Protein profile

VK055_3025

ssDNA-binding protein

Genome: KpATCC43816

Gene: AIK81610.1 ssb Structure source: Experimental + ColabFold UniProt A6TGW7
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Amino acids 174
Annotations 2
Features 21
PDB binders 2
Druggability 0.003

Overview

Basic information about this protein and its source genome.

Accession
VK055_3025
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK81610.1 ssb
Status
annotated
Amino acids
174
Structure source
Experimental + ColabFold
GO
GO:0003697 Binding to single-stranded DNA. GO:0006260 The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by the origin recognition complex, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
38.889
Human E-value
3.24e-16
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
93.82
DEG E-value
1.23e-118
Localization
Cytoplasmic
ColabFold pLDDT
80.32

Selected Druggability evidence

PDB experimental structure

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 0.003
Structure 7F2N
Pocket Pocket 2
P2Rank
Structure 7F2N
Pocket No pockets
ColabFold model
FPocket 0.083 · Pocket 5
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 156 / 4744 genomes with a hit
Normalized 0.033

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

2 GO

Gene Ontology (GO)

2
  • GO:0003697 Binding to single-stranded DNA.
  • GO:0006260 The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by the origin recognition complex, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.

Sequence Features

Domain/signature hits from InterPro and related databases.

21 records
Show feature table
Start End DB Term Name
6 111 ProSiteProfiles PS50935 Single-strand binding (SSB) domain profile.
6 111 InterPro IPR000424 Primosome PriB/single-strand DNA-binding
9 105 CDD cd04496 SSB_OBF
9 105 InterPro IPR000424 Primosome PriB/single-strand DNA-binding
129 157 MobiDBLite mobidb-lite consensus disorder prediction
2 143 Gene3D G3DSA:2.40.50.140 -
2 143 InterPro IPR012340 Nucleic acid-binding, OB-fold
6 112 Pfam PF00436 Single-strand binding protein family
6 112 InterPro IPR000424 Primosome PriB/single-strand DNA-binding
3 149 PANTHER PTHR10302 SINGLE-STRANDED DNA-BINDING PROTEIN
3 149 InterPro IPR011344 Single-stranded DNA-binding protein
2 142 FunFam G3DSA:2.40.50.140:FF:000065 Single-stranded DNA-binding protein
4 174 SUPERFAMILY SSF50249 Nucleic acid-binding proteins
4 174 InterPro IPR012340 Nucleic acid-binding, OB-fold
2 157 PIRSF PIRSF002070 SSB
2 157 InterPro IPR011344 Single-stranded DNA-binding protein
4 174 NCBIfam TIGR00621 single-stranded DNA-binding protein
4 174 InterPro IPR011344 Single-stranded DNA-binding protein
109 174 MobiDBLite mobidb-lite consensus disorder prediction
6 117 Hamap MF_00984 Single-stranded DNA-binding protein.
6 117 InterPro IPR011344 Single-stranded DNA-binding protein

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

1 + 1

Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
PDB 7F2N
X-ray 20.00 Å - —
PDBe RCSB PDBj File
Viewing
ColabFold VK055_3025
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
10 0.398
9 0.288
6 0.238

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 4.39 0.184
2 3.17 0.108
3 2.63 0.077

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
MYC
5YUN
P40947 318.2 Da LogP 1.69 TPSA 151.6 1 viol. Alert c1c(cc(c(c1O)O)O)C2=C(C(=O)c3c(cc(cc3O2)O)O)O
URF
7D8J
A0A3F2YLU4 130.1 Da LogP -0.80 TPSA 65.7 ✓ Ro5 ✓ Clean C1=C(C(=O)NC(=O)N1)F

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.