Genome KpKP13

Protein target profile

putative mscS family protein

Accession: KP13_00518

Gene: AHE46748.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GLB4
Length 1109
Pocket druggability (P2Rank) 0.987
Direct ligand evidence 0 57 total records
Functional annotation 0 EC 4 GO
Target summary

Strong target candidate with converging metabolic, structural and chemical evidence.

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
No hit
Gut microbiome similarity
2.2% 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
85.2 0-100 confidence; >70 supports local structural interpretation.

Binding-site evidence

AlphaFold DB / UniProt model

P2Rank'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.

Druggability (P2Rank) 0.987
Structure A0A0H3GLB4
Pocket Pocket 1
Druggability (FPocket) 0.988
Structure A0A0H3GLB4
Pocket Pocket 105
ColabFold model
P2Rank 0.986 · Pocket 1
FPocket 0.661 · Pocket 25
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 106 / 4744 genomes with a hit
Prevalence 2.2%

Cross-references

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

Sequence

Primary amino-acid sequence viewer.

MRLIYTFLLALSLSFGAYAATAPDAKQITQELEQAKAAKPAQPETVEVLQSALNALEERKSSLERARQYQDVIDNFPKLFQSLRAQLNNLSEEPRQVPTGLTADALNQEILQVSSQLLESSRQAQQEQDRAREIADSLNQLPQQQTDARRQLNEVERRIGTQTGNNALAQAQNLALQAESARLKALVDELDLAQLSANNRQELSRARSELAQKQSEQLDAYLQALRNLQNSQRQREAEKALESTELLAENSENLPPDITAQFKVNRELSQALNQQAQRMDLVASQQRQATNQTLQVRQALNTLREQSQWLGSSNLLGEALRAQVARLPERPRPQQLDTEMAQLRVQRLRFEDLLSKQPQLRQIRQADGEPLTSEQNKILQAQLRTQNELLNSLLRGGDTLMLELTKLKVANGQLEDALKEINEATHRYLFWTSDVSPIGFSWPLEIVQDLRRLISLDTISELGKASAMMLTSKETLLPLFAALLLVGFSISSRRHFTRFLERSSARVGKVTQDHFWLTLRTVFWSILVASPLPVLWMTLGYGLQSAWPFPLAVAIGDGVTATVPLLWVVMICATFARPNGLFIAHFGWPRSRVAKAMRYYLMSIGLIVPLIMALIMFDNLNDREFSASLGRLCFLLICGALAVVTLSLKHAGIPLYLDKEGNGDNMVNRLLWNLMLGAPLVAMLAAAVGYLATAQALLARLETSVAIWFLLLVVYHIIRRWMLIQRRRLAFDRARHRRAEILAQRARGEDEPVHVSSPEGSVETEVSEVDLDAISTQSLRLVRSLLMLIALLSVIVLWSEIHSAFGFLENISLWDVTSTVQGVESLEPITLGAVLIAILVLIITTQLVRNLPALLELAILQHLDLTPGTGYAITTITKYLLMLVGGLVGFSMIGIEWSKLQWLVAALGVGLGFGLQEIFANFISGLIILFEKPIRIGDTVTIRDLTGSVTRINTRATTISDWDRKEIIVPNKAFITEQFINWSLSDSVTRVVLTVPAPVDADTEEVTKILIAAAHRCSLVIDTPAPEAFLVDLQQGIQIFELRIFAAEMGHRMPLRHEMHQLILAGFREHGIDMPFPPFQMRLESIDGRQSSKTMTSAGKTSRRTAGSL

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

4 GO

Subcellular localization

Localization
CytoplasmicMembrane

Gene Ontology (GO)

4
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0055085 The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other.
  • GO:0005886 The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
  • GO:0008381 Enables the transmembrane transfer of an monoatomic ion by a channel that opens in response to a mechanical stress.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

66 records
Show feature table
Start End DB Term Name
517 539 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
597 617 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
629 649 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
785 808 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
478 814 Pfam PF12794 Mechanosensitive ion channel inner membrane domain 1
478 814 InterPro IPR025692 Mechanosensitive ion channel inner membrane domain 1
1 19 Phobius SIGNAL_PEPTIDE Signal peptide region
986 1078 Gene3D G3DSA:3.30.70.100 -
121 158 Coils Coil Coil
31 255 Pfam PF12795 Mechanosensitive ion channel porin domain
31 255 InterPro IPR024393 Mechanosensitive ion channel MscS, porin domain
784 806 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
618 628 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
670 691 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
536 1103 PANTHER PTHR30347 POTASSIUM CHANNEL RELATED
831 932 FunFam G3DSA:1.10.287.1260:FF:000002 Potassium efflux system KefA
828 848 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
577 596 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
719 784 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
875 1074 Pfam PF00924 Mechanosensitive ion channel
875 1074 InterPro IPR006685 Mechanosensitive ion channel MscS
834 916 SUPERFAMILY SSF82861 Mechanosensitive channel protein MscS (YggB), transmembrane region
834 916 InterPro IPR011014 Mechanosensitive ion channel MscS, transmembrane-2
947 981 ProSitePatterns PS01246 Uncharacterized protein family UPF0003 signature.
947 981 InterPro IPR006686 Mechanosensitive ion channel MscS, conserved site
497 516 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
627 649 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
918 983 SUPERFAMILY SSF50182 Sm-like ribonucleoproteins
918 983 InterPro IPR010920 LSM domain superfamily
908 930 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
879 897 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
596 617 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
15 19 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
692 696 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
553 575 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
650 669 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
540 550 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
516 538 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
933 982 Gene3D G3DSA:2.30.30.60 -
933 982 InterPro IPR023408 Mechanosensitive ion channel MscS, beta-domain superfamily
670 692 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 19 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM
903 930 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 19 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM
3 14 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
809 827 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
831 932 Gene3D G3DSA:1.10.287.1260 -
476 496 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
697 718 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
696 718 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
551 576 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
849 878 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
931 1109 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
879 898 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
475 492 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
985 1083 SUPERFAMILY SSF82689 Mechanosensitive channel protein MscS (YggB), C-terminal domain
985 1083 InterPro IPR011066 Mechanosensitive ion channel MscS, C-terminal
404 427 Coils Coil Coil
121 144 MobiDBLite mobidb-lite consensus disorder prediction
826 848 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
898 902 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
46 66 Coils Coil Coil
1085 1109 MobiDBLite mobidb-lite consensus disorder prediction
196 254 Coils Coil Coil
20 475 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.

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 · P2Rank

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

Pocket 1 P2Rank #1
0.987
Likely same site as FPocket 105 5.2 Å 28 shared residues 82% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.456
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Surrounding area
Pocket 3 P2Rank #3
0.389
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Surrounding area
Pocket 4 P2Rank #4
0.209
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Surrounding area
Pocket 5 P2Rank #5
0.195
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Surrounding area

Binding pockets · FPocket

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

Pocket 1 FPocket #105
0.988 Unusual size
Likely same site as P2Rank 1 5.2 Å 28 shared residues 82% of smaller site
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Surrounding area
Pocket 2 FPocket #102
0.465 Unusual size
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Surrounding area
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_A0A0H3GLB4
AlphaFold DB full sequence Viewing
ColabFold KP13_00518
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.

57 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 7 records from similar proteins
Structural ligands 7 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
HEX PDB via homolog 86.2 Da · LogP 2.59 · TPSA 0.0 Open detail RCSB PDB
LMT PDB via homolog Detail RCSB PDB
PCW PDB via homolog Detail RCSB PDB
PEE PDB via homolog Detail RCSB PDB
POV 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
HEX RCSB PDB P0C0S1 86.2 Da LogP 2.59 TPSA 0.0 ✓ Ro5 ✓ Clean CCCCCC
LMT RCSB PDB P0C0S1 510.6 Da LogP -0.45 TPSA 178.5 3 viol. ✓ Clean CCCCCCCCCCCCO[C@H]1[C@@H]([C@H]([C@@H]([C@H](O1…
PCW RCSB PDB P0C0S1 787.1 Da LogP 12.36 TPSA 108.4 2 viol. ✓ Clean CCCCCCCC\C=C/CCCCCCCC(=O)OC[C@H](CO[P@@](=O)(O)…
PEE RCSB PDB P0AEB5 744.0 Da LogP 11.61 TPSA 134.4 2 viol. ✓ Clean CCCCCCCC/C=C\CCCCCCCC(=O)OC[C@H](COP(=O)(O)OCCN…
POV RCSB PDB P0C0S1 760.1 Da LogP 11.17 TPSA 111.2 2 viol. ✓ Clean CCCCCCCCCCCCCCCC(=O)OC[C@@H](CO[P@](=O)([O-])OC…
QGD RCSB PDB P0AEB5 750.1 Da LogP 11.20 TPSA 154.6 2 viol. ✓ Clean CCCCCCCCCCCCCCCCCCCCOC[C@H](COP(=O)(O)OC[C@@H](…
R16 RCSB PDB P0C0S1 226.4 Da LogP 6.49 TPSA 0.0 1 viol. ✓ Clean CCCCCCCCCCCCCCCC

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.