3NFP	Immune System Cytokine	date	Jun 10, 2010
title	Crystal Structure Of The Fab Fragment Of Therapeutic Antibod Daclizumab In Complex With Il-2ra (Cd25) Ectodomain
authors	H.Yang, J.Wang, J.Du, C.Zhong, Y.Guo, J.Ding
compound		source
Molecule: Heavy Chain Of Fab Fragment Of Daclizumab Chain: A, H Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Other_details: Purchased From Roche, Expressed In A Mammal Expression System;
Molecule: Light Chain Of Fab Fragment Of Daclizumab Chain: B, L Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Other_details: Purchased From Roche, Expressed In A Mammal Expression System;
Molecule: Interleukin-2 Receptor Subunit Alpha Chain: I, K Fragment: Unp Residues 22-238 Synonym: Il-2 Receptor Subunit Alpha, Il-2r Subunit Alpha, Il2-Ra, P55, Tac Antigen, Cd_antigen=Cd25; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Il2ra Expression_system: Spodoptera Frugiperda Expression_system_taxid: 7108 Expression_system_cell_line: Hi-5 Expression_system_vector_type: Baculovirus
symmetry	Space Group: C 2 2 21	R_factor 0.253 R_Free 0.301
crystal cell	length a length b length c angle alpha angle beta angle gamma 102.167 114.973 247.555 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.86 Å
note	3NFP is a representative structure
Primary reference	Structural basis of immunosuppression by the therapeutic antibody daclizumab., Yang H, Wang J, Du J, Zhong C, Zhang D, Guo H, Guo Y, Ding J, Cell Res. 2010 Sep 7. PMID:20820193

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (329 Kb) [Save to disk] Biological Unit Coordinates (3nfp.pdb1.gz) 127 Kb Biological Unit Coordinates (3nfp.pdb2.gz) 127 Kb Biological Unit Coordinates (3nfp.pdb3.gz) 43 Kb Biological Unit Coordinates (3nfp.pdb4.gz) 39 Kb CSU: Contacts of Structural Units for 3NFP Structure Factors (251 Kb) Retrieve 3NFP in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3NFP from S2C, [Save to disk] Re-refined 3nfp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3NFP 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 3NFP

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 3NFP, from MSDmotif at EBI Fold representative 3nfp from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3nfp_A] [3nfp_B] [3nfp_H] [3nfp_I] [3nfp_K] [3nfp_L] SWISS-PROT database: Domain organization of by SWISSPFAM Alignments of the sequence of 3NFP with the sequences similar proteins can be viewed for 3NFP's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.

Other resources with information on 3NFP

Community annotation for 3NFP at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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