1JI1	Hydrolase	date	Jun 28, 2001
title	Crystal Structure Analysis Of Thermoactinomyces Vulgaris R-4 Amylase 1
authors	S.Kamitori, A.Abe, A.Ohtaki, A.Kaji, T.Tonozuka, Y.Sakano
compound		source
Molecule: Alpha-Amylase I Chain: A, B Ec: 3.2.1.1 Engineered: Yes		Organism_scientific: Thermoactinomyces Vulgaris Organism_taxid: 2026 Strain: R-47 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 1 21 1	R_factor 0.182 R_Free 0.206
crystal cell	length a length b length c angle alpha angle beta angle gamma 122.570 50.840 107.800 90.00 104.20 90.00
method	X-Ray Diffraction	resolution	1.60 Å
ligand	CA	enzyme	Hydrolase E.C.3.2.1.1 BRENDA
related structures	by homologous chain: 1UH4
Gene Ontology	Chain Function Process Component A, B
Primary reference	Crystal structures and structural comparison of Thermoactinomyces vulgaris R-47 alpha-amylase 1 (TVAI) at 1.6 A resolution and alpha-amylase 2 (TVAII) at 2.3 A resolution., Kamitori S, Abe A, Ohtaki A, Kaji A, Tonozuka T, Sakano Y, J Mol Biol 2002 Apr 26;318(2):443-53. PMID:12051850

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (235 Kb) [Save to disk] Biological Unit Coordinates (1ji1.pdb1.gz) 116 Kb Biological Unit Coordinates (1ji1.pdb2.gz) 118 Kb LPC: Ligand-Protein Contacts for 1JI1 CSU: Contacts of Structural Units for 1JI1 Likely Quarternary Molecular Structure file(s) for 1JI1 Structure Factors (1346 Kb) Retrieve 1JI1 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1JI1 from S2C, [Save to disk] Re-refined 1ji1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1JI1 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 1JI1

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 1JI1, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1ji1a1, region A:1-122 [Jmol] [rasmolscript] [script source]     - Domain d1ji1a3, region A:123-554 [Jmol] [rasmolscript] [script source]     - Domain d1ji1a2, region A:555-637 [Jmol] [rasmolscript] [script source]     - Domain d1ji1b1, region B:1-122 [Jmol] [rasmolscript] [script source]     - Domain d1ji1b3, region B:123-554 [Jmol] [rasmolscript] [script source]     - Domain d1ji1b2, region B:555-637 [Jmol] [rasmolscript] [script source]     - Domain d1q1ji1, region I:1-113 [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1ji1_B] [1ji1_A] [1ji1] SWISS-PROT database: [Q60053] Domain organization of [NEPU1_THEVU] by SWISSPFAM Domains found in 1JI1: [Aamy] [Aamy_C ] by SMART

Other resources with information on 1JI1

Community annotation for 1JI1 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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