1X1K

Host-guest peptide (Pro-Pro-Gly)4-(Pro-alloHyp-Gly)-(Pro-Pro-Gly)4

• PDB DOI: https://doi.org/10.2210/pdb1X1K/pdb

• Classification: STRUCTURAL PROTEIN
• Organism(s): Saimiriine herpesvirus 2
• Mutation(s): No 


• Deposited: 2005-04-05 Released: 2005-06-14 
• Deposition Author(s): Jiravanichanun, N., Hongo, C., Wu, G., Noguchi, K., Okuyama, K., Nishino, N., Silva, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free: 0.232 
• R-Value Work: 0.170 

Literature

Unexpected puckering of hydroxyproline in the guest triplets, hyp-pro-gly and pro-allohyp-gly sandwiched between pro-pro-gly sequence

Jiravanichanun, N., Hongo, C., Wu, G., Noguchi, K., Okuyama, K., Nishino, N., Silva, T.

(2005) Chembiochem 6: 1184-1187

• PubMed: 15929160 
• DOI: https://doi.org/10.1002/cbic.200500055
• Primary Citation of Related Structures:  
  1X1K

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Organizational Affiliation: 

Faculty of Technology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8588, Japan. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 6-mer - A6 Local Symmetry: Helical - H  (Explore in 3D)
Local Stoichiometry: Homo 3-mer - A3 

Local Symmetry: Helical - H  (Explore in 3D)
Local Stoichiometry: Homo 3-mer - A3 

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

Macromolecule Content

• Total Structure Weight: 14.04 kDa 
• Atom Count: 1,276 
• Modelled Residue Count: 163 
• Deposited Residue Count: 165 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Host-guest peptide (Pro-Pro-Gly)4-(Pro-alloHyp-Gly)-(Pro-Pro-Gly)4	A, B, C, D, E	27	N/A	Mutation(s): 0
UniProt
Find proteins for Q80BK4 (Saimiriine herpesvirus 2) Explore Q80BK4  Go to UniProtKB:  Q80BK4

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Host-guest peptide (Pro-Pro-Gly)4-(Pro-alloHyp-Gly)-(Pro-Pro-Gly)4	F	30	N/A	Mutation(s): 0
UniProt
Find proteins for Q80BK4 (Saimiriine herpesvirus 2) Explore Q80BK4  Go to UniProtKB:  Q80BK4

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
HYP	A, B, C, D, E	L-PEPTIDE LINKING	C5 H9 N O3		PRO

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free: 0.232 
• R-Value Work: 0.170 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 26.445	α = 90
b = 26.039	β = 89.98
c = 80.309	γ = 90

Software Package:

Software Name	Purpose
SHELX	model building
SHELXL-97	refinement
CrystalClear	data reduction
CrystalClear	data scaling
SHELX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-06-14 
Deposition Author(s): Jiravanichanun, N., Hongo, C., Wu, G., Noguchi, K., Okuyama, K., Nishino, N., Silva, T.

Revision History  

• Version 1.0: 2005-06-14
  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: 2023-10-25
  Changes: Data collection, Database references, Derived calculations, Refinement description