1DBX	Hydrolase	date	Nov 03, 1999
title	Crystal Structure Of Cysteinyl-Trna(Pro) Deacylase From H. I (Hi1434)
authors	H.Zhang, K.Huang, Z.Li, O.Herzberg, Structure 2 Function Project
compound		source
Molecule: Cysteinyl-Trna(Pro) Deacylase Chain: A, B Synonym: Hi1434 Engineered: Yes		Organism_scientific: Haemophilus Influenzae Organism_taxid: 727 Gene: Ybak Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: B834 Expression_system_vector: Ycyb2 Other_details: Impact I System From New England Biolabs
symmetry	Space Group: P 1	R_factor 0.183 R_Free 0.259
crystal cell	length a length b length c angle alpha angle beta angle gamma 32.560 42.210 54.160 109.07 100.32 90.62
method	X-Ray Diffraction	resolution	1.80 Å
ligand	MSE	enzyme
related structures	by homologous chain: 1DBU
Gene Ontology	Chain Function Process Component A, B aminoacyl-tRNA editing activ... Ala-tRNA(Pro) hydrolase acti...
Primary reference	Crystal structure of YbaK protein from Haemophilus influenzae (HI1434) at 1.8 A resolution: functional implications., Zhang H, Huang K, Li Z, Banerjei L, Fisher KE, Grishin NV, Eisenstein E, Herzberg O, Proteins 2000 Jul 1;40(1):86-97. PMID:10813833

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (57 Kb) [Save to disk] Biological Unit Coordinates (1dbx.pdb1.gz) 28 Kb Biological Unit Coordinates (1dbx.pdb2.gz) 27 Kb LPC: Ligand-Protein Contacts for 1DBX CSU: Contacts of Structural Units for 1DBX Likely Quarternary Molecular Structure file(s) for 1DBX Retrieve 1DBX in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1DBX from S2C, [Save to disk]

View 1DBX 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 1DBX

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1DBX, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1dbxa_, region A [Jmol] [rasmolscript] [script source]     - Domain d1dbxb_, region B [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: [1dbx_A] [1dbx] [1dbx_B] SWISS-PROT database: [P45202] Domain organization of [YBAK_HAEIN] by SWISSPFAM

Other resources with information on 1DBX

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

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