Protein target profile

HT085_RS00270

glutamine-hydrolyzing carbamoyl-phosphate synthase small subunit

Genome: NZ_AP023069.1 Gene: TUM19854C_00450 carA 3D evidence: ColabFold model
Length 377
Direct ligand evidence 0 71 total records
Functional annotation 0 EC 1 GO
Target summary

Target candidate with partial support; inspect missing evidence before prioritizing.

Automated synthesis of the evidence currently loaded. Review the underlying records before prioritizing this protein.

Terms and data sources used on this page

PDB: experimentally determined structures from the Protein Data Bank. These are the strongest structural evidence, but may cover only part of the protein.

AlphaFold DB model: a precomputed predicted structure downloaded from AlphaFold Database/UniProt, not an experiment performed here.

ColabFold model: a predicted structure generated for this workspace; interpret it with coverage and confidence.

pLDDT: confidence score for predicted structures. High values support local geometry; low values mean the region should not drive pocket interpretation.

FPocket / P2Rank: software tools that predict possible ligand-binding pockets on a 3D structure. They are useful screening signals, not experimental validation.

Druggability: a pocket-based estimate of whether a small molecule could bind productively. It does not mean a drug already exists.

PDB ligand: a compound observed in an experimental structure. Direct same-protein records are stronger than homolog-transferred records.

ChEMBL: a public database of measured compound bioactivity. Direct entries are stronger than entries transferred from similar proteins.

ZINC: a purchasable-compound database. Here it marks proposed candidates from chemical similarity, not measured binders.

LigQ / LigQ_2: an internal Target pipeline step that gathers PDB, ChEMBL, and ZINC ligand evidence for each protein.

Off-target: sequence similarity to proteins we prefer not to hit, such as human proteins or beneficial gut microbiome proteins.

DEG: Database of Essential Genes. A match suggests the protein resembles genes known to be essential in other organisms.

Roary / CoreCruncher: pan-genome tools used to decide whether a gene is core across analyzed strains or accessory/strain-specific.

EC / GO: functional annotations: EC describes enzyme reactions; GO describes biological process, molecular function, or cellular component.

KEGG pathway: a curated metabolic route label used here to group reactions imported from the metabolic model.

Chokepoint: a metabolic reaction that is the only producer or consumer of a metabolite in the imported model.

Prioritization evidence

Selectivity, essentiality, structural confidence, conservation, and predicted binding-site evidence.

Off-target risk

Human off-target
Hit
Gut microbiome off-target
Hit

Essentiality

Essential (DEG)
Y

Localization

Localization
Cytoplasmic

Binding-site evidence

The selected pocket score is the FPocket value used for ranking after applying the curated structure priority. It estimates small-molecule pocket quality; it is not experimental binding evidence. The 3D viewer may show a different loaded structure, so visible pockets can differ.

FPocket Medium
Structure
Pocket

Sequence

Primary amino-acid sequence viewer.

MSTPALLVLADGSVFHGTSIGYEGSASGEVVFNTSMTGYQEILTDPSYCKQIVTLTYPHIGNTGTNAEDEESRSVYAAGLIIRDLPLLHSSFRASESLHDYLVRNETVAIADIDTRRLTMLLREKGAQGGAILTGADATVEKAQELIAAFGSMVGKDLAKEVSCTETYEWTEGEWELGKGFVTPDKQPYHVVAYDFGVKTNILRMLASRGCRLTVVPAQTSAEDVLALNPDGVFLSNGPGDPEPCTYAIEAVQKLMESGKPIFGICLGHQLISLAIGAKTLKMRFSHHGANHPVQDLDSGKVVITSQNHGFAVDADTLPANARITHKSLFDNTLQGIELTDKPVFCFQGHPEASPGPQDVGYLFDKFIGNMKAAKQA

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 GO

Gene Ontology (GO)

1
  • GO:0006207 The chemical reactions and pathways resulting in the formation of pyrimidine nucleobases, 1,3-diazine, organic nitrogenous bases, beginning with the synthesis of a pyrimidine ring from simpler precursors.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

32 records
Show feature table
Start End DB Term Name
4 141 SUPERFAMILY SSF52021 Carbamoyl phosphate synthetase, small subunit N-terminal domain
4 141 InterPro IPR036480 Carbamoyl-phosphate synthase small subunit, N-terminal domain superfamily
191 368 CDD cd01744 GATase1_CPSase
191 368 InterPro IPR035686 Carbamoyl-phosphate synthase small subunit, GATase1 domain
3 151 Gene3D G3DSA:3.50.30.20 -
3 151 InterPro IPR036480 Carbamoyl-phosphate synthase small subunit, N-terminal domain superfamily
152 376 FunFam G3DSA:3.40.50.880:FF:000011 Carbamoyl-phosphate synthase small chain
5 356 PANTHER PTHR11405 CARBAMOYLTRANSFERASE FAMILY MEMBER
346 359 PRINTS PR00096 Glutamine amidotransferase superfamily signature
261 272 PRINTS PR00096 Glutamine amidotransferase superfamily signature
233 242 PRINTS PR00096 Glutamine amidotransferase superfamily signature
3 375 Hamap MF_01209 Carbamoyl-phosphate synthase small chain [carA].
3 375 InterPro IPR006274 Carbamoyl-phosphate synthase, small subunit
2 150 FunFam G3DSA:3.50.30.20:FF:000001 Carbamoyl-phosphate synthase small chain
278 295 PRINTS PR00099 Carbamoyl-phosphate synthase protein GATase domain signature
303 314 PRINTS PR00099 Carbamoyl-phosphate synthase protein GATase domain signature
230 244 PRINTS PR00099 Carbamoyl-phosphate synthase protein GATase domain signature
261 277 PRINTS PR00099 Carbamoyl-phosphate synthase protein GATase domain signature
191 205 PRINTS PR00099 Carbamoyl-phosphate synthase protein GATase domain signature
194 368 Pfam PF00117 Glutamine amidotransferase class-I
194 368 InterPro IPR017926 Glutamine amidotransferase
155 373 SUPERFAMILY SSF52317 Class I glutamine amidotransferase-like
155 373 InterPro IPR029062 Class I glutamine amidotransferase-like
5 372 NCBIfam TIGR01368 glutamine-hydrolyzing carbamoyl-phosphate synthase small subunit
5 372 InterPro IPR006274 Carbamoyl-phosphate synthase, small subunit
152 375 Gene3D G3DSA:3.40.50.880 -
152 375 InterPro IPR029062 Class I glutamine amidotransferase-like
190 377 ProSiteProfiles PS51273 Glutamine amidotransferase type 1 domain profile.
3 133 SMART SM01097 CPSase_sm_chain_2
3 133 InterPro IPR002474 Carbamoyl-phosphate synthase small subunit, N-terminal domain
7 132 Pfam PF00988 Carbamoyl-phosphate synthase small chain, CPSase domain
7 132 InterPro IPR002474 Carbamoyl-phosphate synthase small subunit, N-terminal domain

3D structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; AlphaFold DB and ColabFold models typically cover the full protein but remain computational predictions.

Loading 3D structure...

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Pocket score High Medium Low
How colors and pocket overlays are used
Uniform protein color marks the displayed model as a single molecular object.
Experimental PDB structures may be colored by chain to distinguish subunits or copies present in the file.
Pocket colors and alpha spheres are evidence overlays for predicted binding cavities; they are not alternative protein chains.
Pocket details Inspect a specific pocket, or open the full viewer

Binding pockets · FPocket

Druggability: high ≥ 0.7 · medium 0.4–0.69 · low < 0.4

Site 1 FPocket #1
0.636
Show in viewer
Surrounding area
All structural evidence 0 experimental · 1 predicted

Structural evidence

0 + 1

Experimental PDB entries plus predicted AlphaFold DB or ColabFold models. Click Switch to display a different loaded structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
ColabFold HT085_RS00270
ColabFold full sequence Viewing

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.

71 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 21 records from similar proteins
Structural ligands 14 0 loaded crystals
Measured bioactivity 7 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
0L1 PDB via homolog 146.1 Da · LogP 0.72 · TPSA 74.6 Open detail RCSB PDB
374 PDB via homolog Detail RCSB PDB
3NP PDB via homolog Detail RCSB PDB
F9V PDB via homolog Detail RCSB PDB
GUA PDB via homolog Detail RCSB PDB

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
0L1 RCSB PDB P31327 146.1 Da LogP 0.72 TPSA 74.6 ✓ Ro5 ✓ Clean C(CCC(=O)O)CC(=O)O
374 RCSB PDB P31327 418.4 Da LogP 3.36 TPSA 59.1 ✓ Ro5 ✓ Clean C[C@@H]1CN(C[C@H](N1C(=O)c2ccc(cc2F)OC)C)C(=O)c…
3NP RCSB PDB P31327 119.1 Da LogP -0.26 TPSA 80.4 ✓ Ro5 ✓ Clean C(C[N+](=O)[O-])C(=O)O
F9V RCSB PDB P31327 194.2 Da LogP 1.33 TPSA 74.6 ✓ Ro5 ✓ Clean c1ccc(cc1)C(CC(=O)O)C(=O)O
GUA RCSB PDB P31327 132.1 Da LogP 0.33 TPSA 74.6 ✓ Ro5 ✓ Clean C(CC(=O)O)CC(=O)O
IMP RCSB PDB P0A6F1 348.2 Da LogP -2.15 TPSA 180.0 ✓ Ro5 ✓ Clean c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O…
JO3 RCSB PDB P31327 132.1 Da LogP 0.18 TPSA 74.6 ✓ Ro5 ✓ Clean CC(CC(=O)O)C(=O)O
NLG RCSB PDB P31327 189.2 Da LogP -0.56 TPSA 103.7 ✓ Ro5 ✓ Clean CC(=O)N[C@@H](CCC(=O)O)C(=O)O
NX6 RCSB PDB P31327 267.2 Da LogP 0.84 TPSA 112.9 ✓ Ro5 ✓ Clean c1ccc(cc1)COC(=O)N[C@@H](CC(=O)O)C(=O)O
ORN RCSB PDB P0A6F1 132.2 Da LogP -0.86 TPSA 89.3 ✓ Ro5 ✓ Clean C(C[C@@H](C(=O)O)N)CN
Q5A RCSB PDB P31327 390.5 Da LogP 3.49 TPSA 65.5 ✓ Ro5 ✓ Clean Cc1csc(n1)NC(=O)C2CCN(CC2)C(=O)N(C)Cc3ccc(cc3)F
SU8 RCSB PDB P31327 174.2 Da LogP 1.35 TPSA 74.6 ✓ Ro5 ✓ Clean CCCC[C@H](CC(=O)O)C(=O)O
SUH RCSB PDB P31327 132.1 Da LogP 0.18 TPSA 74.6 ✓ Ro5 ✓ Clean C[C@@H](CC(=O)O)C(=O)O
WOC RCSB PDB P31327 146.1 Da LogP 0.57 TPSA 74.6 ✓ Ro5 ✓ Clean CC(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.