Protein profile

KP13_04195

Lipid A export ATP-binding/permease protein msbA

Genome: KpKP13

Gene: AHE45426.1 msbA Structure source: AlphaFold + ColabFold UniProt A0A0H3GV05
Amino acids 582
Annotations 9
Features 46
PDB binders 6
Druggability 0.97

Overview

Basic information about this protein and its source genome.

Accession
KP13_04195
Gene
AHE45426.1 msbA
Status
annotated
Amino acids
582
Structure source
AlphaFold + ColabFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
61.039
Human E-value
2.5399999999999998e-24
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
92.955
DEG E-value
0.0
Localization
CytoplasmicMembrane
ColabFold pLDDT
89.38

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 0.97
Structure A0A0H3GV05
Pocket Pocket 1
P2Rank 0.372
Structure A0A0H3GV05
Pocket Pocket 1
ColabFold model
FPocket 0.727 · Pocket 9
P2Rank 0.432 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 145 / 4744 genomes with a hit
Normalized 0.031

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

9 GO

Gene Ontology (GO)

9
  • GO:0016887 Catalysis of the reaction: ATP + H2O = ADP + H+ phosphate. ATP hydrolysis is used in some reactions as an energy source, for example to catalyze a reaction or drive transport against a concentration gradient.
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0034040 Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: ATP + H2O + lipid(in) = ADP + phosphate + lipid(out).
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0055085 The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other.
  • GO:0140359 Primary active transporter characterized by two nucleotide-binding domains and two transmembrane domains. Uses the energy generated from ATP hydrolysis to drive the transport of a substance across a membrane.
  • 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:0015421 Catalysis of the reaction: ATP + H2O + oligopeptide(out) = ADP + phosphate + oligopeptide(in).
  • GO:0042802 Binding to an identical protein or proteins.

Sequence Features

Domain/signature hits from InterPro and related databases.

46 records
Show feature table
Start End DB Term Name
13 35 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
481 495 ProSitePatterns PS00211 ABC transporters family signature.
481 495 InterPro IPR017871 ABC transporter-like, conserved site
12 582 NCBIfam TIGR02203 lipid A export permease/ATP-binding protein MsbA
12 582 InterPro IPR011917 ABC transporter, lipid A-core flippase, MsbA
333 582 FunFam G3DSA:3.40.50.300:FF:000140 Lipid A export ATP-binding/permease protein MsbA
27 316 CDD cd18552 ABC_6TM_MsbA_like
142 163 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
332 582 Gene3D G3DSA:3.40.50.300 -
332 582 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
245 267 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 330 FunFam G3DSA:1.20.1560.10:FF:000008 Lipid A export ATP-binding/permease protein MsbA
1 330 Gene3D G3DSA:1.20.1560.10 ABC transporter type 1, transmembrane domain
1 330 InterPro IPR036640 ABC transporter type 1, transmembrane domain superfamily
144 163 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
71 93 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
94 141 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
342 578 ProSiteProfiles PS50893 ATP-binding cassette, ABC transporter-type domain profile.
342 578 InterPro IPR003439 ABC transporter-like, ATP-binding domain
164 168 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
342 576 CDD cd03251 ABCC_MsbA
368 555 SMART SM00382 AAA_5
368 555 InterPro IPR003593 AAA+ ATPase domain
14 325 SUPERFAMILY SSF90123 ABC transporter transmembrane region
14 325 InterPro IPR036640 ABC transporter type 1, transmembrane domain superfamily
273 277 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
359 509 Pfam PF00005 ABC transporter
359 509 InterPro IPR003439 ABC transporter-like, ATP-binding domain
331 580 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
331 580 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
296 582 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
187 253 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
27 297 Pfam PF00664 ABC transporter transmembrane region
27 297 InterPro IPR011527 ABC transporter type 1, transmembrane domain
65 93 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
278 295 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
21 45 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
28 310 ProSiteProfiles PS50929 ABC transporter integral membrane type-1 fused domain profile.
28 310 InterPro IPR011527 ABC transporter type 1, transmembrane domain
5 579 PANTHER PTHR43394 ATP-DEPENDENT PERMEASE MDL1, MITOCHONDRIAL
5 579 InterPro IPR039421 Type 1 protein exporter
169 186 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
254 272 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
167 186 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
46 64 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; predicted models typically cover the full protein.

3D visualization script Full viewer

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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_A0A0H3GV05
AlphaFold full sequence Viewing
ColabFold KP13_04195
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 0.97
27 0.371
8 0.317
7 0.213

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 5.04 0.23
2 4.77 0.21
3 2.81 0.087
4 2.59 0.074
5 1.89 0.038

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.

59 records

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
0JZ P21447 687.4 Da LogP 1.74 TPSA 126.0 1 viol. ✓ Clean CC(C)[C@@H]1c2nc(c[se]2)C(=O)N[C@@H](c3nc(c[se]…
2J8 P21447 687.4 Da LogP 1.74 TPSA 126.0 1 viol. ✓ Clean CC(C)[C@H]1c2nc(c[se]2)C(=O)N[C@H](c3nc(c[se]3)…
4C8 P21447 564.7 Da LogP 7.29 TPSA 9.2 2 viol. ✓ Clean c1cc(c(cc1Br)Br)Oc2c(cc(cc2Br)Br)Br
AGS Q9WYC4 523.2 Da LogP -1.51 TPSA 262.1 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
ANP P63359 506.2 Da LogP -2.06 TPSA 281.9 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
Z5G A0A0B9X4I2 335.8 Da LogP 4.23 TPSA 66.4 ✓ Ro5 ✓ Clean c1cc(ccc1C(=O)Nc2c(c3c(s2)CCCC3)C(=O)O)Cl

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.