1TZ7 | pdb_00001tz7

Aquifex aeolicus amylomaltase

PDB DOI: https://doi.org/10.2210/pdb1TZ7/pdb

Classification: TRANSFERASE
Organism(s): Aquifex aeolicus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2004-07-09 Released: 2005-08-02
Deposition Author(s): Barends, T.R.M., Korf, H., Kaper, T., van der Maarel, M.J.E.C., Dijkhuizen, L., Dijkstra, B.W.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.15 Å
R-Value Free:
0.243 (Depositor), 0.270 (DCC)
R-Value Work:
0.215 (Depositor), 0.258 (DCC)
R-Value Observed:
0.216 (Depositor)

Starting Model: other
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wwPDB Validation 3D Report Full Report

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This is version 1.4 of the entry. See complete history.

Literature

Structural influences on product specificity in amylomaltase from Aquifex aeolicus

Barends, T.R.M., Korf, H., Kaper, T., van der Maarel, M.J.E.C., Dijkhuizen, L., Dijkstra, B.W.

To be published.

Macromolecule Content

Total Structure Weight: 120.75 kDa
Atom Count: 8,508
Modeled Residue Count: 975
Deposited Residue Count: 1,010
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
4-alpha-glucanotransferase	A, B	505	Aquifex aeolicus	Mutation(s): 0 EC: 2.4.1.25
UniProt
Find proteins for O66937 (Aquifex aeolicus (strain VF5)) Explore O66937 Go to UniProtKB: O66937
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O66937
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MPD Query on MPD Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	(4S)-2-METHYL-2,4-PENTANEDIOL C₆ H₁₄ O₂ SVTBMSDMJJWYQN-YFKPBYRVSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.15 Å
R-Value Free: 0.243 (Depositor), 0.270 (DCC)
R-Value Work: 0.215 (Depositor), 0.258 (DCC)
R-Value Observed: 0.216 (Depositor)

Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 156.745	α = 90
b = 156.745	β = 90
c = 169.161	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2005-08-02

Deposition Author(s):

Barends, T.R.M.

van der Maarel, M.J.E.C.

Revision History (Full details and data files)

Version 1.0: 2005-08-02
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Derived calculations, Version format compliance
Version 1.3: 2024-03-13
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.4: 2024-04-03
Changes: Refinement description

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.