Protein profile

VK055_0511

electron transport complex, RnfABCDGE type, D subunit

Genome: KpATCC43816

Gene: AIK79134.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GYV9
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Amino acids 350
Annotations 5
Features 37
PDB binders 0
Druggability 0.971

Overview

Basic information about this protein and its source genome.

Accession
VK055_0511
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK79134.1
Status
annotated
Amino acids
350
Structure source
AlphaFold + ColabFold
EC
7.-.-.-
GO
GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it. GO:0022900 A process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors. 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.

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 (%)
58.453
DEG E-value
4.61e-139
Localization
CytoplasmicMembrane
ColabFold pLDDT
90.04

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 0.971
Structure A0A0H3GYV9
Pocket Pocket 1
P2Rank 0.824
Structure A0A0H3GYV9
Pocket Pocket 1
ColabFold model
FPocket 0.965 · Pocket 1
P2Rank 0.903 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 137 / 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.

1 EC 4 GO

Enzyme Commission (EC)

1

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:0022900 A process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors.
  • 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.

Sequence Features

Domain/signature hits from InterPro and related databases.

37 records
Show feature table
Start End DB Term Name
301 318 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
8 349 NCBIfam TIGR01946 RnfABCDGE type electron transport complex subunit D
8 349 InterPro IPR011303 Ion-translocating oxidoreductase complex Rnf, subunit D
39 43 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
2 350 PANTHER PTHR30578 ELECTRON TRANSPORT COMPLEX PROTEIN RNFD
2 350 InterPro IPR004338 Ion-translocating oxidoreductase NqrB/RnfD
44 62 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
20 38 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
69 89 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
210 235 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
263 267 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
242 262 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
272 294 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
63 68 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
299 318 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
114 124 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
343 350 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
90 94 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
288 298 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
125 143 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 19 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
268 287 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
20 42 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
6 348 Pfam PF03116 NQR2, RnfD, RnfE family
6 348 InterPro IPR004338 Ion-translocating oxidoreductase NqrB/RnfD
243 262 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
323 342 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
95 113 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
3 350 Hamap MF_00462 Ion-translocating oxidoreductase complex subunit D [rsxD].
3 350 InterPro IPR011303 Ion-translocating oxidoreductase complex Rnf, subunit D
324 342 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
319 323 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
86 108 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
236 241 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
115 137 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
144 209 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
214 236 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.

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_A0A0H3GYV9
AlphaFold — — full sequence — Viewing
ColabFold VK055_0511
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 0.971
11 0.356
2 0.264
3 0.208

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 16.05 0.769
2 2.1 0.048
3 1.55 0.023