1UP4	Hydrolase	date	Sep 26, 2003
title	Structure Of The 6-Phospho-Beta Glucosidase From Thermotoga Maritima At 2.85 Angstrom Resolution In The Monoclinic Form
authors	A.Varrot, V.L.Yip, S.G.Withers, G.J.Davies
compound		source
Molecule: 6-Phospho-Beta-Glucosidase Chain: A, B, C, D, E, F, G, H Ec: 3.2.1.6 Engineered: Yes		Organism_scientific: Thermotoga Maritima Organism_taxid: 243274 Strain: Msb8 Atcc: 43589 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: B834 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet16b Other_details: Synthetic Gene
symmetry	Space Group: P 1 21 1	R_factor 0.196 R_Free 0.235
crystal cell	length a length b length c angle alpha angle beta angle gamma 99.048 188.315 125.628 90.00 104.52 90.00
method	X-Ray Diffraction	resolution	2.85 Å
ligand	MSE	enzyme	Hydrolase E.C.3.2.1.6 BRENDA
related structures	by homologous chain: 1UP6
Gene Ontology	Chain Function Process Component F, A, E, B, H, C, D, G
Primary reference	NAD+ and metal-ion dependent hydrolysis by family 4 glycosidases: structural insight into specificity for phospho-beta-D-glucosides., Varrot A, Yip VL, Li Y, Rajan SS, Yang X, Anderson WF, Thompson J, Withers SG, Davies GJ, J Mol Biol. 2005 Feb 18;346(2):423-35. Epub 2005 Jan 7. PMID:15670594

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (532 Kb) [Save to disk] Biological Unit Coordinates (1up4.pdb1.gz) 265 Kb Biological Unit Coordinates (1up4.pdb2.gz) 263 Kb LPC: Ligand-Protein Contacts for 1UP4 CSU: Contacts of Structural Units for 1UP4 Likely Quarternary Molecular Structure file(s) for 1UP4 Structure Factors (2449 Kb) Retrieve 1UP4 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1UP4 from S2C, [Save to disk] Re-refined 1up4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1UP4 in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 1UP4

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1UP4, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1up4a1, region A:1-162 [Jmol] [rasmolscript] [script source]     - Domain d1up4a2, region A:163-415 [Jmol] [rasmolscript] [script source]     - Domain d1up4b1, region B:1-162 [Jmol] [rasmolscript] [script source]     - Domain d1up4b2, region B:163-415 [Jmol] [rasmolscript] [script source]     - Domain d1up4c1, region C:1-162 [Jmol] [rasmolscript] [script source]     - Domain d1up4c2, region C:163-415 [Jmol] [rasmolscript] [script source]     - Domain d1up4d1, region D:1-162 [Jmol] [rasmolscript] [script source]     - Domain d1up4d2, region D:163-415 [Jmol] [rasmolscript] [script source]     - Domain d1up4e1, region E:1-162 [Jmol] [rasmolscript] [script source]     - Domain d1up4e2, region E:163-415 [Jmol] [rasmolscript] [script source]     - Domain d1up4f1, region F:1-162 [Jmol] [rasmolscript] [script source]     - Domain d1up4f2, region F:163-415 [Jmol] [rasmolscript] [script source]     - Domain d1up4g1, region G:1-162 [Jmol] [rasmolscript] [script source]     - Domain d1up4g2, region G:163-415 [Jmol] [rasmolscript] [script source]     - Domain d1up4h1, region H:1-162 [Jmol] [rasmolscript] [script source]     - Domain d1up4h2, region H:163-415 [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1up4] [1up4_A] [1up4_E] [1up4_B] [1up4_D] [1up4_F] [1up4_C] [1up4_G] [1up4_H] SWISS-PROT database: [Q9X108] Domain organization of [BGLT_THEMA] by SWISSPFAM

Other resources with information on 1UP4

Community annotation for 1UP4 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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