Saprospira grandis str. Lewin plasmid unnamed, complete sequence.
Bacteria; Bacteroidota; Saprospiria; Saprospirales; Saprospiraceae; Saprospira.
Complete genome sequencing and analysis of Saprospira grandis str. Lewin, a predatory marine bacterium
Submitted (02-JUN-2011) Microbiology, University of Hawaii at Manoa, 2538 McCarthy Mall, Snyder 207, Honolulu, HI 96822, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP002832.1.\nSource DNA is available from ASGPB, University of Hawaii at Manoa.\nPlease contact Prof. Maqsudul Alam at alam@hawaii.edu.\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/02/2023 02:11:23\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) :: 3,467\nCDSs (total) :: 3,407\nGenes (coding) :: 3,398\nCDSs (with protein) :: 3,398\nGenes (RNA) :: 60\nrRNAs :: 4, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 3, 3 (5S, 16S, 23S)\ntRNAs :: 48\nncRNAs :: 2\nPseudo Genes (total) :: 9\nCDSs (without protein) :: 9\nPseudo Genes (ambiguous residues) :: 0 of 9\nPseudo Genes (frameshifted) :: 1 of 9\nPseudo Genes (incomplete) :: 6 of 9\nPseudo Genes (internal stop) :: 3 of 9\nPseudo Genes (multiple problems) :: 1 of 9\nCRISPR Arrays :: 4\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_002656195.1
GO:0004152 - dihydroorotate dehydrogenase activity [Evidence IEA]
GO:0006221 - pyrimidine nucleotide biosynthetic process [Evidence IEA]
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: similar to AA sequence:RefSeq:WP_011837818.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003922 - GMP synthase (glutamine-hydrolyzing) activity [Evidence IEA]; GO:0016462 - pyrophosphatase activity [Evidence IEA]
GO:0006177 - GMP biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015514323.1
GO:0003938 - IMP dehydrogenase activity [Evidence IEA]
GO:0009152 - purine ribonucleotide biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002656190.1
COORDINATES: similar to AA sequence:RefSeq:WP_002656189.1
COORDINATES: similar to AA sequence:RefSeq:WP_002656187.1
phosphoribosylformylglycinamidine synthase subunit PurQ
COORDINATES: similar to AA sequence:RefSeq:WP_015695505.1
GO:0003824 - catalytic activity [Evidence IEA]; GO:0003937 - IMP cyclohydrolase activity [Evidence IEA]; GO:0004643 - phosphoribosylaminoimidazolecarboxamide formyltransferase activity [Evidence IEA]
GO:0006189 - 'de novo' IMP biosynthetic process [Evidence IEA]; GO:0006164 - purine nucleotide biosynthetic process [Evidence IEA]
bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase
COORDINATES: similar to AA sequence:RefSeq:WP_015695507.1
phosphoribosylaminoimidazolesuccinocarboxamide synthase
COORDINATES: similar to AA sequence:RefSeq:WP_015695508.1
GO:0004018 - N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity [Evidence IEA]
GO:0006188 - IMP biosynthetic process [Evidence IEA]; GO:0009152 - purine ribonucleotide biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015695509.1
GO:0004637 - phosphoribosylamine-glycine ligase activity [Evidence IEA]
GO:0006189 - 'de novo' IMP biosynthetic process [Evidence IEA]; GO:0009152 - purine ribonucleotide biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002656178.1
GO:0004644 - phosphoribosylglycinamide formyltransferase activity [Evidence IEA]
phosphoribosylglycinamide formyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_015695512.1
GO:0004044 - amidophosphoribosyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015695514.1
COORDINATES: similar to AA sequence:RefSeq:WP_002656202.1
COORDINATES: similar to AA sequence:RefSeq:WP_002656203.1
GO:0042834 - peptidoglycan binding [Evidence IEA]; GO:0015288 - porin activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002656204.1
GO:0020037 - heme binding [Evidence IEA]; GO:0004833 - tryptophan 2,3-dioxygenase activity [Evidence IEA]
GO:0019441 - tryptophan catabolic process to kynurenine [Evidence IEA]
tryptophan 2,3-dioxygenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_002656206.1
COORDINATES: similar to AA sequence:RefSeq:WP_015695521.1
COORDINATES: similar to AA sequence:RefSeq:WP_002656209.1
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015695523.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015695524.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0008134 - transcription factor binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma 54-interacting transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_015695526.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_002656132.1
GO:0016624 - oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008023681.1
GO:0010124 - phenylacetate catabolic process [Evidence IEA]
1,2-phenylacetyl-CoA epoxidase subunit PaaE
COORDINATES: similar to AA sequence:RefSeq:WP_015695529.1
GO:0097266 - phenylacetyl-CoA 1,2-epoxidase activity [Evidence IEA]
1,2-phenylacetyl-CoA epoxidase subunit PaaA
COORDINATES: similar to AA sequence:RefSeq:WP_002656138.1
1,2-phenylacetyl-CoA epoxidase subunit PaaB
COORDINATES: similar to AA sequence:RefSeq:WP_002656140.1
1,2-phenylacetyl-CoA epoxidase subunit PaaC
COORDINATES: similar to AA sequence:RefSeq:WP_015695532.1
1,2-phenylacetyl-CoA epoxidase subunit PaaD
COORDINATES: similar to AA sequence:RefSeq:WP_015695533.1
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002656145.1
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_015695535.1
GO:0016790 - thiolester hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002656150.1
GO:0003985 - acetyl-CoA C-acetyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015695537.1
phenylacetic acid degradation bifunctional protein PaaZ
COORDINATES: similar to AA sequence:RefSeq:WP_002656156.1
enoyl-CoA hydratase/isomerase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015695539.1
transferase hexapeptide repeat family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015695540.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_002656161.1
GO:0005886 - plasma membrane [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013764403.1
Lrp/AsnC family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_002656164.1
GO:0004040 - amidase activity [Evidence IEA]
glucosaminidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_002656166.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015693105.1
COORDINATES: similar to AA sequence:RefSeq:WP_002656168.1
COORDINATES: similar to AA sequence:RefSeq:WP_011937495.1
COORDINATES: protein motif:HMM:NF012441.2
GO:0004590 - orotidine-5'-phosphate decarboxylase activity [Evidence IEA]
GO:0006207 - 'de novo' pyrimidine nucleobase biosynthetic process [Evidence IEA]
orotidine 5'-phosphate decarboxylase / HUMPS family protein
COORDINATES: protein motif:HMM:NF016283.2
COORDINATES: similar to AA sequence:RefSeq:WP_015695551.1
GO:0009220 - pyrimidine ribonucleotide biosynthetic process [Evidence IEA]