Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Global Symmetry: Dihedral - D3  (3D View)
Global Stoichiometry: Homo 6-mer - A6 

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

Macromolecule Content

• Total Structure Weight: 62.35 kDa 
• Atom Count: 4719 
• Modelled Residue Count: 552 
• Deposited Residue Count: 558 
• Unique protein chains: 3

1WAA

IG27 protein domain

• DOI: 10.2210/pdb1WAA/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2004-10-25 Released: 2006-07-05 
• Deposition Author(s): Vega, M.C., Valencia, L., Zou, P., Wilmanns, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.268 
• R-Value Work: 0.207 
• R-Value Observed: 0.211 

Literature

Mechanical Network in Titin Immunoglobulin from Force Distribution Analysis.

Stacklies, W., Vega, M.C., Wilmanns, M., Grater, F.

(2009) PLoS Comput Biol 5: 00306

• PubMed: 19282960 
• DOI: 10.1371/journal.pcbi.1000306
• Primary Citation of Related Structures:  
  1WAA


• PubMed Abstract: 
  

The role of mechanical force in cellular processes is increasingly revealed by single molecule experiments and simulations of force-induced transitions in proteins. How the applied force propagates within proteins determines their mechanical behavior yet remains largely unknown. We present a new method based on molecular dynamics simulations to disclose the distribution of strain in protein structures, here for the newly determined high-resolution crystal structure of I27, a titin immunoglobulin (IG) domain. We obtain a sparse, spatially connected, and highly anisotropic mechanical network. This allows us to detect load-bearing motifs composed of interstrand hydrogen bonds and hydrophobic core interactions, including parts distal to the site to which force was applied. The role of the force distribution pattern for mechanical stability is tested by in silico unfolding of I27 mutants. We then compare the observed force pattern to the sparse network of coevolved residues found in this family. We find a remarkable overlap, suggesting the force distribution to reflect constraints for the evolutionary design of mechanical resistance in the IG family. The force distribution analysis provides a molecular interpretation of coevolution and opens the road to the study of the mechanism of signal propagation in proteins in general.

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Organizational Affiliation: 

CAS-MPG Partner Institute for Computational Biology, Shanghai, People's Republic of China.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TITIN	A, B, C, D	93	Homo sapiens	Mutation(s): 0  Gene Names: TTN EC: 2.7.1 (PDB Primary Data), 2.7.11.1 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q8WZ42 (Homo sapiens) Explore Q8WZ42  Go to UniProtKB:  Q8WZ42
PHAROS:  Q8WZ42 GTEx:  ENSG00000155657

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
TITIN	E	93	Homo sapiens	Mutation(s): 0  Gene Names: TTN EC: 2.7.1 (PDB Primary Data), 2.7.11.1 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q8WZ42 (Homo sapiens) Explore Q8WZ42  Go to UniProtKB:  Q8WZ42
PHAROS:  Q8WZ42 GTEx:  ENSG00000155657

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
TITIN	F	93	Homo sapiens	Mutation(s): 0  Gene Names: TTN EC: 2.7.1 (PDB Primary Data), 2.7.11.1 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q8WZ42 (Homo sapiens) Explore Q8WZ42  Go to UniProtKB:  Q8WZ42
PHAROS:  Q8WZ42 GTEx:  ENSG00000155657

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	AA [auth E],  BA [auth F],  CA [auth F],  DA [auth F],  G [auth A],  H [auth A],  I [auth A],  J [auth A],  K [auth A],  L [auth B],  M [auth B],  N [auth B],  O [auth B],  P [auth B],  Q [auth C],  R [auth C],  S [auth C],  T [auth C],  U [auth C],  V [auth D],  W [auth D],  X [auth D],  Y [auth E],  Z [auth E]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.268 
• R-Value Work: 0.207 
• R-Value Observed: 0.211 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.24	α = 90
b = 75.99	β = 90
c = 134.22	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-10-25 
• Released Date: 2006-07-05 
Deposition Author(s): Vega, M.C., Valencia, L., Zou, P., Wilmanns, M.

Revision History  

• Version 1.0: 2006-07-05
  Type: Initial release
  
• Version 1.1: 2011-12-28
  Changes: Database references, Derived calculations, Non-polymer description, Other, Refinement description, Version format compliance
• Version 1.2: 2019-07-24
  Changes: Advisory, Data collection