4HVM | pdb_00004hvm

Crystal structure of tallysomycin biosynthesis protein TlmII

• PDB DOI: https://doi.org/10.2210/pdb4HVM/pdb

• Classification: BIOSYNTHETIC PROTEIN
• Organism(s): Streptoalloteichus hindustanus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-11-06 Released: 2012-11-21 
• Deposition Author(s): Chang, C., Bigelow, L., Bearden, J., Babnigg, G., Bingman, C.A., Yennamalli, R., Lohman, J., Ma, M., Shen, B., Phillips Jr., G.N., Joachimiak, A., Midwest Center for Structural Genomics (MCSG), Enzyme Discovery for Natural Product Biosynthesis (NatPro)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 
  0.232 (Depositor), 0.246 (DCC) 
• R-Value Work: 
  0.182 (Depositor), 0.195 (DCC) 
• R-Value Observed: 
  0.184 (Depositor) 

Literature

Crystal structure of tallysomycin biosynthesis protein TlmII

Chang, C., Bigelow, L., Bearden, J., Babnigg, G., Bingman, C.A., Yennamalli, R., Lohman, J., Ma, M., Shen, B., Phillips Jr., G.N., Joachimiak, A.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Biological Assembly 4  

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

Biological assembly 4 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 216.85 kDa 
• Atom Count: 12,790 
• Modeled Residue Count: 1,627 
• Deposited Residue Count: 1,972 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TlmII	A, B, C, D	493	Streptoalloteichus hindustanus	Mutation(s): 0  Gene Names: tlmII
UniProt
Find proteins for A4KUC0 (Streptoalloteichus hindustanus) Explore A4KUC0  Go to UniProtKB:  A4KUC0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	E [auth A], F [auth A], G [auth B], H [auth D]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free:  0.232 (Depositor), 0.246 (DCC) 
• R-Value Work:  0.182 (Depositor), 0.195 (DCC) 
• R-Value Observed: 0.184 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 123.799	α = 90
b = 128.015	β = 90
c = 129.307	γ = 90

Software Package:

Software Name	Purpose
SBC-Collect	data collection
HKL-3000	phasing
MLPHARE	phasing
DM	model building
SHELXDE	phasing
RESOLVE	model building
ARP/wARP	model building
COO	model building
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
DM	phasing
RESOLVE	phasing
COO	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-11-21 
Deposition Author(s): Chang, C., Bigelow, L., Bearden, J., Babnigg, G., Bingman, C.A., Yennamalli, R., Lohman, J., Ma, M., Shen, B., Phillips Jr., G.N., Joachimiak, A., Midwest Center for Structural Genomics (MCSG), Enzyme Discovery for Natural Product Biosynthesis (NatPro)

Revision History  

• Version 1.0: 2012-11-21
  Type: Initial release
  
• Version 1.1: 2013-09-18
  Changes: Structure summary
• Version 1.2: 2014-04-16
  Changes: Experimental preparation
• Version 1.3: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Structure summary