8WG6 | pdb_00008wg6

Crystal structure of major pilin PilB from Streptococcus sanguinis - SeMet derivative

• PDB DOI: https://doi.org/10.2210/pdb8WG6/pdb

• Classification: CELL ADHESION
• Organism(s): Streptococcus sanguinis SK36
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2023-09-20 Released: 2025-03-26 
• Deposition Author(s): Yadav, S., Parijat, P., Krishnan, V.
• Funding Organization(s): Science and Engineering Research Board (SERB)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.269 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.226 (Depositor), 0.238 (DCC) 
• R-Value Observed: 
  0.228 (Depositor) 

Literature

Crystal structure of major pilin PilB from Streptococcus sanguinis - SeMet derivative

Yadav, S., Parijat, P., Krishnan, V.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 49.15 kDa 
• Atom Count: 3,335 
• Modeled Residue Count: 419 
• Deposited Residue Count: 451 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
FimA fimbrial subunit-like protein, putative	A	451	Streptococcus sanguinis SK36	Mutation(s): 0  Gene Names: SSA_1633
UniProt
Find proteins for A3CPB6 (Streptococcus sanguinis (strain SK36)) Explore A3CPB6  Go to UniProtKB:  A3CPB6

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	B [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
ACT	C [auth A], D [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
NA	E [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.269 (Depositor), 0.280 (DCC) 
• R-Value Work:  0.226 (Depositor), 0.238 (DCC) 
• R-Value Observed: 0.228 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.78	α = 90
b = 58.772	β = 90
c = 214.108	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
CRANK2	phasing
Coot	model building
REFMAC	refinement
autoPROC	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-03-26 
Deposition Author(s): Yadav, S., Parijat, P., Krishnan, V.

---

Funding Organization	Location	Grant Number
Science and Engineering Research Board (SERB)	India	CRG/2019/000432

Revision History  

• Version 1.0: 2025-03-26
  Type: Initial release