BioMagResBank (BMRB) as a partner in the Worldwide Protein Data Bank (wwPDB): new policies affecting biomolecular NMR depositions.
We describe the role of the BioMagResBank (BMRB) within the Worldwide Protein Data Bank (wwPDB) and recent policies affecting the deposition of biomolecular NMR data. All PDB depositions of structures based on NMR data must now be accompanied by experimental restraints. A scheme has been devised that allows depositors to specify a representative structure and to define residues within that structure found experimentally to be largely unstructured. The BMRB now accepts coordinate sets representing three-dimensional structural models based on experimental NMR data of molecules of biological interest that fall outside the guidelines of the Protein Data Bank (i.e., the molecule is a peptide with 23 or fewer residues, a polynucleotide with 3 or fewer residues, a polysaccharide with 3 or fewer sugar residues, or a natural product), provided that the coordinates are accompanied by representation of the covalent structure of the molecule (atom connectivity), assigned NMR chemical shifts, and the structural restraints used in generating model. The BMRB now contains an archive of NMR data for metabolites and other small molecules found in biological systems.
Markley
John L
JL
Department of Biochemistry, University of Wisconsin-Madison, Madison, WI 53706-1544, USA. markley@nmrfam.wisc.edu
Ulrich
Eldon L
EL
Berman
Helen M
HM
Henrick
Kim
K
Nakamura
Haruki
H
Akutsu
Hideo
H
D003194:Computer-Assisted Instruction; D030562:Databases, Protein / Q000331:legislation & jurisprudence*; D001330:Electronic Data Processing; D019906:Nuclear Magnetic Resonance, Biomolecular; D011487:Protein Conformation; D012107:Research Design