OCA Atlas for 1F9E

1F9E

Hydrolase Hydrolase Inhibitor

date

Jul 10, 2000

title

Caspase-8 Specificity Probed At Subsite S4: Crystal Structur Caspase-8-Z-Devd-Cho

authors

H.Blanchard, M.Donepudi, M.Tschopp, L.Kodandapani, J.C.Wu, M.G.Gr

compound

source

Molecule: Caspase-8 Alpha Chain
Chain: A, C, E, G, I, K
Ec: 3.4.22.-
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21b

Molecule: Caspase-8 Beta Chain
Chain: B, D, F, H, J, L
Engineered: Yes

Molecule: (Phq)Devd
Chain: Q, R, S, T, U, V
Engineered: Yes

Synthetic: Yes
Other_details: Chemically Synthesized

symmetry

Space Group: C 2 2 21

R_factor

0.241

R_Free

0.289

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
98.029	188.748	209.802	90.00	90.00	90.00

method

X-Ray Diffraction

resolution

2.90 Å

ligand

ASA, PHQ

enzyme

Hydrolase E.C.3.4.22 BRENDA

related structures

by homologous chain: 1I4E, 1QDU

Gene
Ontology

Chain	Function	Process	Component
A, K, E, C, I, G
F, J, B, H, D, L

Primary reference

Caspase-8 specificity probed at subsite S(4): crystal structure of the caspase-8-Z-DEVD-cho complex., Blanchard H, Donepudi M, Tschopp M, Kodandapani L, Wu JC, Grutter MG, J Mol Biol 2000 Sep 8;302(1):9-16. PMID:10964557

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (249 Kb) [Save to disk]

Biological Unit Coordinates (1f9e.pdb1.gz) 84 Kb

Biological Unit Coordinates (1f9e.pdb2.gz) 85 Kb

Biological Unit Coordinates (1f9e.pdb3.gz) 83 Kb

LPC: Ligand-Protein Contacts for 1F9E

CSU: Contacts of Structural Units for 1F9E

Likely Quarternary Molecular Structure file(s) for 1F9E

Structure Factors (493 Kb)

Retrieve 1F9E in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 1F9E from S2C, [Save to disk]

Re-refined 1f9e structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1F9E 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 1F9E

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 1F9E, from MSDmotif at EBI

Classification of representative domains in scop (Structural Classification of Proteins)
- Domain d1f9e.1, region A:,B [Jmol] [rasmolscript] [script source]
- Domain d1f9e.2, region C:,D [Jmol] [rasmolscript] [script source]
- Domain d1f9e.3, region E:,F [Jmol] [rasmolscript] [script source]
- Domain d1f9e.4, region G:,H [Jmol] [rasmolscript] [script source]
- Domain d1f9e.5, region I:,J [Jmol] [rasmolscript] [script source]
- Domain d1f9e.6, region K:,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: [1f9e_V] [1f9e_T] [1f9e_R] [1f9e_H] [1f9e_A] [1f9e_G] [1f9e_E] [1f9e_U] [1f9e_J] [1f9e_S] [1f9e_K] [1f9e_B] [1f9e_Q] [1f9e] [1f9e_I] [1f9e_L] [1f9e_D] [1f9e_F] [1f9e_C]

SWISS-PROT database: [Q14790]

Domain organization of [CASP8_HUMAN] by SWISSPFAM

Domain found in 1F9E: [CASc ] by SMART

Other resources with information on 1F9E

Community annotation for 1F9E 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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