Protein profile

KP13_02052

Protein-export membrane protein secF

Genome: KpKP13

Gene: secF AHE46055.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GKD2
Export view
Amino acids 323
Annotations 6
Features 42
PDB binders 2
Druggability 0.957

Overview

Basic information about this protein and its source genome.

Accession
KP13_02052
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
secF AHE46055.1
Status
annotated
Amino acids
323
Structure source
AlphaFold + ColabFold
GO
GO:0006886 The directed movement of proteins in a cell, including the movement of proteins between specific compartments or structures within a cell, such as organelles of a eukaryotic cell. GO:0015450 Primary active carrier-mediated transport of a protein across a membrane, driven by the hydrolysis of the diphosphate bond of inorganic pyrophosphate, ATP, or another nucleoside triphosphate. The transport protein may or may not be transiently phosphorylated, but the substrate is not phosphorylated. 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:0065002 The directed movement of proteins in a cell, from one side of a membrane to another by means of some agent such as a transporter or pore. GO:0006605 The process of targeting specific proteins to particular regions of the cell, typically membrane-bounded subcellular organelles. Usually requires an organelle specific protein sequence motif. GO:0043952 The process in which unfolded proteins are transported across the cytoplasmic membrane in Gram-positive and Gram-negative bacteria by the Sec complex, in a process involving proteolytic cleavage of an N-terminal signal peptide.

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 (%)
88.545
DEG E-value
0.0
Localization
CytoplasmicMembrane
ColabFold pLDDT
84.19

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 0.957
Structure A0A0H3GKD2
Pocket Pocket 1
P2Rank 0.677
Structure A0A0H3GKD2
Pocket Pocket 1
ColabFold model
FPocket 0.665 · Pocket 21
P2Rank 0.476 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 126 / 4744 genomes with a hit
Normalized 0.027

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

6 GO

Gene Ontology (GO)

6
  • GO:0006886 The directed movement of proteins in a cell, including the movement of proteins between specific compartments or structures within a cell, such as organelles of a eukaryotic cell.
  • GO:0015450 Primary active carrier-mediated transport of a protein across a membrane, driven by the hydrolysis of the diphosphate bond of inorganic pyrophosphate, ATP, or another nucleoside triphosphate. The transport protein may or may not be transiently phosphorylated, but the substrate is not phosphorylated.
  • 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:0065002 The directed movement of proteins in a cell, from one side of a membrane to another by means of some agent such as a transporter or pore.
  • GO:0006605 The process of targeting specific proteins to particular regions of the cell, typically membrane-bounded subcellular organelles. Usually requires an organelle specific protein sequence motif.
  • GO:0043952 The process in which unfolded proteins are transported across the cytoplasmic membrane in Gram-positive and Gram-negative bacteria by the Sec complex, in a process involving proteolytic cleavage of an N-terminal signal peptide.

Sequence Features

Domain/signature hits from InterPro and related databases.

42 records
Show feature table
Start End DB Term Name
218 248 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
192 196 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
18 297 PANTHER PTHR30081 PROTEIN-EXPORT MEMBRANE PROTEIN SEC
18 297 InterPro IPR022813 Protein-export membrane protein SecD/SecF, archaeal and bacterial
142 163 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 23 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
117 301 Pfam PF02355 Protein export membrane protein
117 301 InterPro IPR022813 Protein-export membrane protein SecD/SecF, archaeal and bacterial
126 289 NCBIfam TIGR00916 SecD/SecF family protein translocase subunit
126 289 InterPro IPR022645 Protein-export membrane protein SecD/SecF, bacterial
275 297 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
78 303 SUPERFAMILY SSF82866 Multidrug efflux transporter AcrB transmembrane domain
18 298 NCBIfam TIGR00966 protein translocase subunit SecF
18 298 InterPro IPR005665 Protein-export membrane protein SecF, bacterial
249 269 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
298 323 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
44 59 PRINTS PR01755 Bacterial translocase SecF protein signature
44 59 InterPro IPR022645 Protein-export membrane protein SecD/SecF, bacterial
208 226 PRINTS PR01755 Bacterial translocase SecF protein signature
208 226 InterPro IPR022645 Protein-export membrane protein SecD/SecF, bacterial
160 174 PRINTS PR01755 Bacterial translocase SecF protein signature
160 174 InterPro IPR022645 Protein-export membrane protein SecD/SecF, bacterial
240 255 PRINTS PR01755 Bacterial translocase SecF protein signature
240 255 InterPro IPR022645 Protein-export membrane protein SecD/SecF, bacterial
170 191 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
17 303 Hamap MF_01464_B Protein-export membrane protein SecF [secF].
17 303 InterPro IPR005665 Protein-export membrane protein SecF, bacterial
164 169 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
169 191 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
44 141 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
110 311 FunFam G3DSA:1.20.1640.10:FF:000006 Protein-export membrane protein SecF
248 270 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
24 43 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
105 310 Gene3D G3DSA:1.20.1640.10 Multidrug efflux transporter AcrB transmembrane domain
195 217 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
40 66 Pfam PF07549 SecD/SecF GG Motif
40 66 InterPro IPR022646 Protein-export membrane protein SecD/SecF/SecDF, conserved site
197 217 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
24 46 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
270 274 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
143 162 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
275 297 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_A0A0H3GKD2
AlphaFold — — full sequence — Viewing
ColabFold KP13_02052
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 0.957

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 9.51 0.511
2 7.17 0.373
3 2.37 0.062
4 0.95 0.005

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.

52 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
15P
5XAN
Q9RTE3 1529.8 Da LogP 0.17 TPSA 334.1 2 viol. ✓ Clean COCCOCCOCCOCCOCCOCCOCCOCCOCCOCCOCCOCCOCCOCCOCCO…
OLC
5YHF
Q5SKE6 356.5 Da LogP 4.92 TPSA 66.8 ✓ Ro5 ✓ Clean CCCCCCCC\C=C/CCCCCCCC(=O)OC[C@@H](CO)O

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.