Protein profile

KP13_01463

Peptide chain release factor 1

Genome: KpKP13

Gene: prfA AHE44003.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GV19

Export view

Amino acids 360

Annotations 4

Features 25

PDB binders 1

Druggability 0.771

Overview

Basic information about this protein and its source genome.

Accession: KP13_01463
Assembly: Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene: prfA AHE44003.1
Status: annotated
Amino acids: 360
Structure source: AlphaFold + ColabFold

GO:0016149 A translation release factor that is specific for one or more particular termination codons; acts at the ribosomal A-site and require polypeptidyl-tRNA at the P-site. GO:0006415 The process resulting in the release of a polypeptide chain from the ribosome, usually in response to a termination codon (UAA, UAG, or UGA in the universal genetic code). GO:0003747 Involved in catalyzing the release of a nascent polypeptide chain from a ribosome. 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 (%): 61.475
Human E-value: 3.41e-45
Gut microbiome off-target: hit
Essential (DEG): Y
DEG identity (%): 92.778
DEG E-value: 0.0
Localization: Cytoplasmic
ColabFold pLDDT: 88.6

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 0.771

Structure A0A0H3GV19

Pocket Pocket 1

P2Rank 0.13

Structure A0A0H3GV19

Pocket Pocket 1

ColabFold model

FPocket 0.513 · Pocket 7

P2Rank 0.17 · Pocket 1

Core conservation Conserved core gene

Roary core

CoreCruncher core

Gut microbiome 1922 / 4744 genomes with a hit

Normalized 0.405

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

4 GO

Gene Ontology (GO)

GO:0016149 A translation release factor that is specific for one or more particular termination codons; acts at the ribosomal A-site and require polypeptidyl-tRNA at the P-site.
GO:0006415 The process resulting in the release of a polypeptide chain from the ribosome, usually in response to a termination codon (UAA, UAG, or UGA in the universal genetic code).
GO:0003747 Involved in catalyzing the release of a nascent polypeptide chain from a ribosome.
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.

25 records

Show feature table

Start	End	DB	Term	Name
5	357	Hamap	MF_00093	Peptide chain release factor 1 [prfA].
5	357	InterPro	IPR004373	Peptide chain release factor 1
211	305	FunFam	G3DSA:3.30.160.20:FF:000004	Peptide chain release factor 1
216	321	Pfam	PF00472	RF-1 domain
216	321	InterPro	IPR000352	Peptide chain release factor class I
223	282	Gene3D	G3DSA:3.30.160.20	-
1	358	NCBIfam	TIGR00019	peptide chain release factor 1
1	358	InterPro	IPR004373	Peptide chain release factor 1
278	360	FunFam	G3DSA:3.30.70.1660:FF:000004	Peptide chain release factor 1
107	218	FunFam	G3DSA:3.30.70.1660:FF:000002	Peptide chain release factor 1
14	203	Pfam	PF03462	PCRF domain
14	203	InterPro	IPR005139	Peptide chain release factor
12	353	SUPERFAMILY	SSF75620	Release factor
12	353	InterPro	IPR045853	Peptide chain release factor class I superfamily
290	314	MobiDBLite	mobidb-lite	consensus disorder prediction
107	222	Gene3D	G3DSA:3.30.70.1660	-
4	351	PANTHER	PTHR43804	LD18447P
286	314	MobiDBLite	mobidb-lite	consensus disorder prediction
75	95	Coils	Coil	Coil
1	106	Gene3D	G3DSA:6.10.140.1950	-
228	244	ProSitePatterns	PS00745	Prokaryotic-type class I peptide chain release factors signature.
228	244	InterPro	IPR000352	Peptide chain release factor class I
283	360	Gene3D	G3DSA:3.30.70.1660	-
63	178	SMART	SM00937	PCRF_a_2
63	178	InterPro	IPR005139	Peptide chain release factor

3D Structure

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

Loading 3D structure...

Legend High Medium Low

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_A0A0H3GV19	AlphaFold	—	—	full sequence	—	Viewing
ColabFold KP13_01463	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				0.771
10				0.315

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				2.71	0.081

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
7				0.513
15				0.444

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				3.18	0.108

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.

51 records

Highest-confidence structural evidence: ligands co-crystallized with this exact protein. If the source PDB is loaded in TPW, use Open crystal to inspect it in the structure viewer.

No PDB structure with a co-crystallized ligand found for this exact protein.

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.

Ligand	Source crystal	UniProt (homolog)	MW · LogP · TPSA	Lipinski	PAINS	SMILES
FME	5MDV	P07012	177.2 Da LogP -0.06 TPSA 66.4	✓ Ro5	✓ Clean	`CSCC[C@@H](C(=O)O)NC=O`

Experimental bioactivity from ChEMBL measured directly on this protein. Score = pchembl (−log Ki/IC₅₀; higher = more potent).

No ChEMBL bioactivity data found for this exact protein.

Bioactivity inferred from similar proteins in ChEMBL. Score = pchembl (−log Ki/IC₅₀; higher = more potent).

No ChEMBL hits found through similar proteins.

Proposed virtual-screening candidates from ZINC. Score = Tanimoto similarity to a known binder (0–1; higher = more similar).

Ligand	Tanimoto	MW · LogP · TPSA	Lipinski	PAINS	SMILES
ZINC221146246	0.781	308.4 Da LogP 0.18 TPSA 95.5	✓ Ro5	✓ Clean	`CSCC[C@H](NC(=O)[C@H](CCSC)NC=O)C(=O)O`
ZINC4544549	0.758	439.6 Da LogP 0.41 TPSA 124.6	✓ Ro5	✓ Clean	`CSCC[C@H](NC(=O)[C@H](CCSC)NC(=O)[C@H](CCSC)NC=…`
ZINC2116511	0.686	248.3 Da LogP -0.56 TPSA 95.5	✓ Ro5	✓ Clean	`CSCC[C@H](NC=O)C(=O)N[C@@H](C)C(=O)O`
ZINC1576667	0.649	276.4 Da LogP 0.08 TPSA 95.5	✓ Ro5	✓ Clean	`CSCC[C@H](NC=O)C(=O)N[C@H](C(=O)O)C(C)C`
ZINC4899576	0.625	335.4 Da LogP -2.08 TPSA 144.8	✓ Ro5	✓ Clean	`CSCC[C@H](NC=O)C(=O)N[C@@H](C)C(=O)N[C@@H](CO)C…`
ZINC8076277	0.625	305.4 Da LogP -0.45 TPSA 121.5	✓ Ro5	✓ Clean	`CSCC[C@H](NC=O)C(=O)N[C@@H](CCCCN)C(=O)O`
ZINC5759645	0.610	361.5 Da LogP -0.03 TPSA 124.6	✓ Ro5	✓ Clean	`CSCC[C@H](NC=O)C(=O)N[C@@H](C)C(=O)N[C@@H](CC(C…`
ZINC1576194	0.595	324.4 Da LogP 0.67 TPSA 95.5	✓ Ro5	✓ Clean	`CSCC[C@H](NC(=O)[C@@H](Cc1ccccc1)NC=O)C(=O)O`
ZINC1576195	0.595	324.4 Da LogP 0.67 TPSA 95.5	✓ Ro5	✓ Clean	`CSCC[C@@H](NC(=O)[C@@H](Cc1ccccc1)NC=O)C(=O)O`
ZINC1576196	0.595	324.4 Da LogP 0.67 TPSA 95.5	✓ Ro5	✓ Clean	`CSCC[C@H](NC(=O)[C@H](Cc1ccccc1)NC=O)C(=O)O`
ZINC1576197	0.595	324.4 Da LogP 0.67 TPSA 95.5	✓ Ro5	✓ Clean	`CSCC[C@@H](NC(=O)[C@H](Cc1ccccc1)NC=O)C(=O)O`
ZINC2516173	0.595	324.4 Da LogP 0.67 TPSA 95.5	✓ Ro5	✓ Clean	`CSCC[C@H](NC=O)C(=O)N[C@@H](Cc1ccccc1)C(=O)O`
ZINC13550236	0.581	419.5 Da LogP -0.18 TPSA 161.9	✓ Ro5	✓ Clean	`CSCC[C@H](NC=O)C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H]…`
ZINC15721376	0.581	455.6 Da LogP 0.90 TPSA 124.6	✓ Ro5	✓ Clean	`CSCC[C@H](NC=O)C(=O)N[C@@H](CCSC)C(=O)N[C@@H](C…`
ZINC4544540	0.581	455.6 Da LogP 0.90 TPSA 124.6	✓ Ro5	✓ Clean	`CSCC[C@H](NC(=O)[C@H](Cc1ccccc1)NC(=O)[C@H](CCS…`
ZINC5768212	0.576	205.3 Da LogP 0.72 TPSA 66.4	✓ Ro5	✓ Clean	`CCC(=O)N[C@@H](CCSC)C(=O)O`
ZINC5768215	0.576	205.3 Da LogP 0.72 TPSA 66.4	✓ Ro5	✓ Clean	`CCC(=O)N[C@H](CCSC)C(=O)O`
ZINC37965632	0.559	205.3 Da LogP 1.44 TPSA 49.3	✓ Ro5	✓ Clean	`CSCC[C@H](NCC(C)C)C(=O)O`
ZINC37965633	0.559	205.3 Da LogP 1.44 TPSA 49.3	✓ Ro5	✓ Clean	`CSCC[C@@H](NCC(C)C)C(=O)O`
ZINC2121521	0.550	287.3 Da LogP -0.97 TPSA 124.6	✓ Ro5	Alert	`CSCC[C@H](NC=C1C(=O)NC(=O)NC1=O)C(=O)O`
ZINC2121524	0.550	287.3 Da LogP -0.97 TPSA 124.6	✓ Ro5	Alert	`CSCC[C@@H](NC=C1C(=O)NC(=O)NC1=O)C(=O)O`
ZINC142128194	0.543	221.3 Da LogP -0.31 TPSA 86.6	✓ Ro5	✓ Clean	`CSCC[C@H](NC(=O)[C@H](C)O)C(=O)O`
ZINC1569422	0.543	206.3 Da LogP -0.73 TPSA 92.4	✓ Ro5	✓ Clean	`CSCC[C@@H](NC(=O)CN)C(=O)O`
ZINC1569524	0.543	206.3 Da LogP -0.73 TPSA 92.4	✓ Ro5	✓ Clean	`CSCC[C@H](NC(=O)CN)C(=O)O`
ZINC1672830	0.543	221.3 Da LogP 0.26 TPSA 86.6	✓ Ro5	✓ Clean	`CSCC[C@H](NCCC(=O)O)C(=O)O`
ZINC214816170	0.543	221.3 Da LogP -0.31 TPSA 86.6	✓ Ro5	✓ Clean	`CSCC[C@H](NC(=O)[C@@H](C)O)C(=O)O`
ZINC214816217	0.543	221.3 Da LogP -0.31 TPSA 86.6	✓ Ro5	✓ Clean	`CSCC[C@@H](NC(=O)[C@H](C)O)C(=O)O`
ZINC3331958	0.543	241.3 Da LogP 0.13 TPSA 83.5	✓ Ro5	✓ Clean	`CCS(=O)(=O)N[C@@H](CCSC)C(=O)O`
ZINC3331960	0.543	241.3 Da LogP 0.13 TPSA 83.5	✓ Ro5	✓ Clean	`CCS(=O)(=O)N[C@H](CCSC)C(=O)O`
ZINC41689785	0.543	219.3 Da LogP 1.83 TPSA 49.3	✓ Ro5	✓ Clean	`CSCC[C@H](NCCC(C)C)C(=O)O`
ZINC41689788	0.543	219.3 Da LogP 1.83 TPSA 49.3	✓ Ro5	✓ Clean	`CSCC[C@@H](NCCC(C)C)C(=O)O`
ZINC8614599	0.543	221.3 Da LogP 0.26 TPSA 86.6	✓ Ro5	✓ Clean	`CSCC[C@@H](NCCC(=O)O)C(=O)O`
ZINC100716065	0.537	303.3 Da LogP 0.50 TPSA 101.9	✓ Ro5	Alert	`CSCC[C@H](NC=C1C(=O)OC(C)(C)OC1=O)C(=O)O`
ZINC100716069	0.537	303.3 Da LogP 0.50 TPSA 101.9	✓ Ro5	Alert	`CSCC[C@@H](NC=C1C(=O)OC(C)(C)OC1=O)C(=O)O`
ZINC3874395	0.532	437.6 Da LogP 1.20 TPSA 124.6	✓ Ro5	✓ Clean	`CSCC[C@@H](NC=O)C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H…`
ZINC3874396	0.532	437.6 Da LogP 1.20 TPSA 124.6	✓ Ro5	✓ Clean	`CSCC[C@@H](NC=O)C(=O)N[C@H](CC(C)C)C(=O)N[C@@H]…`
ZINC3874397	0.532	437.6 Da LogP 1.20 TPSA 124.6	✓ Ro5	✓ Clean	`CSCC[C@@H](NC=O)C(=O)N[C@@H](CC(C)C)C(=O)N[C@H]…`
ZINC3874398	0.532	437.6 Da LogP 1.20 TPSA 124.6	✓ Ro5	✓ Clean	`CSCC[C@@H](NC=O)C(=O)N[C@H](CC(C)C)C(=O)N[C@H](…`
ZINC4099172	0.532	437.6 Da LogP 1.20 TPSA 124.6	✓ Ro5	✓ Clean	`CSCC[C@H](NC=O)C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H]…`
ZINC9212385	0.532	437.6 Da LogP 1.20 TPSA 124.6	✓ Ro5	✓ Clean	`CSCC[C@H](NC=O)C(=O)N[C@@H](CC(C)C)C(=O)N[C@H](…`
ZINC9212386	0.532	437.6 Da LogP 1.20 TPSA 124.6	✓ Ro5	✓ Clean	`CSCC[C@H](NC=O)C(=O)N[C@H](CC(C)C)C(=O)N[C@H](C…`
ZINC9212387	0.532	437.6 Da LogP 1.20 TPSA 124.6	✓ Ro5	✓ Clean	`CSCC[C@H](NC=O)C(=O)N[C@H](CC(C)C)C(=O)N[C@@H](…`
ZINC1605258	0.528	280.4 Da LogP 0.39 TPSA 92.4	✓ Ro5	✓ Clean	`CSCC[C@H](NC(=O)[C@H](N)CCSC)C(=O)O`
ZINC1605259	0.528	280.4 Da LogP 0.39 TPSA 92.4	✓ Ro5	✓ Clean	`CSCC[C@H](N)C(=O)N[C@H](CCSC)C(=O)O`
ZINC1605260	0.528	280.4 Da LogP 0.39 TPSA 92.4	✓ Ro5	✓ Clean	`CSCC[C@@H](N)C(=O)N[C@H](CCSC)C(=O)O`
ZINC1692507	0.528	249.3 Da LogP 0.17 TPSA 103.7	✓ Ro5	✓ Clean	`CSCC[C@H](NC(=O)CCC(=O)O)C(=O)O`
ZINC1708198	0.528	220.3 Da LogP -0.34 TPSA 92.4	✓ Ro5	✓ Clean	`CSCC[C@H](NC(=O)[C@@H](C)N)C(=O)O`
ZINC1708199	0.528	220.3 Da LogP -0.34 TPSA 92.4	✓ Ro5	✓ Clean	`CSCC[C@@H](NC(=O)[C@H](C)N)C(=O)O`
ZINC1708200	0.528	220.3 Da LogP -0.34 TPSA 92.4	✓ Ro5	✓ Clean	`CSCC[C@@H](NC(=O)[C@@H](C)N)C(=O)O`
ZINC2043758	0.528	249.3 Da LogP 0.17 TPSA 103.7	✓ Ro5	✓ Clean	`CSCC[C@@H](NC(=O)CCC(=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.