Citations in PubMed

Primary Citation PubMed: 16765986 Citations in PubMed

PDB ID Mentions in PubMed Central Article count: 5

Citations in PubMed

This linkout lists citations, indexed by PubMed, to the Primary Citation for this PDB ID.

PDB ID Mentions in PubMed Central

Data mentions are occurrences of PDB IDs in the full text articles from the PubMedCentral Open Access Subset of currently about 1 million articles. For each article, the sentences containing the PDB ID are listed. Article titles can be filtered by keywords and sorted by year.

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H2r: identification of evolutionary important residues by means of an entropy based analysis of multiple sequence alignments.

(2008) BMC Bioinformatics 9

PubMed: 18366663 | PubMedCentral: PMC2323388 | DOI: 10.1186/1471-2105-9-151

These were – projected onto 2DN1 – residues 97 , 40, 57 , 93 , 131, 37, 85, 2, 39.

Publication Year: 2008


Effects of macromolecular crowding on protein conformational changes.

(2010) PLoS Comput Biol 6

PubMed: 20617196 | PubMedCentral: PMC2895631 | DOI: 10.1371/journal.pcbi.1000833

Protein Organism Subcellular location Biological Function PDB code AdK Escherichia coli cytoplasm ATP-AMP transphosphorylase 4AKE & 1AKE yPDI Saccharomyces cerevisiae lumen of endoplasmic reti... ulum catalyses rearrangement of protein disulfide bonds 3BOA & 2B5E ODCase Saccharomyces cerevisiae cytoplasm converts orotidine mono- phosphate to uridine mono-phosphate, the last step in biosynthesis of pyrimidine nucleotides 1DQW & 1DQX TrpR Escherichia coli cytoplasm regulates transcription in tryptophan biosynthesis 1WRP & 3WRP Hb Homo sapiens cytoplasm oxygen transport 2DN1 & 2DN2 BGT Enterobacteria phage T4 cytoplasm of host cell catalyzes transfer of glucose from uridine diphosphoglucose to hydroxymethylcytosine in DNA 1JEJ & 1JG6 Ap 4 Aase Lupinus angustifolius cytoplasm catalyses cleavage of diadenosine tetraphosphate into ATP and AMP 1F3Y & 1JKN Results/Discussion The X-ray structures of AdK in the open and closed states are shown in Figure 1 ; comparison of open and closed structures for all the seven proteins is found in Figure S1 .

Publication Year: 2010


Molecular modeling of the human hemoglobin-haptoglobin complex sheds light on the protective mechanisms of haptoglobin.

(2013) PLoS One 8

PubMed: 23638175 | PubMedCentral: PMC3637213 | DOI: 10.1371/journal.pone.0062996

Materials and Methods Preparation of protein structures The crystal structure of human Hb containing a single αβ dimer was obtained from the Protein Data Bank (accession number 2DN1) [... 9] while the homology models of haptoglobin variant 1 was obtained from the Protein Model DataBase (accession number PM0075389) [30] .

Publication Year: 2013


Reaction trajectory revealed by a joint analysis of protein data bank.

(2013) PLoS One 8

PubMed: 24244274 | PubMedCentral: PMC3823880 | DOI: 10.1371/journal.pone.0077141

The oxy (2DN1) and carbonmonoxy (2DN3) forms of Hb are in red.

The R state structures, as represented by the oxy (2DN1) and carbonmonoxy (2DN3) structures [ 9 ], exhibit less conformity in a group distinct from the T group and clustering much more loosely.

2DN1   A four-character alphanumerical string is a PDB entry.

Publication Year: 2013


Non-site-specific allosteric effect of oxygen on human hemoglobin under high oxygen partial pressure.

(2014) Sci Rep 4

PubMed: 24710521 | PubMedCentral: PMC3978498 | DOI: 10.1038/srep04601

Because the quaternary change is accompanied with α 1 β 1 (α 2 β 2 ) dimer rotation 3 18 , the temporal change of the intersubunit dihedral angle χ , defined by... the four centers of mass (COMs) of subunits (see Fig. 1 ), is an index of the quaternary change; −99.5 and −89.0 degrees for T and R crystal structures (PDB ID: 2DN2 and 2DN1 15 ), respectively.

Publication Year: 2014