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PDB ID Mentions in PubMed Central Article count: 1

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PDB ID Mentions in PubMed Central

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Robust identification of binding hot spots using continuum electrostatics: application to hen egg-white lysozyme.

(2011) J Am Chem Soc 133

PubMed: 22092261 | PubMedCentral: PMC3244821 | DOI: 10.1021/ja207914y

However, inspection of Table 1 does reveal some differences in both the total probe cluster count and the secondary site assignments, particularly for structures 1XEI , 1XEJ , and 1XEK .

Furthermore, no CSs were found for site B for structures 1XEJ and 1XEK .

14 , 15 FTMap also predicted that the top CS, CS1, contains at least one cluster of CCN molecules for each of the nine structures, with the mapping results from the 2LYO , 1IR8 , 1LSY , 1XEI , and 1XEJ structures containing two CCN clusters.

Table 1 Rankings of Hot Spots Identified by FTMap and Their Respective Numbers of Probe Clusters       secondary sites a     PDB entry structural notes site C a site B site D total probe cluster count distance to CCN (Å) b 2LYO holo, CCN bound 1 (34), 6 (4) 3 (13) 2 (16) 67 1.1 2LYM apo 1 (22), 3 (13), 6 (6) 2 (15), 7 (5) 4 (12) 73 1.4 1IR8 Ile58 → Met58 1 (33), 7 (2) 3 (11), 5 (10) 2 (14) 67 1.6 1IR9 Ile98 → Met98 1 (25), 6 (6) 2 (18) 4 (11) 60 2.5 1LSY Asp52 → Ser52 1 (34), 6 (5) 2 (13) 3 (12) 64 1.3 1LSZ Asp52 → Ser52, holo 1 (32), 8 (3) 2 (11), 4 (10) 3 (11), 5 (6) 73 1.2 1XEI 17.6% dehydrated 1 (34) 4 (11) 2 (14) 59 1.1 1XEJ 16.9% dehydrated 1 (35), 6 (6)   4 (10) 51 0.7 1XEK 9.4% dehydrated 1 (18), 5 (7), 9 (4)   3 (12) 41 1.3 a The number shown in parentheses after each ranking number is the total probe cluster count for that particular CS.

Publication Year: 2011