2RID	Sugar Binding Protein	date	Oct 10, 2007
title	Crystal Structure Of The Trimeric Neck And Carbohydrate Reco Domain Of Human Surfactant Protein D In Complex With Allyl Carbamoyl-L-Glycero-D-Manno-Heptopyranoside
authors	H.Wang, J.Head, P.Kosma, S.Sheikh, B.Mcdonald, K.Smith, T.Cafarell B.Seaton, E.Crouch
compound		source
Molecule: Pulmonary Surfactant-Associated Protein D Chain: A, B, C Fragment: Neck And Carbohydrate Recognition Domain Synonym: Sp-D; Psp-D; Lung Surfactant Protein D Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Sftpd, Pspd, Sftp4 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Rosettablue Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet30a(+)
symmetry	Space Group: P 1 21 1	R_factor 0.205 R_Free 0.232
crystal cell	length a length b length c angle alpha angle beta angle gamma 55.603 108.615 55.628 90.00 90.91 90.00
method	X-Ray Diffraction	resolution	1.80 Å
ligand	291, CA	enzyme
Primary reference	Recognition of Heptoses and the Inner Core of Bacterial Lipopolysaccharides by Surfactant Protein D., Wang H, Head J, Kosma P, Brade H, Muller-Loennies S, Sheikh S, McDonald B, Smith K, Cafarella T, Seaton B, Crouch E, Biochemistry. 2008 Jan 15;47(2):710-720. Epub 2007 Dec 20. PMID:18092821

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (83 Kb) [Save to disk] Biological Unit Coordinates (2rid.pdb1.gz) 77 Kb LPC: Ligand-Protein Contacts for 2RID CSU: Contacts of Structural Units for 2RID Likely Quarternary Molecular Structure file(s) for 2RID Structure Factors (875 Kb) Retrieve 2RID in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2RID from S2C, [Save to disk] Re-refined 2rid structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2RID 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 2RID

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 2RID, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2rid_B] [2rid_A] [2rid_C] [2rid] SWISS-PROT database: [P35247] Domain organization of [SFTPD_HUMAN] by SWISSPFAM Domain found in 2RID: [CLECT ] by SMART

Other resources with information on 2RID

Community annotation for 2RID at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---