6D1U Peptide Binding Protein date Apr 12, 2018
title Crystal Structure Of The Human Clr:Ramp1 Extracellular Domai Heterodimer In Complex With Adrenomedullin 2intermedin
authors A.Pioszak, A.Roehrkasse
compound source
Molecule: Maltose-Binding Periplasmic Protein,Receptor Acti Modifying Protein 1,Calcitonin Gene-Related Peptide Type 1
Chain: A, B, C
Synonym: Mbp,Mmbp,Maltodextrin-Binding Protein,Calcitonin-R Like Receptor Activity-Modifying Protein 1,Crlr Activity-Mo Protein 1,Cgrp Type 1 Receptor,Calcitonin Receptor-Like Rec
Engineered: Yes
Organism_scientific: Escherichia Coli O157:H7, Homo Sapiens
Organism_common: Human
Organism_taxid: 83334, 9606
Gene: Male, Z5632, Ecs5017, Ramp1, Calcrl, Cgrpr
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Adm2
Chain: D, E, F
Fragment: Residues 129-147
Synonym: Intermedin
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: C 1 2 1
R_factor 0.194 R_Free 0.223
crystal
cell
length a length b length c angle alpha angle beta angle gamma
172.295 106.041 136.911 90.00 122.53 90.00
method X-Ray Diffractionresolution 2.05 Å
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Primary referenceStructure-function analyses reveal a triple beta-turn receptor-bound conformation of adrenomedullin 2/intermedin and enable peptide antagonist design., Roehrkasse AM, Booe JM, Lee SM, Warner ML, Pioszak AA, J Biol Chem. 2018 Aug 23. pii: RA118.005062. doi: 10.1074/jbc.RA118.005062. PMID:30139742
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (598 Kb) [Save to disk]
  • Biological Unit Coordinates (6d1u.pdb1.gz) 198 Kb
  • Biological Unit Coordinates (6d1u.pdb2.gz) 197 Kb
  • Biological Unit Coordinates (6d1u.pdb3.gz) 203 Kb
  • CSU: Contacts of Structural Units for 6D1U
  • Structure Factors (3518 Kb)
  • Retrieve 6D1U in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6D1U from S2C, [Save to disk]
  • View 6D1U 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 6D1U
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6d1u from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6d1u_E] [6d1u_A] [6d1u_C] [6d1u_B] [6d1u_D] [6d1u_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6D1U
  • Community annotation for 6D1U at PDBWiki (http://pdbwiki.org)

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