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Table 3 Dickeya fangzhongdai species-specific genesa

From: Genomic characterisation of the new Dickeya fangzhongdai species regrouping plant pathogens and environmental isolates

RAST ID Size (AA) Annotationab Domains/Motivesc Functional classification COGd COG classd KEGGd Gene conserved ine
Dickeya_fangzhongdai_ND14b.0429 457 Pectate lyase Pec lyase superfamily protein secretion
Dickeya_fangzhongdai_ND14b.0753 131 Ketosteroid isomerase-related protein NTF2 like superfamily metabolism Comamonas testosteroni
Dickeya_fangzhongdai_ND14b.0754 212 Thioredoxin-like protein clustered with PA0057 Thioredoxin like superfamily Posttranslational modification Comamonas testosteroni
Dickeya_fangzhongdai_ND14b.0755 323 Nitrogen assimilation regulatory protein Nac HTH superfamily, Periplasmic binding protein Type 2 superfamily regulation Polaromonas sp. CF318
Dickeya_fangzhongdai_ND14b.0976 317 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain GAT_1 superfamily, HTH_AraC superfamily regulation Burkholderia lata
Dickeya_fangzhongdai_ND14b.1018 556 Pyruvate decarboxylase (EC 4.1.1.1); Alpha-keto-acid decarboxylase (EC 4.1.1.-) TPP_enzyme_PYR, TPP_enzyme_M, TPP_enzyme_C superfamily metabolism COG3961 GH K04103 Pectobacterium carotovorum
Dickeya_fangzhongdai_ND14b.1127 562 Chaperone protein hscC (Hsc62) HSP70 superfamily, NBD_sugar kinase/HSP70/actin superfamily Others COG443 O K04043,K04045 Pectobacterium carotovorum
Dickeya_fangzhongdai_ND14b.1128 891 Uncharacterized J domain-containing protein YbeS, predicted chaperone DnaJ superfamily, DUF805 supefamily Others
Dickeya_fangzhongdai_ND14b.1129 237 Glycosiltransferase family protein DUF1266 superfamily undefined Pectobacterium carotovorum
Dickeya_fangzhongdai_ND14b.1510 92 MarR family transcriptional regulator HTH superfamily regulation COG1733 Burkholderia sp. H160
Dickeya_fangzhongdai_ND14b.1511 78 Hypothetical transmembrane protein hypothetical protein COG2259 S Xanthomonas arboricola
Dickeya_fangzhongdai_ND14b.1828 407 Hypothetical protein DUF1501 superfamily hypothetical protein COG4102 S
Dickeya_fangzhongdai_ND14b.1829 625 Glycosyltransferase Glyco_transf_GTA_type suerfamily metabolism of cell wall COG1215 M K00698
Dickeya_fangzhongdai_ND14b.2289 73 Molybdopterin-guanine dinucleotide biosynthesis protein MobB p-loop NTPase superfamily metabolism COG1763 H K03753
Dickeya_fangzhongdai_ND14b.2311 53 hypothetical protein DUF1127 superfamily hypothetical protein
Dickeya_fangzhongdai_ND14b.2427 227 hypothetical protein hypothetical protein Pectobacterium carotovorum
Dickeya_fangzhongdai_ND14b.2499 458 Permeases of the major facilitator superfamily MPS superfamily transport K18326 Erwinia toletana
Dickeya_fangzhongdai_ND14b.2993 96 hypothetical protein DUF2631 superfamily, PilP superfamily hypothetical protein K12291 Serratia sp. ATCC 39006
Dickeya_fangzhongdai_ND14b.3123 511 Siderophore biosynthesis non-ribosomal peptide synthetase modules Adenylate forming domain, Class I superfamily metabolism of secondary metabolites COG1020 Q Serratia sp. ATCC 39006
Dickeya_fangzhongdai_ND14b.3971 158 GNAT family N-acetyltransferase RimI domain, NAT_SF superfamily Others
Dickeya_fangzhongdai_ND14b.3994 326 Quinone oxidoreductase (EC 1.6.5.5) MDR superfamily metabolism COG0604 C K00344 Rahnella aquatilis
Dickeya_fangzhongdai_ND14b.3997 314 Transcriptional regulator, LysR family HTH superfamily, Periplasmic binding protein Type 2 superfamily regulation Pantoea sp. AS-PWVM4
Dickeya_fangzhongdai_ND14b.4503 105 Quaternary ammonium compound-resistance protein SugE EamA superfamily transport COG2076 P K03297,K11741 Cronobacter
Dickeya_fangzhongdai_ND14b.4575 149 Hypothetical protein DUF1311 superfamily hypothetical protein
Dickeya_fangzhongdai_ND14b.4576 737 Putative cytoplasmic protein DUF4764 superfamily, Pesticin superfamily undefined
  1. aThe table presents species-specific genes that have protein motives and/or were found in other bacteria genera. Thirteen hypothetical proteins without any predicted motives and without any similar proteins in other bacteria were omitted from the Table
  2. bManually curated RAST annotation
  3. cProteins without conserved domain or motives are marked with -
  4. dProteins without identified COG or KEGG orthologes are marked with -
  5. eTreshold for conservation designation is 70% identity over 70% sequence length