Protein profile

VK055_3227

argininosuccinate lyase

Genome: KpATCC43816

Gene: AIK81788.1 argH Structure source: AlphaFold + ColabFold UniProt A0A0H3GGE5
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Amino acids 457
Annotations 5
Features 37
PDB binders 7
Druggability 0.592

Overview

Basic information about this protein and its source genome.

Accession
VK055_3227
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK81788.1 argH
Status
annotated
Amino acids
457
Structure source
AlphaFold + ColabFold
EC
4.3.2.1
GO
GO:0042450 OBSOLETE. The chemical reactions and pathways resulting in the formation of arginine (2-amino-5-guanidinopentanoic acid) via the intermediate compound ornithine. GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic. GO:0004056 Catalysis of the reaction: N-(L-arginino)succinate = fumarate + L-arginine. GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
70.0
Human E-value
9.84e-18
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
73.742
DEG E-value
0.0
Localization
Cytoplasmic
ColabFold pLDDT
97.4

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 0.592
Structure A0A0H3GGE5
Pocket Pocket 6
P2Rank 0.499
Structure A0A0H3GGE5
Pocket Pocket 1
ColabFold model
FPocket 0.567 · Pocket 13
P2Rank 0.323 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 245 / 4744 genomes with a hit
Normalized 0.052

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 4 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

4
  • GO:0042450 OBSOLETE. The chemical reactions and pathways resulting in the formation of arginine (2-amino-5-guanidinopentanoic acid) via the intermediate compound ornithine.
  • GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
  • GO:0004056 Catalysis of the reaction: N-(L-arginino)succinate = fumarate + L-arginine.
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

Sequence Features

Domain/signature hits from InterPro and related databases.

37 records
Show feature table
Start End DB Term Name
108 370 FunFam G3DSA:1.20.200.10:FF:000006 Argininosuccinate lyase
6 301 Pfam PF00206 Lyase
6 301 InterPro IPR022761 Fumarate lyase, N-terminal
364 431 Pfam PF14698 Argininosuccinate lyase C-terminal
364 431 InterPro IPR029419 Argininosuccinate lyase, C-terminal
276 285 ProSitePatterns PS00163 Fumarate lyases signature.
276 285 InterPro IPR020557 Fumarate lyase, conserved site
103 121 PRINTS PR00149 Fumarate lyase superfamily signature
103 121 InterPro IPR000362 Fumarate lyase family
232 259 PRINTS PR00149 Fumarate lyase superfamily signature
232 259 InterPro IPR000362 Fumarate lyase family
148 166 PRINTS PR00149 Fumarate lyase superfamily signature
148 166 InterPro IPR000362 Fumarate lyase family
276 292 PRINTS PR00149 Fumarate lyase superfamily signature
276 292 InterPro IPR000362 Fumarate lyase family
2 454 Hamap MF_00006 Argininosuccinate lyase [argH].
2 454 InterPro IPR009049 Argininosuccinate lyase
3 456 SUPERFAMILY SSF48557 L-aspartase-like
3 456 InterPro IPR008948 L-Aspartase-like
2 456 PANTHER PTHR43814 ARGININOSUCCINATE LYASE
2 456 InterPro IPR009049 Argininosuccinate lyase
3 456 NCBIfam TIGR00838 argininosuccinate lyase
3 456 InterPro IPR009049 Argininosuccinate lyase
143 163 PRINTS PR00145 Argininosuccinate lyase family signature
232 256 PRINTS PR00145 Argininosuccinate lyase family signature
102 124 PRINTS PR00145 Argininosuccinate lyase family signature
311 330 PRINTS PR00145 Argininosuccinate lyase family signature
194 210 PRINTS PR00145 Argininosuccinate lyase family signature
276 292 PRINTS PR00145 Argininosuccinate lyase family signature
1 107 FunFam G3DSA:1.10.275.10:FF:000004 Argininosuccinate lyase
1 107 Gene3D G3DSA:1.10.275.10 -
1 107 InterPro IPR024083 Fumarase/histidase, N-terminal
108 445 Gene3D G3DSA:1.20.200.10 Fumarase/aspartase (Central domain)
363 433 Gene3D G3DSA:1.10.40.30 -
22 456 CDD cd01359 Argininosuccinate_lyase
22 456 InterPro IPR009049 Argininosuccinate lyase
361 433 FunFam G3DSA:1.10.40.30:FF:000001 Argininosuccinate lyase

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_A0A0H3GGE5
AlphaFold — — full sequence — Viewing
ColabFold VK055_3227
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
6 0.592
2 0.342

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 7.01 0.363
2 4.48 0.191
3 1.44 0.019

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.

57 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
DTT
1RE5
Q88N37 154.3 Da LogP -0.43 TPSA 40.5 ✓ Ro5 ✓ Clean C([C@@H]([C@H](CS)O)O)S
EKN
6G3I
Q11KV9 176.2 Da LogP -1.54 TPSA 112.7 ✓ Ro5 ✓ Clean C(CN[C@@H](CC(=O)O)C(=O)O)N
EKQ
6G3H
Q11KV9 292.2 Da LogP -1.98 TPSA 173.3 1 viol. ✓ Clean C(CN[C@@H](CC(=O)O)C(=O)O)N[C@@H](CC(=O)O)C(=O)O
FUM
6G3F
Q11KV9 116.1 Da LogP -0.29 TPSA 74.6 ✓ Ro5 ✓ Clean C(=C/C(=O)O)\C(=O)O
LMR
7C1A
Q65UJ3 134.1 Da LogP -1.09 TPSA 94.8 ✓ Ro5 ✓ Clean C([C@@H](C(=O)O)O)C(=O)O
OXL
2X75
Q7A0G9 88.0 Da LogP -3.51 TPSA 80.3 ✓ Ro5 ✓ Clean C(=O)(C(=O)[O-])[O-]
SIN
6G3G
Q11KV9 118.1 Da LogP -0.06 TPSA 74.6 ✓ Ro5 ✓ Clean C(CC(=O)O)C(=O)O

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.