1PWD	Hydrolase Antibiotic	date	Jul 01, 2003
title	Covalent Acyl Enzyme Complex Of The Streptomyces R61 Dd-Pept Cephalosporin C
authors	N.R.Silvaggi, H.R.Josephine, R.F.Pratt, J.A.Kelly
compound		source
Molecule: D-Alanyl-D-Alanine Carboxypeptidase Precursor Chain: A Fragment: Dd-Peptidase Synonym: Dd-Peptidase, Dd-Carboxypeptidase Ec: 3.4.16.4		Organism_scientific: Streptomyces Sp. Organism_taxid: 31952 Strain: R61
symmetry	Space Group: P 21 21 21	R_factor R_Free
crystal cell	length a length b length c angle alpha angle beta angle gamma 51.000 67.000 100.000 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.20 Å
ligand	0MU	enzyme	Hydrolase E.C.3.4.16.4 BRENDA
related structures	by homologous chain: 1IKI, 1PW1
Gene Ontology	Chain Function Process Component A
Primary reference	Crystal structures of complexes between the R61 DD-peptidase and peptidoglycan-mimetic beta-lactams: a non-covalent complex with a "perfect penicillin"., Silvaggi NR, Josephine HR, Kuzin AP, Nagarajan R, Pratt RF, Kelly JA, J Mol Biol 2005 Jan 21;345(3):521-33. PMID:15581896

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (127 Kb) [Save to disk] Biological Unit Coordinates (1pwd.pdb1.gz) 123 Kb LPC: Ligand-Protein Contacts for 1PWD CSU: Contacts of Structural Units for 1PWD Likely Quarternary Molecular Structure file(s) for 1PWD Structure Factors (775 Kb) Retrieve 1PWD in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1PWD from S2C, [Save to disk] Re-refined 1pwd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1PWD 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 1PWD

Ramachandran plot from PDBSum

Structure-derived information

Conformational Epitope Prediction for 1PWD from the CEP Server. Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1PWD, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1pwda_, region A [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: [1pwd_A] [1pwd] SWISS-PROT database: [P15555] Domain organization of [DAC_STRSR] by SWISSPFAM

Other resources with information on 1PWD

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

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