Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Macromolecule Content

• Total Structure Weight: 58.92 kDa 
• Atom Count: 4572 
• Residue Count: 510 
• Unique protein chains: 2

1M2T

Mistletoe Lectin I from Viscum album in Complex with Adenine Monophosphate. Crystal Structure at 1.9 A Resolution

• DOI: 10.2210/pdb1M2T/pdb

• Classification: RIBOSOME INHIBITOR, HYDROLASE
• Organism(s): Viscum album
• Mutation(s): No 


• Deposited: 2002-06-25 Released: 2003-06-24 
• Deposition Author(s): Krauspenhaar, R., Rypniewski, W., Kalkura, N., Moore, K., DeLucas, L., Stoeva, S., Mikhailov, A., Voelter, W., Betzel, C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.89 Å
• R-Value Free: 0.240 
• R-Value Work: 0.210 
• R-Value Observed: 0.210 

Literature

Crystallisation under microgravity of mistletoe lectin I from Viscum album with adenine monophosphate and the crystal structure at 1.9 A resolution.

Krauspenhaar, R., Rypniewski, W., Kalkura, N., Moore, K., DeLucas, L., Stoeva, S., Mikhailov, A., Voelter, W., Betzel, C.h.

(2002) Acta Crystallogr D Biol Crystallogr 58: 1704-1707

• PubMed: 12351890 
• DOI: 10.1107/s0907444902014270
• Primary Citation of Related Structures:  
  1M2T


• PubMed Abstract: 
  

The crystal structure of the ribosome-inactivating protein (RIP) mistletoe lectin I (ML-I) from Viscum album in complex with adenine has been refined to 1.9 A resolution. High quality crystals of the ML-I complex were obtained by the method of vapour diffusion using the high density protein crystal growth system (HDPCG) on the international space station, mission ISS 6A. Hexagonal crystals were grown during three months under microgravity conditions. Diffraction data to 1.9A were collected applying synchrotron radiation and cryo- techniques. The structure was refined subsequently to analyse the structure of ML-I and particularly the active site conformation, complexed by adenine that mimics the RNA substrate binding.

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Organizational Affiliation: 

Institute of Medical Biochemistry and Molecular Biology, University Hospital, c/o DESY, Build 22a, Notkestr 85, 22603 Hamburg, Germany.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
mistletoe lectin I A chain	A	254	Viscum album	Mutation(s): 0  EC: 3.2.2.22
Find proteins for P81446 (Viscum album) Explore P81446  Go to UniProtKB:  P81446

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
mistletoe lectin I B chain	B	263	Viscum album	Mutation(s): 0  EC: 3.2.2.22
Find proteins for P81446 (Viscum album) Explore P81446  Go to UniProtKB:  P81446

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	A, B	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
FUC	A, B	alpha-L-fucopyranose C6 H12 O5 SHZGCJCMOBCMKK-SXUWKVJYSA-N
ADE	A	ADENINE C5 H5 N5 GFFGJBXGBJISGV-UHFFFAOYSA-N
GOL	A, B	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.89 Å
• R-Value Free: 0.240 
• R-Value Work: 0.210 
• R-Value Observed: 0.210 
• Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 107.12	α = 90
b = 107.12	β = 90
c = 309.82	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-06-25 
• Released Date: 2003-06-24 
Deposition Author(s): Krauspenhaar, R., Rypniewski, W., Kalkura, N., Moore, K., DeLucas, L., Stoeva, S., Mikhailov, A., Voelter, W., Betzel, C.

Revision History 

• Version 1.0: 2003-06-24
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.3: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Data collection, Database references, Derived calculations, Structure summary