Protein profile

KP13_05359

Tryptophan synthase alpha chain

Genome: KpKP13

Gene: trpA AHE45006.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GRN0
Amino acids 269
Annotations 2
Features 17
PDB binders 37
Druggability 0.928

Overview

Basic information about this protein and its source genome.

Accession
KP13_05359
Gene
trpA AHE45006.1
Status
annotated
Amino acids
269
Structure source
AlphaFold + ColabFold

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
57.09
DEG E-value
5.04e-105
Localization
Cytoplasmic
ColabFold pLDDT
95.51

Selected Druggability evidence

AlphaFold / UniProt model

Selected Druggability is the FPocket score chosen for ranking using the curated structure priority. The 3D viewer may show a different loaded structure, so its visible pockets can differ.

FPocket 0.928
Structure A0A0H3GRN0
Pocket Pocket 1
P2Rank 0.791
Structure A0A0H3GRN0
Pocket Pocket 1
ColabFold model
FPocket 0.523 · Pocket 2
P2Rank 0.833 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 158 / 4744 genomes with a hit
Normalized 0.033

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

2 GO

Gene Ontology (GO)

2
  • GO:0004834 Catalysis of the reaction: L-serine + (1S,2R)-1-C-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O.
  • GO:0006568 The chemical reactions and pathways involving tryptophan, the chiral amino acid 2-amino-3-(1H-indol-3-yl)propanoic acid.

Sequence Features

Domain/signature hits from InterPro and related databases.

17 records
Show feature table
Start End DB Term Name
1 268 Gene3D G3DSA:3.20.20.70 Aldolase class I
1 268 InterPro IPR013785 Aldolase-type TIM barrel
8 266 Pfam PF00290 Tryptophan synthase alpha chain
8 266 InterPro IPR002028 Tryptophan synthase, alpha chain
12 265 Hamap MF_00131 Tryptophan synthase alpha chain [trpA].
12 265 InterPro IPR002028 Tryptophan synthase, alpha chain
48 61 ProSitePatterns PS00167 Tryptophan synthase alpha chain signature.
48 61 InterPro IPR018204 Tryptophan synthase, alpha chain, active site
4 266 PANTHER PTHR43406 TRYPTOPHAN SYNTHASE, ALPHA CHAIN
4 266 InterPro IPR002028 Tryptophan synthase, alpha chain
18 263 CDD cd04724 Tryptophan_synthase_alpha
18 263 InterPro IPR002028 Tryptophan synthase, alpha chain
8 263 NCBIfam TIGR00262 tryptophan synthase subunit alpha
8 263 InterPro IPR002028 Tryptophan synthase, alpha chain
1 266 SUPERFAMILY SSF51366 Ribulose-phoshate binding barrel
1 266 InterPro IPR011060 Ribulose-phosphate binding barrel
1 268 FunFam G3DSA:3.20.20.70:FF:000037 Tryptophan synthase alpha chain

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; predicted models typically cover the full protein.

3D visualization script Full viewer

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Structural evidence

0 + 2

Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
AlphaFold AF_A0A0H3GRN0
AlphaFold full sequence Viewing
ColabFold KP13_05359
ColabFold full sequence Loaded
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer

Pockets (FPOCKET)

Showing top-ranked FPocket candidates by druggability. Druggability is color-coded: high (0.7 or higher), medium (0.4 to 0.69), low (below 0.4).

FPOCKET Sticks Spheres Surfaces Druggability Labels Zoom Positions
1 0.928
6 0.493

Pockets (P2RANK)

Showing top-ranked P2Rank candidates by probability. Probability is color-coded per P2Rank calibration: high (≥ 0.5), medium (0.2 – 0.49), low (< 0.2).

P2RANK Sticks Spheres Surfaces Score Probability Labels Zoom Positions
1 15.16 0.747

Ligand evidence

Ligands grouped by evidence source. PDB ligands keep the source crystal visible, and loaded crystals can be opened directly in the structure viewer.

87 records

Structural evidence inferred from similar proteins. The source crystal indicates where the ligand was observed; the UniProt column identifies the homologous protein carrying that ligand.

Show only:
Ligand Source crystal UniProt (homolog) MW · LogP · TPSA Lipinski PAINS SMILES
0JO P00929 316.2 Da LogP 0.72 TPSA 149.5 ✓ Ro5 ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)/C=N/C(=C)C(=O)O)O
13P P00929 170.1 Da LogP -1.34 TPSA 104.1 ✓ Ro5 ✓ Clean C(C(=O)COP(=O)(O)O)O
1D0 P00929 425.3 Da LogP 1.55 TPSA 181.8 1 viol. ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)C/N=C(\CNc2ccccc2O)/C(…
79V P9WFY1 282.3 Da LogP 2.43 TPSA 56.0 ✓ Ro5 ✓ Clean c1ccc(c(c1)c2ccc(cc2)C3C(NC3C#N)CO)F
7MN P00929 436.4 Da LogP -0.07 TPSA 153.5 1 viol. ✓ Clean CC1=C(/C(=C\[NH+]=C(/C[N@@]2CCc3c2cccc3)\C(=O)O…
AQ3 P00929 427.4 Da LogP 1.07 TPSA 181.5 1 viol. ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)CN[C@H](CNc2ccccc2O)C(…
BZI P00929 118.1 Da LogP 1.56 TPSA 28.7 ✓ Ro5 ✓ Clean c1ccc2c(c1)[nH]cn2
F6F P00929 329.2 Da LogP 1.42 TPSA 105.1 ✓ Ro5 ✓ Clean c1cc(ccc1C(=O)NCCOP(=O)(O)O)OC(F)(F)F
F9F P00929 365.2 Da LogP 0.97 TPSA 122.2 ✓ Ro5 ✓ Clean c1cc(ccc1OC(F)(F)F)S(=O)(=O)NCCOP(=O)(O)O
FIP P00929 273.2 Da LogP 2.35 TPSA 82.6 ✓ Ro5 ✓ Clean c1cc2c(cc1F)c(c[nH]2)CCCOP(=O)(O)O
G3P P50382 172.1 Da LogP -1.55 TPSA 107.2 ✓ Ro5 ✓ Clean C([C@H](COP(=O)(O)O)O)O
H9V P9WFY1 336.7 Da LogP 4.20 TPSA 35.8 ✓ Ro5 ✓ Clean c1cc(ccc1c2c(cc(cc2F)Cl)F)C3C(NC3C#N)CF
HDJ P9WFY1 316.3 Da LogP 3.86 TPSA 35.8 ✓ Ro5 ✓ Clean Cc1cc(c(c(c1)F)c2ccc(cc2)C3C(NC3C#N)CF)F
HE1 P00929 260.3 Da LogP 2.57 TPSA 77.8 ✓ Ro5 ✓ Clean c1ccc(c(c1)O)SCC\C=C\P(=O)(O)O
HF1 P00929 278.2 Da LogP 2.70 TPSA 77.8 ✓ Ro5 ✓ Clean c1cc(c(cc1F)SCCC=CP(=O)(O)O)O
HPF P00929 279.2 Da LogP -0.41 TPSA 139.5 1 viol. ✓ Clean c1ccc(c(c1)N[C@@H]([C@@H](COP(=O)(O)O)O)O)O
HSP P00929 278.3 Da LogP 1.46 TPSA 94.8 ✓ Ro5 ✓ Clean c1ccc(c(c1)O)[S@](=O)CCCCP(=O)(O)O
IAD P00929 290.3 Da LogP 0.75 TPSA 119.5 ✓ Ro5 ✓ Clean c1ccc2c(c1)c(c[nH]2)CC(=O)N[C@@H](CC(=O)O)C(=O)O
IAG P00929 232.2 Da LogP 0.91 TPSA 82.2 ✓ Ro5 ✓ Clean c1ccc2c(c1)c(c[nH]2)CC(=O)NCC(=O)O
IAV P00929 274.3 Da LogP 1.94 TPSA 82.2 ✓ Ro5 ✓ Clean CC(C)[C@@H](C(=O)O)NC(=O)Cc1c[nH]c2c1cccc2
IDM P00929 119.2 Da LogP 1.65 TPSA 12.0 ✓ Ro5 ✓ Clean c1ccc2c(c1)CCN2
IGP P00929 287.2 Da LogP 0.67 TPSA 123.0 ✓ Ro5 ✓ Clean c1ccc2c(c1)c(c[nH]2)[C@@H]([C@@H](COP(=O)(O)O)O…
IPL P00929 255.2 Da LogP 2.21 TPSA 82.6 ✓ Ro5 ✓ Clean c1ccc2c(c1)c(c[nH]2)CCCOP(=O)(O)O
KOU P00929 334.2 Da LogP -0.43 TPSA 169.8 ✓ Ro5 ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)/C=N/C(CO)C(=O)O)O
MH6 P00929 103.1 Da LogP -0.92 TPSA 81.4 ✓ Ro5 ✓ Clean [H]/N=C(\CO)/C(=O)O
MLA P42390 104.1 Da LogP -0.45 TPSA 74.6 ✓ Ro5 ✓ Clean C(C(=O)O)C(=O)O
MLI P9WFY1 102.0 Da LogP -3.12 TPSA 80.3 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(=O)[O-]
MLT P9WFY1 134.1 Da LogP -1.09 TPSA 94.8 ✓ Ro5 ✓ Clean C([C@H](C(=O)O)O)C(=O)O
NH4 P00929 18.0 Da LogP 0.38 TPSA 36.5 ✓ Ro5 ✓ Clean [NH4+]
NHP P00929 261.3 Da LogP 2.32 TPSA 83.6 ✓ Ro5 ✓ Clean c1ccc(c(c1)N)SCCCCP(=O)(O)O
P1T P9WFY1 318.2 Da LogP 0.39 TPSA 149.2 ✓ Ro5 ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)CNC(=C)C(=O)O)O
PE8 H1AFK5 370.4 Da LogP -0.91 TPSA 105.1 ✓ Ro5 ✓ Clean C(COCCOCCOCCOCCOCCOCCOCCO)O
PG5 P00929 178.2 Da LogP 0.31 TPSA 36.9 ✓ Ro5 ✓ Clean COCCOCCOCCOC
PLS P00929 336.2 Da LogP -0.76 TPSA 169.4 1 viol. ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)CN[C@@H](CO)C(=O)O)O
PZJ P9WFY1 330.8 Da LogP 0.62 TPSA 60.9 ✓ Ro5 ✓ Clean c1ccc(c(c1)N2CCN(CC2)[C@H]3CS(=O)(=O)C[C@@H]3O)…
PZV P9WFY1 334.4 Da LogP 1.94 TPSA 66.5 ✓ Ro5 ✓ Clean CNS(=O)(=O)c1ccc2c(c1)CCN2C(=O)c3ccccc3F
V41 P00929 205.2 Da LogP 0.56 TPSA 117.7 ✓ Ro5 Alert [H]/N=C(/[C@H](C(=O)N)/N=N/c1ccccc1)\N

PDB and ChEMBL records on this protein are shown in full. ChEMBL records from similar proteins are capped at the top 100 per protein (by pchembl) and ZINC at the top 50 (Tanimoto ≥ 0.5). ADME columns are descriptor-based screening flags, not experimental toxicity results.