PDB FILES OF SOME CLASSICAL PROTEINS


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Lysozyme (E.C.3.2.1.17)
(132l.pdb)


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Source: hen (Gallus gallus) egg white
Authors: W. R. Rypniewski; H. M. Holden; I. Rayment
Reference: "Structural consequences of reductive methylation of lysine residues in hen egg white lysozyme: an X-ray analysis at 1.8 Å resolution", Biochemistry 1993, 32, 9851.


Alpha-chymotrypsin a (E.C.3.4.21.1)
(5cha.pdb)


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Source: cow (Bos taurus)
Authors: R. A. Blevins; A. Tulinsky
Reference: "The refinement and the structure of the dimer of alpha-chymotrypsin at 1.67 Å resolution", J. Biol. Chem. 1985, 260, 4264.


Collagen (three strands of (Gly-Pro-Pro)4) (theoretical model)
(1bbe.pdb)


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Source: not applicable
Authors: G. Nemethy; K. D. Gibson; K. A. Palmer; C. N. Yoon; G. Paterlini; A. Zagari; S. Rumsey; H. A. Scheraga
Reference: "Energy parameters in polypeptides. 10. Improved geometrical parameters and nonbonded interactions for use in the ECEPP(SLASH)3 algorithm, with application to proline-containing peptides.", J. Phys. Chem. 1992, 96, 6472.


Carboxypeptidase A (E.C.3.4.17.1) complex with L-benzylsuccinate inhibitor
(1cbx.pdb)


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Source: bovine (Bos taurus) pancreas
Authors: S. Mangani; P. Carloni; P. Orioli
Reference: "Crystal structure of the complex between carboxypeptidase A and the biproduct analog inhibitor L-benzylsuccinate at 2.0 Å resolution.", J. Mol. Biol. 1992, 223, 573.


Myoglobin (oxy, pH 8.4)
(1mbo.pdb)


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Source: Sperm whale (Physeter catodon)
Authors: S. E. V. Phillips
Reference: "Structure and refinement of oxymyoglobin at 1.6 Å resolution.", J. Mol. Biol. 1980, 142, 531.


Hemoglobin (T-state, deoxygenated)
(1hga.pdb)


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Source: human (Homo sapiens)
Authors: R. Liddington; Z. Derewenda; E. Dodson; R. Hubbard; G. Dodson
Reference: " High resolution crystal structures and comparisons of T-state deoxyhemoglobin and two liganded T-state hemoglobins: T(alpha-oxy)hemoglobin and T(met)hemoglobin", J. Mol. Biol. 1992, 228, 551.


Aspartate transcarbamoylase (E.C.2.1.3.2) (aspartate carbamoyltransferase) (T state) complexed with CTP
(1rab.pdb)


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Source: Escherichia coli
Authors: R. P. Kosman; J. E. Gouaux; W. N. Lipscomb
Reference: "Crystal structure of CTP-ligated T state aspartate transcarbamoylase at 2.5 Å resolution: implications for ATCase mutants and the mechanism of negative cooperativity.", Proteins 1993, 15, 147.


Immunoglobin Fc (IgG1) complexed with protein G (C2 fragment)
(1fcc.pdb)


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Source: molecule: IgG1; organism: human (Homo sapiens); Cell: papain cleavage of purified monoclonal human IgG1 (mo61) from hybridoma cells; molecule: protein G; Organism: Streptococci; expression system: Escherichia coli; plasmid: peb2zhis; gene: N-terminal fragment of protein G.
Authors: A. E. Sauer-Eriksson; G. J. Kleywegt; M. Uhlen, T. A. Jones
Reference: "Crystal structure of the C2 fragment of Streptococcal protein G in complex with the Fc domain of human IgG.", Structure (London) 1995, 3, 265.


Calmodulin
(1osa.pdb)


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Source: paramecium recombinant form expressed in (Escherichia coli)
Authors: C. Ban; B. Ramakrishnan; K.-Y. Ling; C. Kung; M. Sundaralingam
Reference: "Crystal structure of recombinant Paramecium tetraurelia calmodulin at 1.68 Å resolution.", To be published


Calmodulin (calcium-bound) complexed with rabbit skeletal myosin light chain kinase (calmodulin-binding domain)
(2bbn.pdb)


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Source: calmodulin: (Drosophila melanogaster); peptide: synthetic
Authors: M. Ikura; G. M. Clore; A. M. Gronenborn; G. Zhu; C. B. Klee; A. Bax
Reference: "Solution structure of a calmodulin-target peptide complex by multidimensional NMR", Science 1992, 256, 632.


DNA polymerase beta (pol beta) (E.C.2.7.7.7) complexed with six base pairs of DNA (5'-D(*Cp*Ap*Gp*Ap*Tp*G)-3')
(7icg.pdb)


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Source: Homo sapiens; expression system: Escherichia coli
Authors: H. Pelletier; M. R. Sawaya
Reference: "Characterization of the DNA-binding helix-hairpin-helix motifs in human DNA polymerase beta by X-ray structural analysis", Biochemistry 1996, 35, 12778.


The COOH-terminal domain of RNA polymerase alpha subunit
(1coo.pdb)


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Source: Escherichia coli; strain: K12; cell line: NH315; expression system: Escherichia coli; expression system strain: BL21 (lambda DE3); expression system plasmid: pet-3A
Authors: Author: Y. H. Jeon; T. Negishi; M. Shirakawa; T. Yamazaki; N. Fujita; A. Ishihama; Y. Kyogoku
Reference: "Solution structure of the activator contact domain of the RNA polymerase alpha subunit.", Science 1995, 270, 1495.


Citations for the Protein Data Bank

The PDB files on this page were obtained from the Protein Data Bank, and were created by the authors listed above. The Protein Data Bank, maintained by the Research Collaboratory for Structural Bioinformatics is an archival database of the three-dimensional structures of biological macromolecules such as proteins, nucleic acids and carbohydrates.   The stuctures are derived from experimental work such as X-ray diffraction studies and NMR investigations.

The contents of PDB are in the public domain, but it is expected that the authors of an entry as well as the PDB be properly cited whenever their work is referred.

The following is the current citation for the PDB:


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