4GHJ | pdb_00004ghj

1.75 Angstrom Crystal Structure of Transcriptional Regulator ftom Vibrio vulnificus.

• PDB DOI: https://doi.org/10.2210/pdb4GHJ/pdb

• Classification: TRANSCRIPTION
• Organism(s): Vibrio vulnificus CMCP6
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2012-08-07 Released: 2012-08-15 
• Deposition Author(s): Minasov, G., Shuvalova, L., Dubrovska, I., Winsor, J., Grimshaw, S., Papazisi, L., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 
  0.223 (Depositor), 0.234 (DCC) 
• R-Value Work: 
  0.182 (Depositor), 0.196 (DCC) 
• R-Value Observed: 
  0.184 (Depositor) 

Literature

1.75 Angstrom Crystal Structure of Transcriptional Regulator ftom Vibrio vulnificus.

Minasov, G., Shuvalova, L., Dubrovska, I., Winsor, J., Grimshaw, S., Papazisi, L., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

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)

Macromolecule Content 

• Total Structure Weight: 22.94 kDa 
• Atom Count: 1,412 
• Modeled Residue Count: 149 
• Deposited Residue Count: 202 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable transcriptional regulator	A, B	101	Vibrio vulnificus CMCP6	Mutation(s): 0  Gene Names: VV1_2191

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free:  0.223 (Depositor), 0.234 (DCC) 
• R-Value Work:  0.182 (Depositor), 0.196 (DCC) 
• R-Value Observed: 0.184 (Depositor) 

Diffraction Data: https://doi.org/10.18430/m34ghj

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.742	α = 90
b = 70.74	β = 90
c = 35.746	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
PHENIX	model building
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-08-15 
Deposition Author(s): Minasov, G., Shuvalova, L., Dubrovska, I., Winsor, J., Grimshaw, S., Papazisi, L., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2012-08-15
  Type: Initial release
  
• Version 1.1: 2017-11-15
  Changes: Refinement description
• Version 1.2: 2024-11-06
  Changes: Data collection, Database references, Derived calculations, Structure summary