112M Oxygen Transport date Dec 24, 1997
title Sperm Whale Myoglobin D122n N-Propyl Isocyanide At Ph 9.0
authors R.D.Smith, J.S.Olson, G.N.Phillips Jr.
compound source
Molecule: Myoglobin
Chain: A
Engineered: Yes
Mutation: Yes
Organism_scientific: Physeter Catodon
Organism_common: Sperm Whale
Organism_taxid: 9755
Organ: Skeletal
Tissue: Skeletal Muscle
Cellular_location: Cytoplasm
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Phage Resistant Tb1
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pembl 19+
symmetry Space Group: P 6
R_factor 0.155 R_Free 0.237
crystal
cell
length a length b length c angle alpha angle beta angle gamma
91.420 91.420 45.580 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.34 Å
ligand HEM, NPN, SO4 enzyme
related structures by homologous chain: 1MNH, 1PMB
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (33 Kb) [Save to disk]
  • Biological Unit Coordinates (112m.pdb1.gz) 29 Kb
  • LPC: Ligand-Protein Contacts for 112M
  • CSU: Contacts of Structural Units for 112M
  • Likely Quarternary Molecular Structure file(s) for 112M
  • Structure Factors (46 Kb)
  • Retrieve 112M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 112M from S2C, [Save to disk]
  • Re-refined 112m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 112M 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 112M
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 112M, from MSDmotif at EBI
  • Genome occurence of 112M's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d112m__, region [Jmol] [rasmolscript] [script source]
  • Fold representative 112m from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [112m] [112m_A]
  • SWISS-PROT database: [P02185]
  • Domain organization of [MYG_PHYCA] by SWISSPFAM
  • Other resources with information on 112M
  • Community annotation for 112M at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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