1VQ3 | pdb_00001vq3

Crystal structure of Phosphoribosylformylglycinamidine synthase, purS subunit (EC 6.3.5.3) (TM1244) from Thermotoga maritima at 1.90 A resolution

PDB DOI: https://doi.org/10.2210/pdb1VQ3/pdb

Classification: LIGASE
Organism(s): Thermotoga maritima MSB8
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2004-12-15 Released: 2004-12-28
Deposition Author(s): Joint Center for Structural Genomics (JCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free:
0.234 (Depositor), 0.237 (DCC)
R-Value Work:
0.178 (Depositor), 0.189 (DCC)
R-Value Observed:
0.180 (Depositor)

Starting Model: experimental
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This is version 1.4 of the entry. See complete history.

Literature

Crystal structure of phosphoribosylformyl-glycinamidine synthase II, PurS subunit (TM1244) from Thermotoga maritima at 1.90 A resolution.

Mathews, I.I., Krishna, S.S., Schwarzenbacher, R., McMullan, D., Jaroszewski, L., Miller, M.D., Abdubek, P., Agarwalla, S., Ambing, E., Axelrod, H.L., Canaves, J.M., Carlton, D., Chiu, H.J., Clayton, T., DiDonato, M., Duan, L., Elsliger, M.A., Grzechnik, S.K., Hale, J., Hampton, E., Haugen, J., Jin, K.K., Klock, H.E., Koesema, E., Kovarik, J.S., Kreusch, A., Kuhn, P., Levin, I., Morse, A.T., Nigoghossian, E., Okach, L., Oommachen, S., Paulsen, J., Quijano, K., Reyes, R., Rife, C.L., Spraggon, G., Stevens, R.C., van den Bedem, H., White, A., Wolf, G., Xu, Q., Hodgson, K.O., Wooley, J., Deacon, A.M., Godzik, A., Lesley, S.A., Wilson, I.A.

(2006) Proteins 65: 249-254

PubMed: 16865708 Search on PubMed
DOI: https://doi.org/10.1002/prot.21024
Primary Citation Related Structures:
1VQ3

Organizational Affiliation

Stanford Synchrotron Radiation Laboratory, Stanford University, Menlo Park, California, USA.

Macromolecule Content

Total Structure Weight: 44.4 kDa
Atom Count: 3,090
Modeled Residue Count: 341
Deposited Residue Count: 376
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphoribosylformylglycinamidine synthase, purS subunit	A, B, C, D	94	Thermotoga maritima MSB8	Mutation(s): 0 Gene Names: TM1244 EC: 6.3.5.3
UniProt
Find proteins for Q9X0X1 (Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)) Explore Q9X0X1 Go to UniProtKB: Q9X0X1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9X0X1
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.234 (Depositor), 0.237 (DCC)
R-Value Work: 0.178 (Depositor), 0.189 (DCC)
R-Value Observed: 0.180 (Depositor)

Diffraction Data:

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.27	α = 90
b = 73.433	β = 90
c = 92.567	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
REFMAC	refinement
CCP4	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2004-12-28

Deposition Author(s):

Joint Center for Structural Genomics (JCSG)

Revision History (Full details and data files)

Version 1.0: 2004-12-28
Type: Initial release
Version 1.1: 2008-04-26
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Advisory, Derived calculations, Source and taxonomy, Version format compliance
Version 1.3: 2023-01-25
Changes: Database references
Version 1.4: 2023-09-20
Changes: Data collection, Refinement description