1Z9F | pdb_00001z9f

Crystal structure of single stranded DNA-binding protein (TM0604) from Thermotoga maritima at 2.60 A resolution

• PDB DOI: https://doi.org/10.2210/pdb1Z9F/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Thermotoga maritima
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2005-04-01 Released: 2005-04-12 
• Deposition Author(s): Joint Center for Structural Genomics (JCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.300 (Depositor), 0.296 (DCC) 
• R-Value Work: 
  0.223 (Depositor), 0.231 (DCC) 
• R-Value Observed: 
  0.231 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of a single-stranded DNA-binding protein (TM0604) from Thermotoga maritima at 2.60 A resolution.

DiDonato, M., Krishna, S.S., Schwarzenbacher, R., McMullan, D., Jaroszewski, L., Miller, M.D., Abdubek, P., Agarwalla, S., Ambing, E., Axelrod, H., Biorac, T., Chiu, H.J., Deacon, A.M., Elsliger, M.A., Feuerhelm, J., Godzik, A., Grittini, C., Grzechnik, S.K., Hale, J., Hampton, E., Haugen, J., Hornsby, M., Klock, H.E., Knuth, M.W., Koesema, E., Kreusch, A., Kuhn, P., Lesley, S.A., Moy, K., Nigoghossian, E., Okach, L., Paulsen, J., Quijano, K., Reyes, R., Rife, C., Spraggon, G., Stevens, R.C., van den Bedem, H., Velasquez, J., White, A., Wolf, G., Xu, Q., Hodgson, K.O., Wooley, J., Wilson, I.A.

(2006) Proteins 63: 256-260

• PubMed: 16435371 
• DOI: https://doi.org/10.1002/prot.20841
• Primary Citation Related Structures: 
  1Z9F

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Organizational Affiliation: 
• Joint Center for Structural Genomics, 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,PQS (software)

Macromolecule Content 

• Total Structure Weight: 17.78 kDa 
• Atom Count: 751 
• Modeled Residue Count: 89 
• Deposited Residue Count: 153 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Single-strand binding protein	A	153	Thermotoga maritima	Mutation(s): 0  Gene Names: ssb
UniProt
Find proteins for Q9WZ73 (Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)) Explore Q9WZ73  Go to UniProtKB:  Q9WZ73

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.300 (Depositor), 0.296 (DCC) 
• R-Value Work:  0.223 (Depositor), 0.231 (DCC) 
• R-Value Observed: 0.231 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M31Z9F

Space Group: F 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.589	α = 90
b = 83.406	β = 90
c = 86.431	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
MOSFLM	data reduction
CCP4	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-04-12 
Deposition Author(s): Joint Center for Structural Genomics (JCSG)

Revision History  

• Version 1.0: 2005-04-12
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Derived calculations, Version format compliance
• Version 1.3: 2023-01-25
  Changes: Database references
• Version 1.4: 2023-09-20
  Changes: Data collection, Refinement description