3OSJ | pdb_00003osj

X-Ray Structure of Phycobilisome LCM core-membrane linker polypeptide (fragment 254-400) from Synechocystis sp. PCC 6803, Northeast Structural Genomics Consortium Target SgR209C

• PDB DOI: https://doi.org/10.2210/pdb3OSJ/pdb

• Classification: PROTEIN BINDING
• Organism(s): Synechocystis sp. PCC 6803
• Mutation(s): No 


• Deposited: 2010-09-09 Released: 2010-10-06 
• Deposition Author(s): Kuzin, A., Su, M., Lew, S., Seetharaman, J., Sahdev, S., Xiao, R., Ciccosanti, C., Lee, D., Everett, J.K., Nair, R., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.228 (Depositor), 0.226 (DCC) 
• R-Value Work: 
  0.162 (Depositor), 0.159 (DCC) 
• R-Value Observed: 
  0.167 (Depositor) 

Literature

Northeast Structural Genomics Consortium Target SgR209C

Kuzin, A., Su, M., Lew, S., Seetharaman, J., Sahdev, S., Xiao, R., Ciccosanti, C., Lee, D., Everett, J.K., Nair, R., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Hunt, J.F.

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)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

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

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

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

Biological assembly 4 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 67.79 kDa 
• Atom Count: 4,871 
• Modeled Residue Count: 538 
• Deposited Residue Count: 588 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phycobilisome LCM core-membrane linker polypeptide	A, B, C, D	147	Synechocystis sp. PCC 6803	Mutation(s): 0  EC: 4
UniProt
Find proteins for Q55544 (Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa)) Explore Q55544  Go to UniProtKB:  Q55544

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NO3	L [auth D]	NITRATE ION N O3 NHNBFGGVMKEFGY-UHFFFAOYSA-N
NA	E [auth A], F [auth A], G [auth A], H [auth B], I [auth C], J [auth C], K [auth D]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

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: 2.30 Å
• R-Value Free:  0.228 (Depositor), 0.226 (DCC) 
• R-Value Work:  0.162 (Depositor), 0.159 (DCC) 
• R-Value Observed: 0.167 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.568	α = 90
b = 79.607	β = 95.5
c = 73.705	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
SCALEPACK	data scaling
SnB	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-10-06 
Deposition Author(s): Kuzin, A., Su, M., Lew, S., Seetharaman, J., Sahdev, S., Xiao, R., Ciccosanti, C., Lee, D., Everett, J.K., Nair, R., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2010-10-06
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2012-02-22
  Changes: Structure summary
• Version 1.3: 2017-11-08
  Changes: Refinement description
• Version 1.4: 2024-11-27
  Changes: Data collection, Database references, Derived calculations, Structure summary