Protein profile

VK055_0259

oppB

Genome: KpATCC43816

Gene: AIK78885.1 oppB Structure source: AlphaFold + ColabFold UniProt A0A0H3GRC9
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Amino acids 306
Annotations 5
Features 33
PDB binders 0
Druggability 0.642

Overview

Basic information about this protein and its source genome.

Accession
VK055_0259
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK78885.1 oppB
Status
annotated
Amino acids
306
Structure source
AlphaFold + ColabFold
GO
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:0015833 The directed movement of peptides, compounds of two or more amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. GO:0015031 The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
40.264
DEG E-value
1.99e-78
Localization
CytoplasmicMembrane
ColabFold pLDDT
90.67

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 0.642
Structure A0A0H3GRC9
Pocket Pocket 8
P2Rank 0.7
Structure A0A0H3GRC9
Pocket Pocket 1
ColabFold model
FPocket 0.998 · Pocket 1
P2Rank 0.65 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 139 / 4744 genomes with a hit
Normalized 0.029

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

5 GO

Gene Ontology (GO)

5
  • 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:0015833 The directed movement of peptides, compounds of two or more amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
  • GO:0015031 The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.

Sequence Features

Domain/signature hits from InterPro and related databases.

33 records
Show feature table
Start End DB Term Name
31 99 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
12 30 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
274 300 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
112 306 Pfam PF00528 Binding-protein-dependent transport system inner membrane component
112 306 InterPro IPR000515 ABC transporter type 1, transmembrane domain MetI-like
13 30 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
193 227 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
173 192 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
122 132 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
100 121 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
228 254 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
162 172 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
94 293 ProSiteProfiles PS50928 ABC transporter integral membrane type-1 domain profile.
94 293 InterPro IPR000515 ABC transporter type 1, transmembrane domain MetI-like
133 161 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 306 PANTHER PTHR43163 DIPEPTIDE TRANSPORT SYSTEM PERMEASE PROTEIN DPPB-RELATED
102 121 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
84 300 FunFam G3DSA:1.10.3720.10:FF:000016 Oligopeptide transport system permease OppB
301 306 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
94 288 CDD cd06261 TM_PBP2
94 288 InterPro IPR000515 ABC transporter type 1, transmembrane domain MetI-like
228 250 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
134 156 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
166 188 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
84 300 Gene3D G3DSA:1.10.3720.10 -
84 300 InterPro IPR035906 MetI-like superfamily
278 300 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
89 291 SUPERFAMILY SSF161098 MetI-like
89 291 InterPro IPR035906 MetI-like superfamily
1 73 Pfam PF19300 Binding-prot-dependent transport system membrane comp, N-term
1 73 InterPro IPR045621 ABC transporter type 1, GsiC-like, N-terminal domain
1 11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
255 273 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_A0A0H3GRC9
AlphaFold — — full sequence — Viewing
ColabFold VK055_0259
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
8 0.642
1 0.32
6 0.11
25 0.002

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 16.42 0.7
2 4.62 0.165
3 3.52 0.103
4 3.41 0.097
5 2.98 0.078