1Y80

Structure of a corrinoid (factor IIIm)-binding protein from Moorella thermoacetica

• PDB DOI: https://doi.org/10.2210/pdb1Y80/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Moorella thermoacetica
• Mutation(s): No 


• Deposited: 2004-12-10 Released: 2005-01-25 
• Deposition Author(s): Liu, Z.-J., Fu, Z.-Q., Tempel, W., Das, A., Habel, J., Zhou, W., Chang, J., Chen, L., Lee, D., Nguyen, D., Chang, S.-H., Ljungdahl, L., Rose, J.P., Wang, B.-C., Southeast Collaboratory for Structural Genomics (SECSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.210 
• R-Value Work: 0.174 
• R-Value Observed: 0.176 

Literature

Structure of a corrinoid (factor IIIm)-binding protein from Moorella thermoacetica

Liu, Z.-J., Fu, Z.-Q., Tempel, W., Das, A., Habel, J., Zhou, W., Chang, J., Chen, L., Lee, D., Nguyen, D., Chang, S.-H., Ljungdahl, L., Rose, J.P., Wang, B.-C.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 23.68 kDa 
• Atom Count: 1,087 
• Modelled Residue Count: 125 
• Deposited Residue Count: 210 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Predicted cobalamin binding protein	A	210	Moorella thermoacetica	Mutation(s): 0  EC: 2.1.1.13
UniProt
Find proteins for Q2RJ67 (Moorella thermoacetica (strain ATCC 39073 / JCM 9320)) Explore Q2RJ67  Go to UniProtKB:  Q2RJ67

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
B1M	B [auth A]	CO-5-METHOXYBENZIMIDAZOLYLCOBAMIDE C61 H86 Co N13 O15 P CJVUSTVYODMZMZ-VSTXFNHGSA-N
UNX	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A]	UNKNOWN ATOM OR ION X

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.210 
• R-Value Work: 0.174 
• R-Value Observed: 0.176 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.689	α = 90
b = 62.738	β = 90
c = 34.543	γ = 90

Software Package:

Software Name	Purpose
SOLVE	phasing
RESOLVE	phasing
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345	data collection
SHELXD	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-01-25 
Deposition Author(s): Liu, Z.-J., Fu, Z.-Q., Tempel, W., Das, A., Habel, J., Zhou, W., Chang, J., Chen, L., Lee, D., Nguyen, D., Chang, S.-H., Ljungdahl, L., Rose, J.P., Wang, B.-C., Southeast Collaboratory for Structural Genomics (SECSG)

Revision History  

• Version 1.0: 2005-01-25
  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: 2012-07-25
  Changes: Other
• Version 1.4: 2017-10-11
  Changes: Refinement description
• Version 1.5: 2024-02-14
  Changes: Data collection, Database references, Derived calculations