1T6S

Crystal structure of a conserved hypothetical protein from Chlorobium tepidum

• PDB DOI: https://doi.org/10.2210/pdb1T6S/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Chlorobaculum tepidum TLS
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2004-05-07 Released: 2004-12-07 
• Deposition Author(s): Kim, J.S., Shin, D.H., Kim, R., Kim, S.H., Berkeley Structural Genomics Center (BSGC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.253 
• R-Value Work: 0.216 
• R-Value Observed: 0.230 

Literature

Crystal structure of ScpB from Chlorobium tepidum, a protein involved in chromosome partitioning.

Kim, J.S., Shin, D.H., Pufan, R., Huang, C., Yokota, H., Kim, R., Kim, S.H.

(2006) Proteins 62: 322-328

• PubMed: 16294331 
• DOI: https://doi.org/10.1002/prot.20751
• Primary Citation of Related Structures:  
  1T6S


• PubMed Abstract: 
  

  Structural maintenance of chromosome (SMC) proteins are essential in chromosome condensation and interact with non-SMC proteins in eukaryotes and with segregation and condensation proteins (ScpA and ScpB) in prokaryotes. The highly conserved gene in Chlorobium tepidum gi 21646405 encodes ScpB (ScpB_ChTe). The high resolution crystal structure of ScpB_ChTe shows that the monomeric structure consists of two similarly shaped globular domains composed of three helices sided by beta-strands [a winged helix-turn-helix (HTH)], a motif observed in the C-terminal domain of Scc1, a functionally related eukaryotic ScpA homolog, as well as in many DNA binding proteins.

---

Organizational Affiliation: 

Department of Chemistry, University of California, Berkeley, California 94720, USA.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly 2  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 2 generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 3 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 38.26 kDa 
• Atom Count: 2,786 
• Modelled Residue Count: 324 
• Deposited Residue Count: 324 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
conserved hypothetical protein	A, B	162	Chlorobaculum tepidum TLS	Mutation(s): 0
UniProt
Find proteins for Q8KF54 (Chlorobaculum tepidum (strain ATCC 49652 / DSM 12025 / NBRC 103806 / TLS)) Explore Q8KF54  Go to UniProtKB:  Q8KF54

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NO3	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A], L [auth A], M [auth A], N [auth B], O [auth B], P [auth B], Q [auth B], R [auth B], S [auth B], T [auth B], U [auth B], V [auth B], W [auth B]	NITRATE ION N O3 NHNBFGGVMKEFGY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.253 
• R-Value Work: 0.216 
• R-Value Observed: 0.230 
• Space Group: P 6₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.42	α = 90
b = 69.42	β = 90
c = 117.99	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
SCALEPACK	data scaling
SOLVE	phasing
CNS	refinement
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-12-07 
Deposition Author(s): Kim, J.S., Shin, D.H., Kim, R., Kim, S.H., Berkeley Structural Genomics Center (BSGC)

Revision History  

• Version 1.0: 2004-12-07
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2011-11-16
  Changes: Atomic model
• Version 1.4: 2024-02-14
  Changes: Data collection, Database references, Derived calculations