Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Dihedral - D2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content

• Total Structure Weight: 17625.67 
• Atom Count: 1178 
• Residue Count: 155 
• Unique protein chains: 1

1O1X

Crystal structure of a ribose 5-phosphate isomerase rpib (tm1080) from thermotoga maritima at 1.90 A resolution

• DOI: 10.2210/pdb1O1X/pdb

• Classification: ISOMERASE
• Organism(s): Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
• Expression System: Escherichia coli


• Deposited: 2003-02-12 Released: 2003-04-01 
• Deposition Author(s): Joint Center for Structural Genomics (JCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.9 Å
• R-Value Free: 0.138 
• R-Value Work: 0.117 

Literature

Crystal structure of a ribose-5-phosphate isomerase RpiB (TM1080) from Thermotoga maritima at 1.90 A resolution.

Xu, Q., Schwarzenbacher, R., McMullan, D., von Delft, F., Brinen, L.S., Canaves, J.M., Dai, X., Deacon, A.M., Elsliger, M.A., Eshagi, S., Floyd, R., Godzik, A., Grittini, C., Grzechnik, S.K., Jaroszewski, L., Karlak, C., Klock, H.E., Koesema, E., Kovarik, J.S., Kreusch, A., Kuhn, P., Lesley, S.A., Levin, I., McPhillips, T.M., Miller, M.D., Morse, A., Moy, K., Ouyang, J., Page, R., Quijano, K., Robb, A., Spraggon, G., Stevens, F., van den Bedem, H., Velasquez, J., Vincent, J., Wang, X., West, B., Wolf, G., Hodgson, K.O., Wooley, J., Wilson, I.A.

(2004) Proteins 56: 171-175

• PubMed: 15162497 
• DOI: 10.1002/prot.20129

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
ribose-5-phosphate isomerase RpiB	A	155	Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)	Mutation(s): 0
Find proteins for Q9X0G9 (Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)) Go to UniProtKB:  Q9X0G9

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
MPD	A	(4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N

Modified Residues  2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET
OCS	A	L-PEPTIDE LINKING	C3 H7 N O5 S		CYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.9 Å
• R-Value Free: 0.138 
• R-Value Work: 0.117 
• Space Group: I 2 2 2
• Diffraction Data DOI: 
  10.18430/M31O1X Protein Diffraction

Unit Cell:

Length (Å)	Angle (°)
a = 61.490	α = 90.00
b = 73.890	β = 90.00
c = 87.740	γ = 90.00

Software Package:

Software Name	Purpose
REFMAC	refinement
RESOLVE	model building
XFIT	data reduction
SOLVE	phasing
RESOLVE	phasing
CCP4	data scaling
SCALA	data scaling
CNS	refinement
MOSFLM	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2003-02-12 
• Released Date: 2003-04-01 
• Deposition Author(s): Joint Center for Structural Genomics (JCSG)

Revision History 

• Version 1.0: 2003-04-01
  Type: Initial release
• Version 1.1: 2008-04-26
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Advisory, Derived calculations, Version format compliance
• Version 1.3: 2017-10-04
  Type: Refinement description
• Version 1.4: 2018-07-18
  Type: Data collection, Database references
• Version 1.5: 2019-07-24
  Type: Data collection, Derived calculations, Refinement description