KpATCC43816 Protein target profile
membrane-bound lytic murein transglycosylase F
Accession: VK055_4617
Promising target candidate with multiple supporting evidence streams.
Automated synthesis of the evidence currently loaded. Review the underlying records before prioritizing this protein.
Main supporting evidence
Risks to review
Evidence coverage
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
- No hit
- Gut microbiome similarity
- 2.4% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.
Essentiality
- Essential (DEG)
- N
- DEG identity (%)
- 0.0 Higher values support similarity to known essential genes.
Structure confidence
- ColabFold pLDDT
- 87.06 0-100 confidence; >70 supports local structural interpretation.
Binding-site evidence
AlphaFold DB / UniProt modelP2Rank's binding-site probability is the primary druggability signal shown across the app; FPocket's druggability score is shown alongside it for comparison. Both estimate small-molecule pocket quality after applying the curated structure priority — neither is experimental binding evidence. The 3D viewer may show a different loaded structure, so visible pockets can differ.
Sequence
Primary amino-acid sequence viewer.
MPHIRRQPCVFSGHRLLRNLKLQKINSLKKLKINYLLIGIVTLLLAAALWPSIPWSGKPENRVAGIIARGELRISTINSPMTFATMNNKAFGLDYELAKQFADYLGVTLKITVRQNISQLFDDLDDGQADMLAAGLVYNQERVKNYQAGPTYYSVSQQLVYRVGNTRPRTLAALTAEQLTIAPGHVAINDLQTLKAEKYPDLAWRVDEKRGTTALMQAVIDGKLDYTIADSVAVSLFQRVHPELAVALDITDEQPVTWFSARDDDNSLSAAMLDFFNNINEDGTLARLEEKYLGHGNDFDYVDTRTFLRAVENILPEVQPLFEKYAREIDWRLLAAIAWQESHWDPQATSPTGVRGMMMLTRNTAQSLGLTDRTDAAQSIDGGMRYLQDMMDKVPDSIPKDERIWFALAAYNMGYAHMLDAMALTRKQKGNPNSWADVKLRLPLLSQKPYYSKLKYGYARGHEAYAYVENIRKYQISLVGYLSEKERQQQQTLALAEDYPAVLPNELEQPQETTLPFFKFRADKQMDNARMKLPGHLY
Functional annotations
Enzyme classification and Gene Ontology terms linked to this protein.
Subcellular localization
- Localization
- Cytoplasmic
Enzyme Commission (EC)
1Gene Ontology (GO)
8- GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
- GO:0016837 Catalysis of the cleavage of a carbon-oxygen bond by the elimination of an alcohol from a polysaccharide.
- GO:0000270 The chemical reactions and pathways involving peptidoglycans, any of a class of glycoconjugates found only in bacterial cell walls and consisting of long glycan strands of alternating residues of beta-(1,4) linked N-acetylglucosamine and N-acetylmuramic acid, cross-linked by short peptides.
- GO:0008933 Catalysis of the cleavage of a peptidoglycan chain into a peptidoglycan chain with N-acetyl-1,6-anhydromuramyl-[peptide] at the reducing end + a peptidoglycan chain with N-acetylglucosamine at the non-reducing end. Includes endolytic transglycosylase activity that fragments the glycan chain internally and exolytic transgylcosylase activity that cleaves a terminal disaccharide from the end of the glycan strand.
- GO:0009279 A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures.
- GO:0016998 The chemical reactions and pathways resulting in the breakdown of macromolecules that form part of a cell wall.
- GO:0071555 A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.
- GO:0009253 The chemical reactions and pathways resulting in the breakdown of peptidoglycans, any of a class of glycoconjugates found in bacterial cell walls and consisting of long glycan strands of alternating residues of beta-(1,4) linked N-acetylglucosamine and N-acetylmuramic acid, cross-linked by short peptides.
Sequence domains and features
Domain and signature matches imported from InterPro and related databases.
Show feature table
| Start | End | DB | Term | Name |
|---|---|---|---|---|
| 32 | 499 | Hamap | MF_02016 | Membrane-bound lytic murein transglycosylase F [mltF]. |
| 32 | 499 | InterPro | IPR023703 | Membrane-bound lytic murein transglycosylase F |
| 156 | 252 | Gene3D | G3DSA:3.40.190.10 | - |
| 322 | 479 | CDD | cd13403 | MLTF-like |
| 70 | 294 | CDD | cd01009 | PBP2_YfhD_N |
| 337 | 365 | ProSitePatterns | PS00922 | Prokaryotic transglycosylases signature. |
| 337 | 365 | InterPro | IPR000189 | Prokaryotic transglycosylase, active site |
| 1 | 32 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. |
| 71 | 296 | SMART | SM00062 | AABind_6 |
| 71 | 296 | InterPro | IPR001638 | Solute-binding protein family 3/N-terminal domain of MltF |
| 156 | 252 | FunFam | G3DSA:3.40.190.10:FF:000051 | Membrane-bound lytic murein transglycosylase F |
| 66 | 290 | Gene3D | G3DSA:3.40.190.10 | - |
| 33 | 429 | PANTHER | PTHR35936 | MEMBRANE-BOUND LYTIC MUREIN TRANSGLYCOSYLASE F |
| 299 | 479 | FunFam | G3DSA:1.10.530.10:FF:000003 | Membrane-bound lytic murein transglycosylase F |
| 33 | 55 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. |
| 68 | 296 | SUPERFAMILY | SSF53850 | Periplasmic binding protein-like II |
| 54 | 538 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. |
| 33 | 53 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. |
| 78 | 295 | Pfam | PF00497 | Bacterial extracellular solute-binding proteins, family 3 |
| 78 | 295 | InterPro | IPR001638 | Solute-binding protein family 3/N-terminal domain of MltF |
| 273 | 468 | SUPERFAMILY | SSF53955 | Lysozyme-like |
| 273 | 468 | InterPro | IPR023346 | Lysozyme-like domain superfamily |
| 298 | 479 | Gene3D | G3DSA:1.10.530.10 | - |
| 324 | 430 | Pfam | PF01464 | Transglycosylase SLT domain |
| 324 | 430 | InterPro | IPR008258 | Transglycosylase SLT domain 1 |
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.
How colors and pocket overlays are used
Pocket details Inspect a specific pocket, or open the full viewer
- Method
- -
- Score
- -
- Visible layer
- -
- Residues
- -
- Pocket properties
- -
Selecting a pocket opens its details and centers the viewer without clearing other active layers. Use Focus this pocket when you want to hide the rest; use Surface for the wider residue environment.
Binding pockets · P2Rank
Druggability (P2Rank): high ≥ 0.5 · medium 0.2–0.49 · low < 0.2
Binding pockets · FPocket
Druggability (FPocket): high ≥ 0.7 · medium 0.4–0.69 · low < 0.4
Residue sets
Binding pockets · P2Rank
Druggability (P2Rank): high ≥ 0.5 · medium 0.2–0.49 · low < 0.2
Binding pockets · FPocket
Druggability (FPocket): high ≥ 0.7 · medium 0.4–0.69 · low < 0.4
Residue sets
All structural evidence
Structural evidence
0 + 2Experimental 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_A0A0H3GW83
|
AlphaFold DB | — | — | full sequence | — | Viewing |
|
ColabFold
VK055_4617
|
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.
Structural ligand evidence is available for this target.
Highest-confidence structural evidence: ligands co-crystallized with this exact protein. If the source PDB is loaded in Target, 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.
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 |
|---|---|---|---|---|---|
| ZINC15722130 ZINC | 0.582 | 488.5 Da LogP -2.61 TPSA 243.0 | 1 viol. | ✓ Clean |
C[C@H](N)C(=O)N[C@H](CCC(=O)N[C@@H](CCCCN)C(=O)…
|
| ZINC255987061 ZINC | 0.582 | 488.5 Da LogP -2.61 TPSA 243.0 | 1 viol. | ✓ Clean |
C[C@H](N)C(=O)N[C@H](CCC(=O)N[C@H](CCCCN)C(=O)N…
|
| ZINC255987062 ZINC | 0.582 | 488.5 Da LogP -2.61 TPSA 243.0 | 1 viol. | ✓ Clean |
C[C@H](N)C(=O)N[C@H](CCC(=O)N[C@H](CCCCN)C(=O)N…
|
| ZINC255987063 ZINC | 0.582 | 488.5 Da LogP -2.61 TPSA 243.0 | 1 viol. | ✓ Clean |
C[C@H](N)C(=O)N[C@H](CCC(=O)N[C@H](CCCCN)C(=O)N…
|
| ZINC255987064 ZINC | 0.582 | 488.5 Da LogP -2.61 TPSA 243.0 | 1 viol. | ✓ Clean |
C[C@H](N)C(=O)N[C@H](CCC(=O)N[C@H](CCCCN)C(=O)N…
|
| ZINC64219359 ZINC | 0.565 | 202.3 Da LogP -0.41 TPSA 106.4 | ✓ Ro5 | ✓ Clean |
CC(C)[C@H](C(=O)[C@@H](C)N)[C@H](N)C(=O)O
|
| ZINC64219360 ZINC | 0.565 | 202.3 Da LogP -0.41 TPSA 106.4 | ✓ Ro5 | ✓ Clean |
CC(C)[C@@H](C(=O)[C@@H](C)N)[C@H](N)C(=O)O
|
| ZINC79670384 ZINC | 0.565 | 202.3 Da LogP -0.41 TPSA 106.4 | ✓ Ro5 | ✓ Clean |
CC(C)[C@@H](C(=O)[C@H](C)N)[C@H](N)C(=O)O
|
| ZINC79670387 ZINC | 0.565 | 202.3 Da LogP -0.41 TPSA 106.4 | ✓ Ro5 | ✓ Clean |
CC(C)[C@H](C(=O)[C@H](C)N)[C@H](N)C(=O)O
|
| ZINC2516116 ZINC | 0.559 | 275.3 Da LogP -1.12 TPSA 155.7 | ✓ Ro5 | ✓ Clean |
N[C@@H](CCCCNC(=O)CC[C@H](N)C(=O)O)C(=O)O
|
| ZINC4545887 ZINC | 0.559 | 275.3 Da LogP -1.12 TPSA 155.7 | ✓ Ro5 | ✓ Clean |
N[C@@H](CCCCNC(=O)CC[C@@H](N)C(=O)O)C(=O)O
|
| ZINC4545888 ZINC | 0.559 | 275.3 Da LogP -1.12 TPSA 155.7 | ✓ Ro5 | ✓ Clean |
N[C@@H](CCC(=O)NCCCC[C@@H](N)C(=O)O)C(=O)O
|
| ZINC4545889 ZINC | 0.559 | 275.3 Da LogP -1.12 TPSA 155.7 | ✓ Ro5 | ✓ Clean |
N[C@H](CCCCNC(=O)CC[C@@H](N)C(=O)O)C(=O)O
|
| ZINC50027904 ZINC | 0.559 | 261.3 Da LogP -1.51 TPSA 155.7 | ✓ Ro5 | ✓ Clean |
N[C@@H](CCCCNC(=O)C[C@H](N)C(=O)O)C(=O)O
|
| ZINC3055005 ZINC | 0.556 | 204.2 Da LogP -0.63 TPSA 126.6 | ✓ Ro5 | ✓ Clean |
N[C@@H](CCCC[C@H](N)C(=O)O)C(=O)O
|
| ZINC3055007 ZINC | 0.556 | 204.2 Da LogP -0.63 TPSA 126.6 | ✓ Ro5 | ✓ Clean |
N[C@@H](CCCC[C@@H](N)C(=O)O)C(=O)O
|
| ZINC3055010 ZINC | 0.556 | 204.2 Da LogP -0.63 TPSA 126.6 | ✓ Ro5 | ✓ Clean |
N[C@H](CCCC[C@@H](N)C(=O)O)C(=O)O
|
| ZINC100017163 ZINC | 0.553 | 213.3 Da LogP 0.71 TPSA 99.2 | ✓ Ro5 | ✓ Clean |
C/C=C/CC(=N)NCCC[C@H](N)C(=O)O
|
| ZINC19796052 ZINC | 0.553 | 219.2 Da LogP -1.73 TPSA 156.9 | ✓ Ro5 | ✓ Clean |
N/C(=N\[N+](=O)[O-])NCCC[C@H](N)C(=O)O
|
| ZINC21982226 ZINC | 0.553 | 219.2 Da LogP -1.73 TPSA 156.9 | ✓ Ro5 | ✓ Clean |
N/C(=N\[N+](=O)[O-])NCCC[C@@H](N)C(=O)O
|
| ZINC5113209 ZINC | 0.548 | 275.3 Da LogP -0.26 TPSA 138.7 | ✓ Ro5 | ✓ Clean |
N[C@@H](CCCCNCCCC[C@H](N)C(=O)O)C(=O)O
|
| ZINC13545298 ZINC | 0.543 | 202.3 Da LogP 0.09 TPSA 92.4 | ✓ Ro5 | ✓ Clean |
CCC(=O)NCCCC[C@H](N)C(=O)O
|
| ZINC6360447 ZINC | 0.543 | 222.3 Da LogP 0.37 TPSA 75.3 | ✓ Ro5 | ✓ Clean |
N[C@H](CCCCNC(=S)S)C(=O)O
|
| ZINC5131766 ZINC | 0.538 | 224.3 Da LogP -1.26 TPSA 92.4 | ✓ Ro5 | ✓ Clean |
N[C@@H](CS)C(=O)N[C@@H](CS)C(=O)O
|
| ZINC1555366 ZINC | 0.536 | 232.3 Da LogP 0.15 TPSA 126.6 | ✓ Ro5 | ✓ Clean |
N[C@@H](CCCCCC[C@H](N)C(=O)O)C(=O)O
|
| ZINC1555367 ZINC | 0.536 | 232.3 Da LogP 0.15 TPSA 126.6 | ✓ Ro5 | ✓ Clean |
N[C@@H](CCCCCC[C@@H](N)C(=O)O)C(=O)O
|
| ZINC1555369 ZINC | 0.536 | 232.3 Da LogP 0.15 TPSA 126.6 | ✓ Ro5 | ✓ Clean |
N[C@H](CCCCCC[C@@H](N)C(=O)O)C(=O)O
|
| ZINC1720127 ZINC | 0.536 | 218.3 Da LogP -0.24 TPSA 126.6 | ✓ Ro5 | ✓ Clean |
N[C@@H](CCCCC[C@H](N)C(=O)O)C(=O)O
|
| ZINC1720128 ZINC | 0.536 | 218.3 Da LogP -0.24 TPSA 126.6 | ✓ Ro5 | ✓ Clean |
N[C@@H](CCCCC[C@@H](N)C(=O)O)C(=O)O
|
| ZINC1720130 ZINC | 0.536 | 218.3 Da LogP -0.24 TPSA 126.6 | ✓ Ro5 | ✓ Clean |
N[C@H](CCCCC[C@@H](N)C(=O)O)C(=O)O
|
| ZINC13529436 ZINC | 0.533 | 212.3 Da LogP 1.76 TPSA 46.3 | ✓ Ro5 | ✓ Clean |
CC[C@H](C)[C@H](N)C(=O)N1CCCCCC1
|
| ZINC19502834 ZINC | 0.533 | 212.3 Da LogP 1.76 TPSA 46.3 | ✓ Ro5 | ✓ Clean |
CC[C@@H](C)[C@@H](N)C(=O)N1CCCCCC1
|
| ZINC19502836 ZINC | 0.533 | 212.3 Da LogP 1.76 TPSA 46.3 | ✓ Ro5 | ✓ Clean |
CC[C@H](C)[C@@H](N)C(=O)N1CCCCCC1
|
| ZINC19502838 ZINC | 0.533 | 212.3 Da LogP 1.76 TPSA 46.3 | ✓ Ro5 | ✓ Clean |
CC[C@@H](C)[C@H](N)C(=O)N1CCCCCC1
|
| ZINC1608689 ZINC | 0.528 | 202.3 Da LogP 0.09 TPSA 92.4 | ✓ Ro5 | ✓ Clean |
CCCCNC(=O)CC[C@H](N)C(=O)O
|
| ZINC1737889 ZINC | 0.528 | 245.3 Da LogP -0.33 TPSA 118.4 | ✓ Ro5 | ✓ Clean |
CC(C)[C@H](N)C(=O)NCCCC[C@H](N)C(=O)O
|
| ZINC1737892 ZINC | 0.528 | 245.3 Da LogP -0.33 TPSA 118.4 | ✓ Ro5 | ✓ Clean |
CC(C)[C@@H](N)C(=O)NCCCC[C@H](N)C(=O)O
|
| ZINC1737894 ZINC | 0.528 | 245.3 Da LogP -0.33 TPSA 118.4 | ✓ Ro5 | ✓ Clean |
CC(C)[C@H](N)C(=O)NCCCC[C@@H](N)C(=O)O
|
| ZINC1737898 ZINC | 0.528 | 245.3 Da LogP -0.33 TPSA 118.4 | ✓ Ro5 | ✓ Clean |
CC(C)[C@@H](N)C(=O)NCCCC[C@@H](N)C(=O)O
|
| ZINC2045835 ZINC | 0.528 | 202.3 Da LogP 0.09 TPSA 92.4 | ✓ Ro5 | ✓ Clean |
CCCCNC(=O)CC[C@@H](N)C(=O)O
|
| ZINC1529646 ZINC | 0.526 | 290.3 Da LogP -1.78 TPSA 185.8 | 1 viol. | ✓ Clean |
N=C(NCCC[C@H](N)C(=O)O)N[C@@H](CC(=O)O)C(=O)O
|
| ZINC2028776 ZINC | 0.526 | 307.6 Da LogP 1.27 TPSA 101.6 | ✓ Ro5 | ✓ Clean |
N[C@@H](CCCNC(=O)OCC(Cl)(Cl)Cl)C(=O)O
|
| ZINC2028780 ZINC | 0.526 | 307.6 Da LogP 1.27 TPSA 101.6 | ✓ Ro5 | ✓ Clean |
N[C@H](CCCNC(=O)OCC(Cl)(Cl)Cl)C(=O)O
|
| ZINC2043460 ZINC | 0.526 | 214.3 Da LogP -0.52 TPSA 111.2 | ✓ Ro5 | ✓ Clean |
C=CCNC(=N)NCCC[C@H](N)C(=O)O
|
| ZINC1848346 ZINC | 0.520 | 216.3 Da LogP 0.20 TPSA 92.4 | ✓ Ro5 | ✓ Clean |
CC(C)[C@H](N)C(=O)N[C@H](C(=O)O)C(C)C
|
| ZINC1848348 ZINC | 0.520 | 216.3 Da LogP 0.20 TPSA 92.4 | ✓ Ro5 | ✓ Clean |
CC(C)[C@H](NC(=O)[C@H](N)C(C)C)C(=O)O
|
| ZINC1848350 ZINC | 0.520 | 216.3 Da LogP 0.20 TPSA 92.4 | ✓ Ro5 | ✓ Clean |
CC(C)[C@H](N)C(=O)N[C@@H](C(=O)O)C(C)C
|
| ZINC1848352 ZINC | 0.520 | 216.3 Da LogP 0.20 TPSA 92.4 | ✓ Ro5 | ✓ Clean |
CC(C)[C@@H](N)C(=O)N[C@@H](C(=O)O)C(C)C
|
| ZINC11959315 ZINC | 0.516 | 213.3 Da LogP 0.13 TPSA 49.6 | ✓ Ro5 | ✓ Clean |
CC[C@H](C)[C@H](N)C(=O)N1CCN(C)CC1
|
| ZINC19504599 ZINC | 0.516 | 213.3 Da LogP 0.13 TPSA 49.6 | ✓ Ro5 | ✓ Clean |
CC[C@H](C)[C@@H](N)C(=O)N1CCN(C)CC1
|
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.
Cross-references
External database identifiers for this protein, its structures, ligands, and metabolic reactions.