COORDINATES: similar to AA sequence:RefSeq:WP_002777256.1
COORDINATES: protein motif:HMM:TIGR01511.1
GO:0042625 - ATPase-coupled ion transmembrane transporter activity [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR02047.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
GO:0045893 - positive regulation of DNA-templated transcription [Evidence IEA]
Cd(II)/Pb(II)-responsive transcriptional regulator
COORDINATES: protein motif:HMM:NF001419.0
GO:0047134 - protein-disulfide reductase (NAD(P)) activity [Evidence IEA]
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF020387.2
COORDINATES: similar to AA sequence:RefSeq:WP_011839966.1
COORDINATES: similar to AA sequence:RefSeq:WP_011369626.1
GO:0009279 - cell outer membrane [Evidence IEA]
GO:0015288 - porin activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF016290.2
GO:0019867 - outer membrane [Evidence IEA]
GO:0043165 - Gram-negative-bacterium-type cell outer membrane assembly [Evidence IEA]
COORDINATES: protein motif:HMM:NF012894.2
COORDINATES: protein motif:HMM:NF017815.2
transglutaminase-like cysteine peptidase
COORDINATES: protein motif:HMM:NF012772.2
COORDINATES: similar to AA sequence:RefSeq:WP_011369629.1
COORDINATES: similar to AA sequence:RefSeq:WP_019557196.1
GO:0030253 - protein secretion by the type I secretion system [Evidence IEA]
HlyD family type I secretion periplasmic adaptor subunit
COORDINATES: protein motif:HMM:NF012422.2
COORDINATES: similar to AA sequence:RefSeq:WP_076612394.1
COORDINATES: similar to AA sequence:RefSeq:WP_008109360.1
COORDINATES: similar to AA sequence:RefSeq:WP_020800873.1
COORDINATES: protein motif:HMM:NF019984.2
group II intron maturase-specific domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011071243.1
GO:0015074 - DNA integration [Evidence IEA]
integrase core domain-containing protein
COORDINATES: protein motif:HMM:NF021255.2
COORDINATES: similar to AA sequence:RefSeq:WP_011154650.1
COORDINATES: protein motif:HMM:NF012801.2
COORDINATES: similar to AA sequence:RefSeq:WP_005325170.1
COORDINATES: protein motif:HMM:NF019310.2
COORDINATES: protein motif:HMM:NF012320.2
COORDINATES: protein motif:HMM:NF025642.2
COORDINATES: similar to AA sequence:RefSeq:WP_013359977.1
GO:0019812 - type I site-specific deoxyribonuclease complex [Evidence IEA]
GO:0009035 - type I site-specific deoxyribonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
HsdR family type I site-specific deoxyribonuclease
COORDINATES: similar to AA sequence:RefSeq:WP_011191655.1
COORDINATES: similar to AA sequence:RefSeq:WP_011711499.1
GO:0015666 - restriction endodeoxyribonuclease activity [Evidence IEA]; GO:0009007 - site-specific DNA-methyltransferase (adenine-specific) activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]; GO:0009307 - DNA restriction-modification system [Evidence IEA]
type I restriction-modification system subunit M
COORDINATES: similar to AA sequence:RefSeq:WP_002043325.1
COORDINATES: similar to AA sequence:RefSeq:WP_002043324.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024787.2
COORDINATES: similar to AA sequence:RefSeq:WP_009840022.1
COORDINATES: similar to AA sequence:RefSeq:WP_019934981.1
COORDINATES: similar to AA sequence:RefSeq:WP_009178065.1
GO:0005507 - copper ion binding [Evidence IEA]; GO:0009055 - electron transfer activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011631155.1
Catalyzes the synthesis of acetoacetyl coenzyme A from two molecules of acetyl coenzyme A. It can also act as a thiolase, catalyzing the reverse reaction and generating two-carbon units from the four-carbon product of fatty acid oxidation; 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_020287934.1
GO:0006750 - glutathione biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007910265.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_001469683.1
COORDINATES: similar to AA sequence:RefSeq:WP_007647994.1
COORDINATES: similar to AA sequence:RefSeq:WP_019809496.1
COORDINATES: protein motif:HMM:NF015210.2
COORDINATES: similar to AA sequence:RefSeq:WP_019601990.1
COORDINATES: protein motif:HMM:NF033516.0
COORDINATES: similar to AA sequence:RefSeq:WP_007041787.1
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: similar to AA sequence:RefSeq:WP_011789342.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013752.2
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_015500558.1
COORDINATES: similar to AA sequence:RefSeq:WP_006939175.1
COORDINATES: protein motif:HMM:NF013235.2
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
RepB family plasmid replication initiator protein