1VKB | pdb_00001vkb

Crystal structure of an aig2-like protein (a2ld1, ggact, mgc7867) from mus musculus at 1.90 A resolution

• PDB DOI: https://doi.org/10.2210/pdb1VKB/pdb

• Classification: TRANSFERASE
• Organism(s): Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2004-05-07 Released: 2004-05-18 
• Deposition Author(s): Joint Center for Structural Genomics (JCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.171 (Depositor), 0.175 (DCC) 
• R-Value Work: 
  0.134 (Depositor), 0.147 (DCC) 
• R-Value Observed: 
  0.136 (Depositor) 

Literature

Crystal structure of a conserved hypothetical protein (gi: 13879369) from Mouse at 1.90 A resolution reveals a new fold.

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

(2005) Proteins 61: 1132-1136

• PubMed: 16224779 
• DOI: https://doi.org/10.1002/prot.20610
• Primary Citation Related Structures: 
  1VKB

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Organizational Affiliation: 
• The Joint Center for Structural Genomics, Calirornia, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 18.7 kDa 
• Atom Count: 1,329 
• Modeled Residue Count: 148 
• Deposited Residue Count: 161 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
hypothetical protein	A	161	Mus musculus	Mutation(s): 0  EC: 4.3.2.8
UniProt
Find proteins for Q923B0 (Mus musculus) Explore Q923B0  Go to UniProtKB:  Q923B0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FMT	B [auth A], C [auth A], D [auth A]	FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.171 (Depositor), 0.175 (DCC) 
• R-Value Work:  0.134 (Depositor), 0.147 (DCC) 
• R-Value Observed: 0.136 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M31VKB

Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.745	α = 90
b = 85.745	β = 90
c = 42.858	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHELX	model building
autoSHARP	phasing
SOLOMON	phasing
REFMAC	refinement
SHELX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-05-18 
Deposition Author(s): Joint Center for Structural Genomics (JCSG)

Revision History  

• Version 1.0: 2004-05-18
  Type: Initial release
  
• Version 1.1: 2008-04-26
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.3: 2017-10-04
  Changes: Refinement description
• Version 1.4: 2023-01-25
  Changes: Database references, Derived calculations
• Version 1.5: 2024-10-30
  Changes: Data collection, Structure summary