2ZDJ | pdb_00002zdj

Crystal Structure of TTMA177, a Hypothetical Protein from Thermus thermophilus phage TMA

• PDB DOI: https://doi.org/10.2210/pdb2ZDJ/pdb

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


• Deposited: 2007-11-26 Released: 2008-12-02 
• Deposition Author(s): Agari, Y., Tamakoshi, M., Yamagishi, A., Shinkai, A., Ebihara, A., Yokoyama, S., Kuramitsu, S., Oshima, T., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.263 (Depositor), 0.262 (DCC) 
• R-Value Work: 
  0.210 (Depositor), 0.209 (DCC) 
• R-Value Observed: 
  0.210 (Depositor) 

Literature

Crystal Structure of TTMA177, a Hypothetical Protein from Thermus thermophilus phage TMA

Agari, Y., Tamakoshi, M., Yamagishi, A., Shinkai, A., Ebihara, A., Yokoyama, S., Kuramitsu, S., Oshima, T.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Biological Assembly 4  

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

Biological assembly 4 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 32.73 kDa 
• Atom Count: 2,393 
• Modeled Residue Count: 276 
• Deposited Residue Count: 276 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
hypothetical protein TTMA177	A, B, C, D	69	unidentified	Mutation(s): 0
UniProt
Find proteins for D0VWQ2 (unidentified) Explore D0VWQ2  Go to UniProtKB:  D0VWQ2

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.263 (Depositor), 0.262 (DCC) 
• R-Value Work:  0.210 (Depositor), 0.209 (DCC) 
• R-Value Observed: 0.210 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.421	α = 90
b = 63.716	β = 90
c = 71.93	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-12-02 
Deposition Author(s): Agari, Y., Tamakoshi, M., Yamagishi, A., Shinkai, A., Ebihara, A., Yokoyama, S., Kuramitsu, S., Oshima, T., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2008-12-02
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary