Citations in PubMed

Primary Citation PubMed: 11264577 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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Analysis of binding properties and specificity through identification of the interface forming residues (IFR) for serine proteases in silico docked to different inhibitors.

(2010) BMC Struct Biol 10

PubMed: 20961427 | PubMedCentral: PMC2974730 | DOI: 10.1186/1472-6807-10-36

Table 1 List of all PDB files containing serine protease structures used for structural alignment 01- 1LTO 02- 2FPZ 03- 1NN6 04- 3RP2 05- 1K2I 06- 1EQ9 07- 1GCT 08- 1PYT 09- 1ELT 10- 1M9U 11- 1HNE 12-... 1GVK 13- 1BRU 14- 1AGJ 15- 1QTF 16- 1HPG 17- 2O8L 18- 1P3C 19- 2PKA 20- 1GVZ 21- 1LO6 22- 1TON 23- 2FOM 24- 2FP7 25- 1DY9 26- 2SGA 27- 1SGP 28- 1PQ7 29- 1TRN 30- 1HJ9 31- 1HJ8 32- 2F91 33- 1H4W 34- 2A31 35- 1A0J 36- 1OS8 37- 1OP0 38- 1BQY 39- 1C5L 40- 1VR1 41- 2PUX 42- 1H8D 43- 1ETR 44- 1ARB 45- 1Y8T 46- 2SFA 47- 1SOT 48- 2H5C 49- 1NPM 50- 1EP5 51- 1FIW 52- 1DLE 53- 1T32 54- 2BZ6 55- 1BIO 56- 1EUF 57- 1EKB 58- 1IAU 59- 2HLC 60- 1Q3X 61- 1EAX 62- 1FUJ 63- 1MBM 64- 1FON 65- 1RTF 66- 1C5Y 67- 1A7S 68 - 1FY8 69 - 1AZZ 70 - 1CHO The last three PDB IDs (underlined) contain a description of the native complexes of: anionic trypsinogen with BPTI , collagenase with Ecotin and alpha-chymotrypsin with Ovomucoid , respectively.

Publication Year: 2010


Improvement of molecular-replacement models with Sculptor.

(2011) Acta Crystallogr D Biol Crystallogr 67

PubMed: 21460448 | PubMedCentral: PMC3069745 | DOI: 10.1107/S0907444910051218

of models Sequence-identity range (%) 1aa2 a.40.1.1 108 2.01 8 21.330.6 1az5 b.50.1.1 99 2.00 14 20.236.4 1cm3 d.94.1.1 85 1.60 12 18.838.8 1emf d.22.1.1 225 2.40 13 20.937.1 1hj9 * (15) b.47.1.2 230 ... .95 15 24.240.8 1hp7 e.1.1.1 376 2.10 20 21.847.1 1iom a.103.1.1 374 1.50 11 25.247.7 1jdl * (10) a.3.1.1 118 1.70 16 19.038.0 1lds b.1.1.2 97 1.80 19 18.046.5 1n9n d.110.3.6 108 2.30 13 15.637.6 1npl b.78.1.1 109 2.00 5 16.528.4 1o4v c.23.8.1 183 1.77 3 15.321.3 1phw c.1.10.4 284 2.36 6 20.627.9 1r29 * (10) d.42.1.1 127 1.30 14 20.538.7 1upi b.82.1.1 225 1.70 14 25.340.5 1xcd c.10.2.7 329 2.31 11 19.832.7 1z45 b.30.5.4 + c.2.1.2 699 1.85 19 20.954.0 1zzo c.47.1.10 136 1.60 14 17.627.9 2azz a.133.1.2 124 2.20 19 18.245.9 2dhq c.23.13.1 146 2.00 8 20.536.3 2i5f b.55.1.1 109 1.35 14 17.435.8 2iyw * (5) c.37.1.2 184 1.85 12 16.337.0 1nqc b.1.18.10 138 2.05 11 22.538.3 Table 2 Protocols used in benchmark calculations For main-chain deletion, only the identity scoring matrix was employed.

The target structure (PDB entry 1hj9 ; Leiros et al. , 2001 ▶ ) is shown in grey.

Figure 4 Sequence-similarity scores calculated with various settings for a deletion in the model (PDB entry 1hj9 ).

Publication Year: 2011


Phaser.MRage: automated molecular replacement.

(2013) Acta Crystallogr D Biol Crystallogr 69

PubMed: 24189240 | PubMedCentral: PMC3817702 | DOI: 10.1107/S0907444913022750

Trypsin   Orthorhombic trypsin (PDB entry 1hj9 , one molecule in the asymmetric unit; Leiros et al. , 2001 ▶ ) was solved using a single template (PDB entry 2b9l , 32% identical; Piao ... t al. , 2005 ▶ ) and an alignment from ClustalW 2 (Larkin et al. , 2007 ▶ ).

Publication Year: 2013