GapMind for catabolism of small carbon sources

 

Protein WP_092996195.1 in Thiohalomonas denitrificans HLD2

Annotation: NCBI__GCF_900102855.1:WP_092996195.1

Length: 338 amino acids

Source: GCF_900102855.1 in NCBI

Candidate for 79 steps in catabolism of small carbon sources

Pathway Step Score Similar to Id. Cov. Bits Other hit Other id. Other bits
D-mannitol catabolism mtlK med SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter (characterized) 56% 100% 368.2 Sugar-binding transport ATP-binding protein aka MalK1 aka TT_C0211, component of The trehalose/maltose/sucrose/palatinose porter (TTC1627-9) plus MalK1 (ABC protein, shared with 3.A.1.1.24) (Silva et al. 2005; Chevance et al., 2006). The receptor (TTC1627) binds disaccharide alpha-glycosides, namely trehalose (alpha-1,1), sucrose (alpha-1,2), maltose (alpha-1,4), palatinose (alpha-1,6) and glucose 54% 365.5
D-cellobiose catabolism gtsD med Sugar-binding transport ATP-binding protein aka MalK1 aka TT_C0211, component of The trehalose/maltose/sucrose/palatinose porter (TTC1627-9) plus MalK1 (ABC protein, shared with 3.A.1.1.24) (Silva et al. 2005; Chevance et al., 2006). The receptor (TTC1627) binds disaccharide alpha-glycosides, namely trehalose (alpha-1,1), sucrose (alpha-1,2), maltose (alpha-1,4), palatinose (alpha-1,6) and glucose (characterized) 54% 97% 365.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-glucose catabolism gtsD med Sugar-binding transport ATP-binding protein aka MalK1 aka TT_C0211, component of The trehalose/maltose/sucrose/palatinose porter (TTC1627-9) plus MalK1 (ABC protein, shared with 3.A.1.1.24) (Silva et al. 2005; Chevance et al., 2006). The receptor (TTC1627) binds disaccharide alpha-glycosides, namely trehalose (alpha-1,1), sucrose (alpha-1,2), maltose (alpha-1,4), palatinose (alpha-1,6) and glucose (characterized) 54% 97% 365.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
lactose catabolism gtsD med Sugar-binding transport ATP-binding protein aka MalK1 aka TT_C0211, component of The trehalose/maltose/sucrose/palatinose porter (TTC1627-9) plus MalK1 (ABC protein, shared with 3.A.1.1.24) (Silva et al. 2005; Chevance et al., 2006). The receptor (TTC1627) binds disaccharide alpha-glycosides, namely trehalose (alpha-1,1), sucrose (alpha-1,2), maltose (alpha-1,4), palatinose (alpha-1,6) and glucose (characterized) 54% 97% 365.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-maltose catabolism gtsD med Sugar-binding transport ATP-binding protein aka MalK1 aka TT_C0211, component of The trehalose/maltose/sucrose/palatinose porter (TTC1627-9) plus MalK1 (ABC protein, shared with 3.A.1.1.24) (Silva et al. 2005; Chevance et al., 2006). The receptor (TTC1627) binds disaccharide alpha-glycosides, namely trehalose (alpha-1,1), sucrose (alpha-1,2), maltose (alpha-1,4), palatinose (alpha-1,6) and glucose (characterized) 54% 97% 365.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-maltose catabolism thuK med Sugar-binding transport ATP-binding protein aka MalK1 aka TT_C0211, component of The trehalose/maltose/sucrose/palatinose porter (TTC1627-9) plus MalK1 (ABC protein, shared with 3.A.1.1.24) (Silva et al. 2005; Chevance et al., 2006). The receptor (TTC1627) binds disaccharide alpha-glycosides, namely trehalose (alpha-1,1), sucrose (alpha-1,2), maltose (alpha-1,4), palatinose (alpha-1,6) and glucose (characterized) 54% 97% 365.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-mannose catabolism TT_C0211 med Sugar-binding transport ATP-binding protein aka MalK1 aka TT_C0211, component of The trehalose/maltose/sucrose/palatinose porter (TTC1627-9) plus MalK1 (ABC protein, shared with 3.A.1.1.24) (Silva et al. 2005; Chevance et al., 2006). The receptor (TTC1627) binds disaccharide alpha-glycosides, namely trehalose (alpha-1,1), sucrose (alpha-1,2), maltose (alpha-1,4), palatinose (alpha-1,6) and glucose (characterized) 54% 97% 365.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
sucrose catabolism gtsD med Sugar-binding transport ATP-binding protein aka MalK1 aka TT_C0211, component of The trehalose/maltose/sucrose/palatinose porter (TTC1627-9) plus MalK1 (ABC protein, shared with 3.A.1.1.24) (Silva et al. 2005; Chevance et al., 2006). The receptor (TTC1627) binds disaccharide alpha-glycosides, namely trehalose (alpha-1,1), sucrose (alpha-1,2), maltose (alpha-1,4), palatinose (alpha-1,6) and glucose (characterized) 54% 97% 365.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
sucrose catabolism thuK med Sugar-binding transport ATP-binding protein aka MalK1 aka TT_C0211, component of The trehalose/maltose/sucrose/palatinose porter (TTC1627-9) plus MalK1 (ABC protein, shared with 3.A.1.1.24) (Silva et al. 2005; Chevance et al., 2006). The receptor (TTC1627) binds disaccharide alpha-glycosides, namely trehalose (alpha-1,1), sucrose (alpha-1,2), maltose (alpha-1,4), palatinose (alpha-1,6) and glucose (characterized) 54% 97% 365.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
trehalose catabolism gtsD med Sugar-binding transport ATP-binding protein aka MalK1 aka TT_C0211, component of The trehalose/maltose/sucrose/palatinose porter (TTC1627-9) plus MalK1 (ABC protein, shared with 3.A.1.1.24) (Silva et al. 2005; Chevance et al., 2006). The receptor (TTC1627) binds disaccharide alpha-glycosides, namely trehalose (alpha-1,1), sucrose (alpha-1,2), maltose (alpha-1,4), palatinose (alpha-1,6) and glucose (characterized) 54% 97% 365.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
trehalose catabolism thuK med Sugar-binding transport ATP-binding protein aka MalK1 aka TT_C0211, component of The trehalose/maltose/sucrose/palatinose porter (TTC1627-9) plus MalK1 (ABC protein, shared with 3.A.1.1.24) (Silva et al. 2005; Chevance et al., 2006). The receptor (TTC1627) binds disaccharide alpha-glycosides, namely trehalose (alpha-1,1), sucrose (alpha-1,2), maltose (alpha-1,4), palatinose (alpha-1,6) and glucose (characterized) 54% 97% 365.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-maltose catabolism malK med ABC-type maltose transporter (subunit 3/3) (EC 7.5.2.1) (characterized) 53% 97% 358.6 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-sorbitol (glucitol) catabolism mtlK med MtlK, component of The polyol (mannitol, glucitol (sorbitol), arabitol (arabinitol; lyxitol)) uptake porter, MtlEFGK (characterized) 53% 98% 357.1 Sugar-binding transport ATP-binding protein aka MalK1 aka TT_C0211, component of The trehalose/maltose/sucrose/palatinose porter (TTC1627-9) plus MalK1 (ABC protein, shared with 3.A.1.1.24) (Silva et al. 2005; Chevance et al., 2006). The receptor (TTC1627) binds disaccharide alpha-glycosides, namely trehalose (alpha-1,1), sucrose (alpha-1,2), maltose (alpha-1,4), palatinose (alpha-1,6) and glucose 54% 365.5
N-acetyl-D-glucosamine catabolism SMc02869 med N-Acetyl-D-glucosamine ABC transport system, ATPase component (characterized) 54% 100% 354.8 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-glucosamine (chitosamine) catabolism SMc02869 med N-Acetyl-D-glucosamine ABC transport system, ATPase component (characterized) 54% 100% 354.8 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
xylitol catabolism Dshi_0546 med ABC transporter for Xylitol, ATPase component (characterized) 53% 100% 350.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
lactose catabolism lacK med ABC transporter for Lactose, ATPase component (characterized) 52% 100% 342 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-maltose catabolism malK1 med MalK; aka Sugar ABC transporter, ATP-binding protein, component of The maltose, maltotriose, mannotetraose (MalE1)/maltose, maltotriose, trehalose (MalE2) porter (Nanavati et al., 2005). For MalG1 (823aas) and MalG2 (833aas), the C-terminal transmembrane domain with 6 putative TMSs is preceded by a single N-terminal TMS and a large (600 residue) hydrophilic region showing sequence similarity to MLP1 and 2 (9.A.14; e-12 & e-7) as well as other proteins (characterized) 49% 98% 327 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-fucose catabolism SM_b21106 med ABC transporter for L-Fucose, ATPase component (characterized) 48% 100% 320.1 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-maltose catabolism malK_Aa med ABC-type maltose transporter (EC 7.5.2.1) (characterized) 49% 95% 320.1 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-maltose catabolism malK_Sm med MalK, component of Maltose/Maltotriose/maltodextrin (up to 7 glucose units) transporters MalXFGK (MsmK (3.A.1.1.28) can probably substitute for MalK; Webb et al., 2008) (characterized) 47% 98% 318.9 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
trehalose catabolism malK med MalK, component of Maltose/Maltotriose/maltodextrin (up to 7 glucose units) transporters MalXFGK (MsmK (3.A.1.1.28) can probably substitute for MalK; Webb et al., 2008) (characterized) 47% 98% 318.9 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-maltose catabolism malK_Bb med ABC-type maltose transport, ATP binding protein (characterized, see rationale) 50% 97% 312.4 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-galactose catabolism PfGW456L13_1897 med ABC transporter for D-Galactose and D-Glucose, ATPase component (characterized) 45% 93% 304.7 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-glucosamine (chitosamine) catabolism SM_b21216 med ABC transporter for D-Glucosamine, ATPase component (characterized) 47% 99% 302 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-xylose catabolism gtsD med ABC transporter for D-Glucose-6-Phosphate, ATPase component (characterized) 45% 95% 298.9 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-cellobiose catabolism msiK med MsiK protein, component of The cellobiose/cellotriose (and possibly higher cellooligosaccharides), CebEFGMsiK [MsiK functions to energize several ABC transporters including those for maltose/maltotriose and trehalose] (characterized) 47% 98% 297.7 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-maltose catabolism musK med ABC-type maltose transporter (EC 7.5.2.1) (characterized) 50% 89% 289.3 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-arabinose catabolism xacJ med Xylose/arabinose import ATP-binding protein XacJ; EC 7.5.2.13 (characterized, see rationale) 44% 95% 276.9 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-arabinose catabolism xacK med Xylose/arabinose import ATP-binding protein XacK; EC 7.5.2.13 (characterized, see rationale) 46% 86% 266.9 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
trehalose catabolism treV med TreV, component of Trehalose porter (characterized) 47% 87% 253.8 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-arabinose catabolism araV med AraV, component of Arabinose, fructose, xylose porter (characterized) 40% 81% 213 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-fructose catabolism araV med AraV, component of Arabinose, fructose, xylose porter (characterized) 40% 81% 213 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
sucrose catabolism araV med AraV, component of Arabinose, fructose, xylose porter (characterized) 40% 81% 213 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-xylose catabolism araV med AraV, component of Arabinose, fructose, xylose porter (characterized) 40% 81% 213 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-maltose catabolism aglK lo ABC transporter for D-Maltose and D-Trehalose, ATPase component (characterized) 64% 67% 308.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
sucrose catabolism aglK lo ABC transporter for D-Maltose and D-Trehalose, ATPase component (characterized) 64% 67% 308.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
trehalose catabolism aglK lo ABC transporter for D-Maltose and D-Trehalose, ATPase component (characterized) 64% 67% 308.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-cellobiose catabolism aglK' lo Maltose/maltodextrin import ATP-binding protein; EC 3.6.3.19 (characterized, see rationale) 61% 65% 283.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-glucose catabolism aglK' lo Maltose/maltodextrin import ATP-binding protein; EC 3.6.3.19 (characterized, see rationale) 61% 65% 283.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
lactose catabolism aglK' lo Maltose/maltodextrin import ATP-binding protein; EC 3.6.3.19 (characterized, see rationale) 61% 65% 283.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-maltose catabolism aglK' lo Maltose/maltodextrin import ATP-binding protein; EC 3.6.3.19 (characterized, see rationale) 61% 65% 283.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
sucrose catabolism aglK' lo Maltose/maltodextrin import ATP-binding protein; EC 3.6.3.19 (characterized, see rationale) 61% 65% 283.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
trehalose catabolism aglK' lo Maltose/maltodextrin import ATP-binding protein; EC 3.6.3.19 (characterized, see rationale) 61% 65% 283.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-cellobiose catabolism SMc04256 lo ABC transporter for D-Cellobiose and D-Salicin, ATPase component (characterized) 55% 69% 270 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
xylitol catabolism HSERO_RS17020 lo ABC-type sugar transport system, ATPase component protein (characterized, see rationale) 54% 60% 265.4 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
putrescine catabolism potA lo spermidine/putrescine ABC transporter, ATP-binding protein PotA; EC 3.6.3.31 (characterized) 53% 65% 250.4 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
glycerol catabolism glpS lo GlpS, component of Glycerol uptake porter, GlpSTPQV (characterized) 38% 99% 221.1 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-cellobiose catabolism glcV lo monosaccharide-transporting ATPase (EC 3.6.3.17) (characterized) 40% 80% 199.1 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-galactose catabolism glcV lo monosaccharide-transporting ATPase (EC 3.6.3.17) (characterized) 40% 80% 199.1 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-glucose catabolism glcV lo monosaccharide-transporting ATPase (EC 3.6.3.17) (characterized) 40% 80% 199.1 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
lactose catabolism glcV lo monosaccharide-transporting ATPase (EC 3.6.3.17) (characterized) 40% 80% 199.1 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-maltose catabolism glcV lo monosaccharide-transporting ATPase (EC 3.6.3.17) (characterized) 40% 80% 199.1 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-mannose catabolism glcV lo monosaccharide-transporting ATPase (EC 3.6.3.17) (characterized) 40% 80% 199.1 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
sucrose catabolism glcV lo monosaccharide-transporting ATPase (EC 3.6.3.17) (characterized) 40% 80% 199.1 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
trehalose catabolism glcV lo monosaccharide-transporting ATPase (EC 3.6.3.17) (characterized) 40% 80% 199.1 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
glycerol catabolism glpT lo ABC transporter for Glycerol, ATPase component 2 (characterized) 34% 92% 189.9 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-proline catabolism opuBA lo BilEA aka OpuBA protein, component of A proline/glycine betaine uptake system. Also reported to be a bile exclusion system that exports oxgall and other bile compounds, BilEA/EB or OpuBA/BB (required for normal virulence) (characterized) 32% 98% 175.3 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-proline catabolism proV lo glycine betaine/l-proline transport atp-binding protein prov (characterized) 39% 60% 171 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-histidine catabolism hutV lo ABC transporter for L-Histidine, ATPase component (characterized) 36% 87% 154.8 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-proline catabolism hutV lo HutV aka HISV aka R02702 aka SMC00670, component of Uptake system for hisitidine, proline, proline-betaine and glycine-betaine (characterized) 37% 87% 152.5 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-histidine catabolism Ac3H11_2560 lo ABC transporter for L-Histidine, ATPase component (characterized) 35% 95% 145.2 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-asparagine catabolism peb1C lo PEB1C, component of Uptake system for glutamate and aspartate (characterized) 34% 98% 144.4 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-aspartate catabolism peb1C lo PEB1C, component of Uptake system for glutamate and aspartate (characterized) 34% 98% 144.4 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-glutamate catabolism gltL lo PEB1C, component of Uptake system for glutamate and aspartate (characterized) 34% 98% 144.4 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-glucosamine (chitosamine) catabolism AO353_21725 lo ABC transporter for D-glucosamine, ATPase component (characterized) 35% 94% 143.7 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-asparagine catabolism glnQ lo Glutamine ABC transporter ATP-binding protein, component of Glutamine transporter, GlnQP. Takes up glutamine, asparagine and glutamate which compete for each other for binding both substrate and the transmembrane protein constituent of the system (Fulyani et al. 2015). Tandem substrate binding domains (SBDs) differ in substrate specificity and affinity, allowing cells to efficiently accumulate different amino acids via a single ABC transporter. Analysis revealed the roles of individual residues in determining the substrate affinity (characterized) 35% 97% 141 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
D-alanine catabolism Pf6N2E2_5405 lo ABC transporter for D-Alanine, ATPase component (characterized) 35% 90% 140.6 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-asparagine catabolism bztD lo BztD, component of Glutamate/glutamine/aspartate/asparagine porter (characterized) 32% 92% 140.6 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-aspartate catabolism bztD lo BztD, component of Glutamate/glutamine/aspartate/asparagine porter (characterized) 32% 92% 140.6 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-asparagine catabolism aapP lo AapP, component of General L-amino acid porter; transports basic and acidic amino acids preferentially, but also transports aliphatic amino acids (catalyzes both uptake and efflux) (characterized) 33% 93% 139.4 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-aspartate catabolism aapP lo AapP, component of General L-amino acid porter; transports basic and acidic amino acids preferentially, but also transports aliphatic amino acids (catalyzes both uptake and efflux) (characterized) 33% 93% 139.4 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-glutamate catabolism aapP lo AapP, component of General L-amino acid porter; transports basic and acidic amino acids preferentially, but also transports aliphatic amino acids (catalyzes both uptake and efflux) (characterized) 33% 93% 139.4 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-histidine catabolism aapP lo AapP, component of General L-amino acid porter; transports basic and acidic amino acids preferentially, but also transports aliphatic amino acids (catalyzes both uptake and efflux) (characterized) 33% 93% 139.4 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-leucine catabolism aapP lo AapP, component of General L-amino acid porter; transports basic and acidic amino acids preferentially, but also transports aliphatic amino acids (catalyzes both uptake and efflux) (characterized) 33% 93% 139.4 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-proline catabolism aapP lo AapP, component of General L-amino acid porter; transports basic and acidic amino acids preferentially, but also transports aliphatic amino acids (catalyzes both uptake and efflux) (characterized) 33% 93% 139.4 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-lysine catabolism hisP lo ABC transporter for L-Lysine, ATPase component (characterized) 35% 97% 137.9 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
L-histidine catabolism hisP lo Probable ATP-binding component of ABC transporter, component of Amino acid transporter, PA5152-PA5155. Probably transports numerous amino acids including lysine, arginine, histidine, D-alanine and D-valine (Johnson et al. 2008). Regulated by ArgR (characterized) 36% 97% 137.1 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2
citrate catabolism fecE lo iron(III) dicitrate transport ATP-binding protein FecE (characterized) 32% 86% 102.8 SmoK aka POLK, component of Hexitol (glucitol; mannitol) porter 56% 368.2

Sequence Analysis Tools

View WP_092996195.1 at NCBI

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Find functional residues: SitesBLAST

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Predict transmenbrane helices: Phobius

Predict protein localization: PSORTb

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Sequence

MASVDLENVTKRFGRTEVIKGIDLTIENGRLTVFVGPSGCGKSTLLRLIAGLEEVTSGKI
HIGDENVTDWPPAERGVAMVFQSYALYPHMKVFDNMAFGLKISRTKRNEIEERVRHAARI
LRIEPLLNHKPGELSGGQRQRVAIGRAIVREPKVFLFDEPLSNLDASLRVQMRLELASLQ
RELDATMVYVTHDQTEAMTLGHTIVVLNEGRVEQVGTPLEVYRNPANRFVAGFIGSPEMN
FLELEEKLPIPKPPLPEAVTLGIRPEHVILGDGPLQGKITLVERLGSESFLHLELPGEER
VTARASGDLSARPGDTMAMEFPSEHLHFFDDDGRTIQA

This GapMind analysis is from Apr 09 2024. The underlying query database was built on Sep 17 2021.

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About GapMind

Each pathway is defined by a set of rules based on individual steps or genes. Candidates for each step are identified by using ublast (a fast alternative to protein BLAST) against a database of manually-curated proteins (most of which are experimentally characterized) or by using HMMer with enzyme models (usually from TIGRFam). Ublast hits may be split across two different proteins.

A candidate for a step is "high confidence" if either:

where "other" refers to the best ublast hit to a sequence that is not annotated as performing this step (and is not "ignored").

Otherwise, a candidate is "medium confidence" if either:

Other blast hits with at least 50% coverage are "low confidence."

Steps with no high- or medium-confidence candidates may be considered "gaps." For the typical bacterium that can make all 20 amino acids, there are 1-2 gaps in amino acid biosynthesis pathways. For diverse bacteria and archaea that can utilize a carbon source, there is a complete high-confidence catabolic pathway (including a transporter) just 38% of the time, and there is a complete medium-confidence pathway 63% of the time. Gaps may be due to:

GapMind relies on the predicted proteins in the genome and does not search the six-frame translation. In most cases, you can search the six-frame translation by clicking on links to Curated BLAST for each step definition (in the per-step page).

For more information, see:

If you notice any errors or omissions in the step descriptions, or any questionable results, please let us know

by Morgan Price, Arkin group, Lawrence Berkeley National Laboratory