journal article·2010-09

Energetics and Vibronics Analyses of the Enzymatic Coupled Electron–Proton Transfer From NfsA Nitroreductase to Trinitrotoluene

Karim Salazar-Salinas, Jorge M. Seminario

Publisher page

Abstract

We analyze the coupled electron-proton transfer from the NfsA nitroreductase enzyme to the trinitrotoluene (TNT) explosive as a possible reaction mechanism for nitrocompounds sensing. Based on earlier experiments, we have chosen as active site a group of amino acids around the flavin mononucleotide cofactor. In this site, we evaluate charge transfer, leading to a first step in the enzymatic TNT degradation that is enough for its detection. Our analysis suggests that light absorption and vibrations around the active site induce charge transfer for the enzymatic reaction with TNT.
Source: openalex_inverted_index · Quality: baseline

Research context

OpenAlex topics: Mass Spectrometry Techniques and Applications · Photoreceptor and optogenetics research · Electrochemical sensors and biosensors

SciVX discovery tags are terminology-based. OpenAlex topics are source-provided classifications.

References (63)

Show source-provided references
1. hehre · Ab Initio Molecular Orbital Theory · 1986
2. 10.1103/PhysRevB.45.1324410.1103/PhysRevB.45.13244 ↗
3. frisch · Gaussian-2003 Revision C 2 or D 01 · 2003
4. 10.1007/s00216-007-1601-810.1007/s00216-007-1601-8 ↗
5. 10.1016/j.aca.2009.11.06510.1016/j.aca.2009.11.065 ↗
6. 10.1002/cbic.20080024610.1002/cbic.200800246 ↗
7. 10.1103/PhysRevLett.77.386510.1103/PhysRevLett.77.3865 ↗
8. 10.1103/PhysRevB.54.1653310.1103/PhysRevB.54.16533 ↗
9. 10.1103/PhysRevA.38.309810.1103/PhysRevA.38.3098 ↗
10. 10.1063/1.47082910.1063/1.470829 ↗
11. 10.1073/pnas.84.5.121910.1073/pnas.84.5.1219 ↗
12. 10.1074/jbc.273.37.2392210.1074/jbc.273.37.23922 ↗
13. 10.1021/bi026918f10.1021/bi026918f ↗
14. 10.1002/prot.2037510.1002/prot.20375 ↗
15. 10.1021/es970612s10.1021/es970612s ↗
16. 10.1007/s11157-005-5515-710.1007/s11157-005-5515-7 ↗
17. 10.1016/j.mib.2010.01.01010.1016/j.mib.2010.01.010 ↗
18. 10.1109/JPROC.2005.85354110.1109/JPROC.2005.853541 ↗
19. 10.1109/JPROC.2003.81832810.1109/JPROC.2003.818328 ↗
20. 10.1007/s00253-004-1736-x10.1007/s00253-004-1736-x ↗
21. Biochemical characterization of NfsA, the Escherichia coli major nitroreductase exhibiting a high amino acid sequence homology to Frp, a Vibrio harveyi flavin oxidoreductase10.1128/jb.178.15.4508-4514.1996 ↗
22. 10.1074/jbc.M00261720010.1074/jbc.M002617200 ↗
23. 10.1007/s00284-007-9093-510.1007/s00284-007-9093-5 ↗
24. Conversion of NfsA, the major Escherichia coli nitroreductase, to a flavin reductase with an activity similar to that of Frp, a flavin reductase in Vibrio harveyi, by a single amino acid substitution10.1128/JB.180.2.422-425.1998 ↗
25. 10.1111/j.1462-2920.2007.01272.x10.1111/j.1462-2920.2007.01272.x ↗
26. 10.1007/s00253-007-1087-510.1007/s00253-007-1087-5 ↗
27. 10.1006/jcph.1995.103910.1006/jcph.1995.1039 ↗
28. 10.1002/jcc.54004021110.1002/jcc.540040211 ↗
29. 10.1016/S0166-1280(02)00231-210.1016/S0166-1280(02)00231-2 ↗
30. 10.1002/(SICI)1096-987X(19981115)19:14<1639::AID-JCC10>3.0.CO;2-B10.1002/(SICI)1096-987X(19981115)19:14<1639::AID-JCC10>3.0.CO;2-B ↗
31. arguslab 4.0.1
32. Predictions of protein flexibility: First-order measures10.1002/prot.20151 ↗
33. 10.1093/bioinformatics/btm01410.1093/bioinformatics/btm014 ↗
34. 10.1002/pro.556006120810.1002/pro.5560061208 ↗
35. 10.1093/proeng/gzg01410.1093/proeng/gzg014 ↗
36. An all-atom empirical energy function for the simulation of nucleic acids10.1021/ja00153a017 ↗
37. 10.1016/j.carbon.2009.09.06510.1016/j.carbon.2009.09.065 ↗
38. msds 2,4,6-trinitrotoluene (tnt) casrn 118-96-7
39. 10.1002/(SICI)1096-987X(19960115)17:1<49::AID-JCC5>3.0.CO;2-010.1002/(SICI)1096-987X(19960115)17:1<49::AID-JCC5>3.0.CO;2-0 ↗
40. 10.1016/S0040-6031(01)00801-210.1016/S0040-6031(01)00801-2 ↗
41. 10.1021/ja035071n10.1021/ja035071n ↗
42. 10.1021/ja015661q10.1021/ja015661q ↗
43. 10.1021/ja016231310.1021/ja0162313 ↗
44. theoretical interpretation of switching in experiments with single molecules10.1021/ja0176090 ↗
45. 10.1109/TNANO.2004.82401210.1109/TNANO.2004.824012 ↗
46. Oxygen-insensitive nitroreductases: Analysis of the roles of NfsA and NfsB in development of resistance to 5-nitrofuran derivatives in Escherichia coli10.1128/JB.180.21.5529-5539.1998 ↗
47. 10.1074/jbc.M80897720010.1074/jbc.M808977200 ↗
48. 10.1109/JSEN.2008.92323210.1109/JSEN.2008.923232 ↗
49. 10.1109/JSEN.2009.202600310.1109/JSEN.2009.2026003 ↗
50. 10.1016/j.bios.2010.02.00110.1016/j.bios.2010.02.001 ↗
51. 10.1109/JSEN.2006.88416310.1109/JSEN.2006.884163 ↗
52. 10.1016/j.biomaterials.2010.02.04010.1016/j.biomaterials.2010.02.040 ↗
53. 10.1002/pssa.20098331710.1002/pssa.200983317 ↗
54. 10.1016/S0166-1280(98)00553-310.1016/S0166-1280(98)00553-3 ↗
55. 10.1016/j.bios.2010.02.03010.1016/j.bios.2010.02.030 ↗
56. 10.1016/0009-2614(96)00440-X10.1016/0009-2614(96)00440-X ↗
57. 10.1021/jp064766i10.1021/jp064766i ↗
58. 10.1021/cr990400910.1021/cr9904009 ↗
59. 10.1063/1.47585510.1063/1.475855 ↗
60. 10.1007/s00214-002-0363-910.1007/s00214-002-0363-9 ↗
61. 10.1007/978-1-4757-9634-610.1007/978-1-4757-9634-6 ↗
62. 10.1166/jnn.2006.08710.1166/jnn.2006.087 ↗
63. 10.1002/qua.2117310.1002/qua.21173 ↗