Citations in PubMed

Primary Citation PubMed: 12381319 Citations in PubMed

PDB ID Mentions in PubMed Central Article count: 3

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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Prospects for de novo phasing with de novo protein models.

(2009) Acta Crystallogr D Biol Crystallogr 65

PubMed: 19171972 | PubMedCentral: PMC2631639 | DOI: 10.1107/S0907444908020039

of models, large-scale ¶ Low-resolution models, 100 CPU days †† All-atom models, 100 CPU days †† All-atom models, large-scale †† Models, native ... onstraints ‡‡ Overall §§ 1be7 1bq9 H 3 51 1 43 3.5 × 10 5 1.7 × 10 7 — — — 0.882 0.882 1bq9 1bq9 P 2 1 2 1 2 1 51 1 43 3.5 × 10 5 1.7 × 10 7 — — — 0.627 0.627 2igd 1pgx P 2 1 2 1 2 1 55 1 46 2.7 × 10 5 4.2 × 10 5 — — 0.745 0.891 0.709 5cro 5cro H 32 55 4 70 2.6 × 10 5 7.4 × 10 5 — — 0.927 0.982 0.709 1hz5 1hz6 P 3 2 21 61 2 72 2.3 × 10 5 7.3 × 10 5 — 0.541 0.656 0.787 0.541 1hz6 1hz6 P 2 1 2 1 2 1 61 3 59 2.3 × 10 5 7.3 × 10 5 — 0.672 0.689 0.836 0.639 1a32 1a32 P 2 1 2 1 2 1 65 1 41 2.8 × 10 5 2.8 × 10 5 — 0.754 0.708 0.800 0.677 1ctf 1ctf P 4 3 2 1 2 68 1 47 2.4 × 10 5 3.2 × 10 5 — — — 0.882 0.515 1aar 1ubi P 1 71 2 35 2.0 × 10 5 5.4 × 10 7 — — — — 1.000 1f9j 1ubi I 4 1 22 71 2 60 2.0 × 10 5 5.4 × 10 7 — — — — 0.901 1ubq 1ubi P 2 1 2 1 2 1 71 1 33 2.0 × 10 5 5.4 × 10 7 — — 0.690 0.662 0.549 2fcq 1ubi P 4 3 32 71 2 58 2.0 × 10 5 5.4 × 10 7 — — — — 0.915 2ojr 1ubi P 3 2 21 71 1 73 2.0 × 10 5 5.4 × 10 7 — — — 0.549 0.549 1dt4 1dtj P 4 2 2 1 2 74 1 54 2.8 × 10 5 4.9 × 10 5 0.649 0.622 0.500 0.635 0.419 1dtj 1dtj C 2 74 4 60 2.8 × 10 5 4.9 × 10 5 — 0.635 0.716 0.811 0.635 1ig5 1ig5 P 4 3 2 1 2 75 1 43 2.3 × 10 5 8.3 × 10 6 — — — 0.307 0.307 1cm3 1opd P 2 1 85 1 28 2.3 × 10 5 8.4 × 10 6 — — — 0.753 0.459 1opd 1opd P 1 85 1 33 2.3 × 10 5 8.4 × 10 6 — — — 0.800 0.800 1a19 1a19 I 4 1 89 2 49 1.7 × 10 5 7.0 × 10 6 — — — 0.494 0.494 2hxx 1a19 C 2 89 2 46 1.7 × 10 5 7.0 × 10 6 — — — 0.674 0.674 1mb1 1bm8 P 4 1 2 1 2 99 1 51 1.6 × 10 5 9.2 × 10 5 — — — — 0.747 2hsh 1aiu C 2 105 1 35 1.5 × 10 5 4.4 × 10 5 — — 0.400 0.600 0.400 1m6t 256b C 222 1 106 1 43 1.8 × 10 5 1.5 × 10 5 — 0.453 0.443 0.491 0.283 256b 256b P 1 106 2 45 1.8 × 10 5 1.5 × 10 5 — — 0.660 0.594 0.585 2bc5 256b P 2 1 2 1 2 1 106 4 42 1.8 × 10 5 1.5 × 10 5 — 0.538 — 0.689 0.538 1elw 1elw P 4 1 117 2 47 1.5 × 10 5 1.1 × 10 5 — 0.453 0.521 0.897 0.436 1ab6 2chf P 3 1 128 2 57 1.2 × 10 5 3.5 × 10 6 — — 0.508 0.398 0.398 2fka 2chf F 432 128 1 79 1.2 × 10 5 3.5 × 10 6 — 0.430 0.359 0.367 0.313 3chy 2chf P 2 1 2 1 2 1 128 1 41 1.2 × 10 5 3.5 × 10 6 — — — 0.492 0.320 6chy 2chf P 2 1 2 1 2 1 128 2 43 1.2 × 10 5 3.5 × 10 6 — — 0.398 0.422 0.398 † F 1 Å is a measure of model accuracy: the fraction of C α atoms within 1 Å of the crystal structure of the modeled sequence.

Publication Year: 2009


Efficient sampling in fragment-based protein structure prediction using an estimation of distribution algorithm.

(2013) PLoS One 8

PubMed: 23935913 | PubMedCentral: PMC3723781 | DOI: 10.1371/journal.pone.0068954

The number of models generated (same for Rosetta and ) depends on the length of the target sequence: 250,000 for PDB codes 1m6t, 1iib, 1acf, 3chy and 300,000 for all other targets.

Publication Year: 2013


Agonist-bound structure of the human P2Y12 receptor.

(2014) Nature 509

PubMed: 24784220 | PubMedCentral: PMC4128917 | DOI: 10.1038/nature13288

In brief, the human P2Y 12 R was subcloned into a modified pFastBac1 vector, with thermostabilized BRIL (PDB 1M6T) inserted at ICL3 (T223-R224) and a D294 7.49 N mutation.

The P2Y 12 R-2MeSADP complex was solved by molecular replacement with Phaser 32 using the receptor portion of PAR1 (PDB: 3VW7), converted to polyalanines, and BRIL (PDB: 1M6T) as initial models and refined in Refmac5 33 and Buster 34 The P2Y 12 R-2MeSATP structure was solved using P2Y 12 R in complex with 2MeSADP and BRIL (PDB: 1M6T) as starting models and refined under the same procedure.

Publication Year: 2014