4ISC | pdb_00004isc

Crystal structure of a putative Methyltransferase from Pseudomonas syringae

• PDB DOI: https://doi.org/10.2210/pdb4ISC/pdb

• Classification: TRANSFERASE
• Organism(s): Pseudomonas syringae pv. tomato str. DC3000
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2013-01-16 Released: 2013-02-20 
• Deposition Author(s): Filippova, E.V., Wawrzak, Z., Minasov, G., Shuvalova, L., Kiryukhina, O., Clancy, S., Joachimiak, A., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.78 Å
• R-Value Free: 
  0.277 (Depositor), 0.273 (DCC) 
• R-Value Work: 
  0.190 (Depositor), 0.194 (DCC) 
• R-Value Observed: 
  0.194 (Depositor) 

Literature

Crystal structure of a putative Methyltransferase from Pseudomonas syringae

Filippova, E.V., Wawrzak, Z., Minasov, G., Shuvalova, L., Kiryukhina, O., Clancy, S., Joachimiak, A., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

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: 18.9 kDa 
• Atom Count: 1,290 
• Modeled Residue Count: 156 
• Deposited Residue Count: 164 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Methyltransferase	A	164	Pseudomonas syringae pv. tomato str. DC3000	Mutation(s): 0
UniProt
Find proteins for Q880M1 (Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000)) Explore Q880M1  Go to UniProtKB:  Q880M1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BME	B [auth A]	BETA-MERCAPTOETHANOL C2 H6 O S DGVVWUTYPXICAM-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.78 Å
• R-Value Free:  0.277 (Depositor), 0.273 (DCC) 
• R-Value Work:  0.190 (Depositor), 0.194 (DCC) 
• R-Value Observed: 0.194 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M34ISC

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.46	α = 90
b = 43.46	β = 90
c = 181.29	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
PHENIX	model building
REFMAC	refinement
XDS	data reduction
XDS	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-02-20 
Deposition Author(s): Filippova, E.V., Wawrzak, Z., Minasov, G., Shuvalova, L., Kiryukhina, O., Clancy, S., Joachimiak, A., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2013-02-20
  Type: Initial release
  
• Version 1.1: 2017-11-15
  Changes: Refinement description
• Version 1.2: 2018-01-24
  Changes: Database references
• Version 1.3: 2025-03-26
  Changes: Data collection, Database references, Derived calculations, Structure summary