Brand  (β version)

PDB ID: 2DQT

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Ligands
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CPD [1-(3-dimethylamino-propyl)-3-ethyl-ureido]-[4-(2,2,2-trifluoro-acetylamino)-benzyl]phosphinic acid-2-(2,2-dihydro-acetylamino)-3-hydroxy-1-(4-nitrophenyl)-propyl ester PoSSuM
Non-standard Residues
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Glycosylation
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Structure summary

Code : 2DQT   PDBj   RCSB PDB   PDBe
Header : IMMUNE SYSTEM
Title : High resolution crystal structure of the complex of the hydrolytic antibody Fab 6D9 and a transition-state analog
Release Data : 2006-06-20
Compound :
mol_id molecule chains synonym
1 IMMUNOGLOBULIN 6D9 L CATALYTIC ANTIBODY 6D9
fragment: FAB FRAGMENT
mol_id molecule chains synonym
2 IMMUNOGLOBULIN 6D9 H CATALYTIC ANTIBODY 6D9
fragment: FAB FRAGMENT
Source :
mol_id organism_scientific organism_common
1 Mus musculus  (taxid:10090) House mouse
cell_line: 6D9 MURINE-MURINE HYBRIDOMA
secretion: ASCITES FLUID
mol_id organism_scientific organism_common
2 Mus musculus  (taxid:10090) House mouse
cell_line: 6D9 MURINE-MURINE HYBRIDOMA
secretion: ASCITES FLUID
Authors : Kristensen, O., Vassylyev, D.G., Tanaka, F., Ito, N., Morikawa, K., Fujii, I.
Keywords : CATALYTIC ANTIBODY, ESTER HYDROLYSIS, ESTEROLYTIC, FAB, IMMUNOGLOBULIN, IMMUNE SYSTEM
Exp. method : X-RAY DIFFRACTION ( 1.80 Å )
Citation :

Thermodynamic and structural basis for transition-state stabilization in antibody-catalyzed hydrolysis

Oda, M.,Ito, N.,Tsumuraya, T.  et al.
(2007)  J.Mol.Biol.  369 : 198 - 209

PubMed: 17428500
DOI: 10.1016/j.jmb.2007.03.023

Site-directed mutagenesis of active site contact residues in a hydrolytic abzyme: evidence for an essential histidine involved in transition state stabilization

Miyashita, H.,Hara, T.,Tanimura, R.  et al.
(1997)  J.Mol.Biol.  267 : 1247 - 1257

PubMed: 9150409
DOI: 10.1006/jmbi.1997.0938

Correlation between Antigen-Combining-Site Structures and Functions within a Panel of Catalytic Antibodies Generated against a Single Transition State Analog

Fujii, I.,Tanaka, F.,Miyashita, H.  et al.
(1995)  J.Am.Chem.Soc.  117 : 6199 - 6209

DOI: 10.1021/ja00128a006

Crystallization and Preliminary X-Ray Analysis: Transition State Complex of a Chloramphenicol Prodrug Activation Specific Catalytic Antibody

Kristensen, O.,Miyashita, H.,Vassylyev, D.G.  et al.
(1995)  Protein Pept.Lett.  1 : 252 - 255

A common ancestry for multiple catalytic antibodies generated against a single transition-state analog

Miyashita, H.,Hara, T.,Tanimura, R.  et al.
(1994)  Proc.Natl.Acad.Sci.Usa  91 : 6045 - 6049

PubMed: 7938025
DOI: 10.1073/pnas.91.22.10757a

A common ancestry for multiple catalytic antibodies generated against a single transition-state analog

Miyashita, H.,Hara, T.,Tamimura, R.  et al.
(1994)  Proc.Natl.Acad.Sci.Usa  91 : 10757 - 10757

PubMed: 8016113
DOI: 10.1073/pnas.91.13.6045

Prodrug activation via catalytic antibodies

Miyashita, H.,Karaki, Y.,Kikuchi, M.  et al.
(1993)  Proc.Natl.Acad.Sci.Usa  90 : 5337 - 5340

PubMed: 8506382
DOI: 10.1073/pnas.90.11.5337

Thermodynamic and Structural Analyses of Hydrolytic Mechanism by Catalytic Antibodies

Oda, M.,Ito, N.,Tsumuraya, T.  et al.
To be Published