1DU3	Apoptosis	date	Jan 14, 2000
title	Crystal Structure Of Trail-Sdr5
authors	S.S.Cha, B.J.Sung, B.H.Oh
compound		source
Molecule: Death Receptor 5 Chain: A, B, C, G, H, I Fragment: Extracellular Domain Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Tnf-Related Apoptosis Inducing Ligand Chain: D, E, F, J, K, L Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Bacteria Expression_system_common: Eubacteria Expression_system_taxid: 2
symmetry	Space Group: P 1 21 1	R_factor 0.291 R_Free 0.291
crystal cell	length a length b length c angle alpha angle beta angle gamma 68.630 124.810 128.370 90.00 104.49 90.00
method	X-Ray Diffraction	resolution	2.20 Å
ligand	ZN	enzyme
related structures	by homologous chain: 1D0G, 1D4V
Gene Ontology	Chain Function Process Component A, B, H, C, I, G F, J, K, E, D, L
Primary reference	Crystal structure of TRAIL-DR5 complex identifies a critical role of the unique frame insertion in conferring recognition specificity., Cha SS, Sung BJ, Kim YA, Song YL, Kim HJ, Kim S, Lee MS, Oh BH, J Biol Chem 2000 Oct 6;275(40):31171-7. PMID:10893238

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (253 Kb) [Save to disk] Biological Unit Coordinates (1du3.pdb1.gz) 124 Kb Biological Unit Coordinates (1du3.pdb2.gz) 125 Kb LPC: Ligand-Protein Contacts for 1DU3 CSU: Contacts of Structural Units for 1DU3 Likely Quarternary Molecular Structure file(s) for 1DU3 Retrieve 1DU3 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1DU3 from S2C, [Save to disk]

View 1DU3 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 1DU3

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1DU3, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1du3a3, region A:102-123 [Jmol] [rasmolscript] [script source]     - Domain d1du3a1, region A:21-61 [Jmol] [rasmolscript] [script source]     - Domain d1du3a2, region A:62-101 [Jmol] [rasmolscript] [script source]     - Domain d1du3b3, region B:102-130 [Jmol] [rasmolscript] [script source]     - Domain d1du3b1, region B:21-61 [Jmol] [rasmolscript] [script source]     - Domain d1du3b2, region B:62-101 [Jmol] [rasmolscript] [script source]     - Domain d1du3c3, region C:102-123 [Jmol] [rasmolscript] [script source]     - Domain d1du3c1, region C:21-61 [Jmol] [rasmolscript] [script source]     - Domain d1du3c2, region C:62-101 [Jmol] [rasmolscript] [script source]     - Domain d1du3d_, region D [Jmol] [rasmolscript] [script source]     - Domain d1du3e_, region E [Jmol] [rasmolscript] [script source]     - Domain d1du3f_, region F [Jmol] [rasmolscript] [script source]     - Domain d1du3g3, region G:102-128 [Jmol] [rasmolscript] [script source]     - Domain d1du3g1, region G:21-61 [Jmol] [rasmolscript] [script source]     - Domain d1du3g2, region G:62-101 [Jmol] [rasmolscript] [script source]     - Domain d1du3h3, region H:102-123 [Jmol] [rasmolscript] [script source]     - Domain d1du3h1, region H:21-61 [Jmol] [rasmolscript] [script source]     - Domain d1du3h2, region H:62-101 [Jmol] [rasmolscript] [script source]     - Domain d1du3i3, region I:102-123 [Jmol] [rasmolscript] [script source]     - Domain d1du3i1, region I:21-61 [Jmol] [rasmolscript] [script source]     - Domain d1du3i2, region I:62-101 [Jmol] [rasmolscript] [script source]     - Domain d1du3j_, region J [Jmol] [rasmolscript] [script source]     - Domain d1du3k_, region K [Jmol] [rasmolscript] [script source]     - Domain d1du3l_, region L [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: [1du3_C] [1du3_I] [1du3_H] [1du3_K] [1du3_F] [1du3_G] [1du3] [1du3_D] [1du3_J] [1du3_E] [1du3_A] [1du3_B] [1du3_L] SWISS-PROT database: [P50591] [O14763] Domain organization of [TNF10_HUMAN] [TR10B_HUMAN] by SWISSPFAM Domains found in 1DU3: [TNF] [TNFR ] by SMART

Other resources with information on 1DU3

Community annotation for 1DU3 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

---