Protein target profile

VK055_3750

translation elongation factor Tu

Genome: KpATCC43816 Gene: AIK82305.1 tuf2 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GLP8
Length 394
Pocket druggability 0.781
Direct ligand evidence 0 70 total records
Functional annotation 1 EC 8 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
Human identity (%)
81.25 Lower values reduce human off-target concern.
Human E-value
1.64e-09
Gut microbiome similarity
69.9% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
98.223 Higher values support similarity to known essential genes.
DEG E-value
0.0 Smaller values mean stronger essential-gene similarity.

Localization

Localization
Cytoplasmic

Structure confidence

ColabFold pLDDT
92.33 0-100 confidence; >70 supports local structural interpretation.

Binding-site evidence

AlphaFold DB / UniProt model

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 0.781
Structure A0A0H3GLP8
Pocket Pocket 9
P2Rank 0.383
Structure A0A0H3GLP8
Pocket Pocket 1
ColabFold model
FPocket 0.726 · Pocket 21
P2Rank 0.466 · Pocket 1
Core conservation Accessory gene
Roary core
CoreCruncher accessory
Gut microbiome 3316 / 4744 genomes with a hit
Prevalence 69.9%

Cross-references

External database identifiers for this protein, its structures, ligands, and metabolic reactions.

Sequence

Primary amino-acid sequence viewer.

MSKEKFERTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGSARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRGSALKALEGDAEWEAKIIELAGHLDTYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETAKTTCTGVEMFRKLLDEGRAGENVGVLLRGIKREEIERGQVLAKPGTINPHTKFESEVYILSKDEGGRHTPFFKGYRPQFYFRTTDVTGTIELPEGVEMVMPGDNIKMVVTLIHPIAMDDGLRFAIREGGRTVGAGVVAKVLG

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 8 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

8
  • GO:0003746 Functions in chain elongation during polypeptide synthesis at the ribosome.
  • GO:0005525 Binding to GTP, guanosine triphosphate.
  • GO:0006414 The successive addition of amino acid residues to a nascent polypeptide chain during protein biosynthesis.
  • GO:0003924 Catalysis of the reaction: GTP + H2O = GDP + H+ + phosphate.
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0032045 A protein complex that stimulates the exchange of guanyl nucleotides associated with a GTPase.
  • GO:0097216 Binding to guanosine tetraphosphate (5'-ppGpp-3'), a guanosine bisphosphate having diphosphate groups at both the 3' and 5'-positions.
  • GO:0000287 Binding to a magnesium (Mg) ion.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

44 records
Show feature table
Start End DB Term Name
300 389 CDD cd03707 EFTU_III
298 392 Pfam PF03143 Elongation factor Tu C-terminal domain
298 392 InterPro IPR004160 Translation elongation factor EFTu/EF1A, C-terminal
13 148 NCBIfam TIGR00231 small GTP-binding protein domain
13 148 InterPro IPR005225 Small GTP-binding protein domain
14 27 PRINTS PR00315 GTP-binding elongation factor signature
14 27 InterPro IPR000795 Translational (tr)-type GTP-binding domain
58 66 PRINTS PR00315 GTP-binding elongation factor signature
58 66 InterPro IPR000795 Translational (tr)-type GTP-binding domain
131 140 PRINTS PR00315 GTP-binding elongation factor signature
131 140 InterPro IPR000795 Translational (tr)-type GTP-binding domain
94 105 PRINTS PR00315 GTP-binding elongation factor signature
94 105 InterPro IPR000795 Translational (tr)-type GTP-binding domain
78 88 PRINTS PR00315 GTP-binding elongation factor signature
78 88 InterPro IPR000795 Translational (tr)-type GTP-binding domain
1 203 Gene3D G3DSA:3.40.50.300 -
1 203 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
298 393 SUPERFAMILY SSF50465 EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
298 393 InterPro IPR009001 Translation elongation factor EF1A/initiation factor IF2gamma, C-terminal
11 203 CDD cd01884 EF_Tu
11 203 InterPro IPR041709 Elongation factor Tu (EF-Tu), GTP-binding domain
1 393 NCBIfam TIGR00485 elongation factor Tu
1 393 InterPro IPR004541 Translation elongation factor EFTu/EF1A, bacterial/organelle
206 334 FunFam G3DSA:2.40.30.10:FF:000001 Elongation factor Tu
211 297 CDD cd03697 EFTU_II
211 297 InterPro IPR033720 Elongation factor Tu, domain 2
1 394 Hamap MF_00118_B Elongation factor Tu [tuf].
1 394 InterPro IPR004541 Translation elongation factor EFTu/EF1A, bacterial/organelle
1 203 FunFam G3DSA:3.40.50.300:FF:000003 Elongation factor Tu
10 198 Pfam PF00009 Elongation factor Tu GTP binding domain
10 198 InterPro IPR000795 Translational (tr)-type GTP-binding domain
205 301 SUPERFAMILY SSF50447 Translation proteins
205 301 InterPro IPR009000 Translation protein, beta-barrel domain superfamily
206 334 Gene3D G3DSA:2.40.30.10 Translation factors
338 393 Gene3D G3DSA:2.40.30.10 Translation factors
4 393 PANTHER PTHR43721 ELONGATION FACTOR TU-RELATED
225 293 Pfam PF03144 Elongation factor Tu domain 2
225 293 InterPro IPR004161 Translation elongation factor EFTu-like, domain 2
51 66 ProSitePatterns PS00301 Translational (tr)-type guanine nucleotide-binding (G) domain signature.
51 66 InterPro IPR031157 Tr-type G domain, conserved site
6 219 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
6 219 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
10 204 ProSiteProfiles PS51722 Translational (tr)-type guanine nucleotide-binding (G) domain profile.
10 204 InterPro IPR000795 Translational (tr)-type GTP-binding 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.

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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.
'Alpha spheres' is FPocket's own cavity-shape geometry, imported when available and aligned with the loaded structure.
'Pocket atoms'/'Predicted site atoms' show the pocket's residue atoms instead: P2Rank reports residues rather than alpha spheres, and FPocket falls back to this when alpha-sphere geometry is unavailable or doesn't align.
'No pocket geometry' means neither alpha spheres nor residue-position data could be found for that pocket; the layer just highlights the same residues as 'Nearby residues'.
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 #9
0.781
Show in viewer
Surrounding area
Site 2 FPocket #3
0.209
Likely same site as P2Rank 2 4.0 Å 11 shared residues 79% of smaller site
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Surrounding area

Binding pockets · P2Rank

Probability: high ≥ 0.5 · medium 0.2–0.49 · low < 0.2

Site 1 P2Rank #1
0.383
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.368
Likely same site as FPocket 3 4.0 Å 11 shared residues 79% of smaller site
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Surrounding area
Site 3 P2Rank #3
0.104
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Surrounding area
Site 4 P2Rank #4
0.043
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Surrounding area
Site 5 P2Rank #5
0.012
Show in viewer
Surrounding area
Residue sets
UniProt: Binding site:136-139
UniProt: Binding site:19-26
UniProt: Binding site:26-26
UniProt: Binding site:81-85
All structural evidence 0 experimental · 2 predicted

Structural evidence

0 + 2

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
AlphaFold DB AF_A0A0H3GLP8
AlphaFold DB full sequence Viewing
ColabFold VK055_3750
ColabFold full sequence Loaded

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.

70 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 20 records from similar proteins
Structural ligands 20 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
14J PDB via homolog 191.0 Da · LogP 1.74 · TPSA 50.4 Open detail RCSB PDB
1MG PDB via homolog Detail RCSB PDB
5MU PDB via homolog Detail RCSB PDB
A PDB via homolog Detail RCSB PDB
APR 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
14J RCSB PDB P60338 191.0 Da LogP 1.74 TPSA 50.4 ✓ Ro5 ✓ Clean c1cc(oc1C(=O)O)Br
1MG RCSB PDB P0CE48 377.3 Da LogP -2.56 TPSA 195.2 1 viol. ✓ Clean CN1C(=O)c2c(n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
5MU RCSB PDB P0CE48 338.2 Da LogP -2.43 TPSA 171.3 ✓ Ro5 ✓ Clean CC1=CN(C(=O)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)…
A RCSB PDB Q5SHN6 347.2 Da LogP -1.86 TPSA 186.1 ✓ Ro5 ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
APR RCSB PDB P60339 559.3 Da LogP -3.28 TPSA 291.5 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
C RCSB PDB Q5SHN6 323.2 Da LogP -2.45 TPSA 177.4 ✓ Ro5 ✓ Clean C1=CN(C(=O)N=C1N)[C@H]2[C@@H]([C@@H]([C@H](O2)C…
ENX RCSB PDB Q01698 702.6 Da LogP 3.60 TPSA 213.9 2 viol. ✓ Clean CC/C=C/[C@H]([C@H]([C@@H](CC(=O)[C@H]([C@@H]([C…
GCP RCSB PDB P0CE47 521.2 Da LogP -2.22 TPSA 289.9 3 viol. ✓ Clean c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O…
GLV RCSB PDB Q1R5Y2 74.0 Da LogP -0.73 TPSA 54.4 ✓ Ro5 ✓ Clean C(=O)C(=O)O
GNP RCSB PDB A0A0M3KKV1 522.2 Da LogP -2.76 TPSA 301.9 3 viol. ✓ Clean c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O…
KIR RCSB PDB P0CE48 797.0 Da LogP 3.07 TPSA 228.1 3 viol. ✓ Clean CC[C@H](C(=O)NC\C=C\C=C(/C)\[C@H]([C@@H](C)[C@H…
MAU RCSB PDB P60339 811.0 Da LogP 3.09 TPSA 217.2 3 viol. ✓ Clean CC[C@H](C(=O)NC\C=C\C=C(/C)\[C@H]([C@@H](C)[C@H…
NH4 RCSB PDB P60338 18.0 Da LogP 0.38 TPSA 36.5 ✓ Ro5 ✓ Clean [NH4+]
OGA RCSB PDB Q88QP8 147.1 Da LogP -1.73 TPSA 103.7 ✓ Ro5 ✓ Clean C(C(=O)O)NC(=O)C(=O)O
PHA RCSB PDB P60339 149.2 Da LogP 0.76 TPSA 43.1 ✓ Ro5 ✓ Clean c1ccc(cc1)C[C@@H](C=O)N
PSU RCSB PDB P0CE48 324.2 Da LogP -2.67 TPSA 182.2 1 viol. ✓ Clean C1=C(C(=O)NC(=O)N1)[C@H]2[C@@H]([C@@H]([C@H](O2…
PUL RCSB PDB P0CE47 839.0 Da LogP 4.82 TPSA 198.5 2 viol. ✓ Clean C[C@@H]1[C@@H]([C@@H]([C@H]([C@@H](O1)O[C@@H](C…
PXN RCSB PDB P0CE48 368.5 Da LogP -0.44 TPSA 117.8 ✓ Ro5 ✓ Clean C[C@H](COCC(COC[C@@H](C)O)(COC[C@@H](C)O)COC[C@…
SO1 RCSB PDB P60339 494.6 Da LogP 2.49 TPSA 122.5 ✓ Ro5 ✓ Clean C[C@@H]1CC[C@@H]2[C@@H]1C[C@@]3([C@H]4CC([C@@]3…
TAC RCSB PDB Q1R5Y2 444.4 Da LogP -0.21 TPSA 181.6 1 viol. ✓ Clean C[C@]1(c2cccc(c2C(=O)C3=C([C@]4([C@@H](C[C@@H]3…

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.