1ICF Hydrolase date Jan 07, 1999
title Crystal Structure Of Mhc Class II Associated P41 II Fragment Complex With Cathepsin L
authors G.Guncar, G.Pungercic, I.Klemencic, V.Turk, D.Turk
compound source
Molecule: Protein (Cathepsin L: Heavy Chain)
Chain: A, C
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Kidney

Molecule: Protein (Cathepsin L: Light Chain)
Chain: B, D

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Kidney

Molecule: Protein (Invariant Chain)
Chain: I, J
Fragment: Thyroglobulin Type-1 Domain
Synonym: II Fragment, Cd74 Fragment

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Kidney
symmetry Space Group: P 1 21 1
R_factor 0.182 R_Free 0.213
length a length b length c angle alpha angle beta angle gamma
62.592 80.594 64.245 90.00 96.77 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand NAG enzyme Hydrolase E.C. BRENDA
note 1ICF is a representative structure
related structures by homologous chain: 1CJL, 1L3H, 1MHW
A, D, C, B

Primary referenceCrystal structure of MHC class II-associated p41 Ii fragment bound to cathepsin L reveals the structural basis for differentiation between cathepsins L and S., Guncar G, Pungercic G, Klemencic I, Turk V, Turk D, EMBO J 1999 Feb 15;18(4):793-803. PMID:10022822
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (106 Kb) [Save to disk]
  • Biological Unit Coordinates (1icf.pdb1.gz) 52 Kb
  • Biological Unit Coordinates (1icf.pdb2.gz) 51 Kb
  • Biological Unit Coordinates (1icf.pdb3.gz) 101 Kb
  • LPC: Ligand-Protein Contacts for 1ICF
  • CSU: Contacts of Structural Units for 1ICF
  • Likely Quarternary Molecular Structure file(s) for 1ICF
  • Retrieve 1ICF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1ICF from S2C, [Save to disk]
  • View 1ICF 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 1ICF
  • 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
  • 3D motif for 1ICF, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1icf.1, region A:,B [Jmol] [rasmolscript] [script source]
        - Domain d1icf.2, region C:,D [Jmol] [rasmolscript] [script source]
        - Domain d1icfi_, region I [Jmol] [rasmolscript] [script source]
        - Domain d1icfj_, region J [Jmol] [rasmolscript] [script source]
  • Fold representative 1icf 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: [1icf_A] [1icf_I] [1icf_B] [1icf] [1icf_C] [1icf_J] [1icf_D]
  • SWISS-PROT database: [P07711] [P04233]
  • Domain organization of [CATL1_HUMAN] [HG2A_HUMAN] by SWISSPFAM
  • Domains found in 1ICF: [Pept_C1] [TY ] by SMART
  • Other resources with information on 1ICF
  • Community annotation for 1ICF 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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