Published October 23, 2015 | Version v1
Journal article

A strenuous experimental journey searching for spectroscopic evidence of a bridging nickel–iron–hydride in [NiFe] hydrogenase

  • 1. Lawrence Berkeley National Laboratory, Berkeley, CA 94720 (United States)
  • 2. University of California, 1 Cyclotron Road, Davis, CA 95616 (United States)
  • 3. SPring-8/JASRI, 1-1-1 Kouto, Sayo-cho, Sayo-gun, Hyogo 679-5198 (Japan)
  • 4. Max Planck Institute for Chemical Energy Conversion, D-45470 Mülheim an der Ruhr (Germany)
  • 5. University of Hyogo, 3-2-1 Kouto, Kamigori-cho, Ako-gun, Hyogo 678-1297 (Japan)

Description

Direct spectroscopic evidence for a hydride bridge in the Ni–R form of [NiFe] hydrogenase has been obtained using iron-specific nuclear resonance vibrational spectroscopy. This article focuses on the long and strenuous experimental journey to search for and identify this first spectroscopic evidence for a hydride in Ni–R. Direct spectroscopic evidence for a hydride bridge in the Ni–R form of [NiFe] hydrogenase has been obtained using iron-specific nuclear resonance vibrational spectroscopy (NRVS). The Ni–H–Fe wag mode at 675 cm−1 is the first spectroscopic evidence for a bridging hydride in Ni–R as well as the first iron-hydride-related NRVS feature observed for a biological system. Although density function theory (DFT) calculation assisted the determination of the Ni–R structure, it did not predict the Ni–H–Fe wag mode at ∼675 cm−1 before NRVS. Instead, the observed Ni–H–Fe mode provided a critical reference for the DFT calculations. While the overall science about Ni–R is presented and discussed elsewhere, this article focuses on the long and strenuous experimental journey to search for and experimentally identify the Ni–H–Fe wag mode in a Ni–R sample. As a methodology, the results presented here will go beyond Ni–R and hydrogenase research and will also be of interest to other scientists who use synchrotron radiation for measuring dilute samples or weak spectroscopic features.

Availability note (English)

Available from http://dx.doi.org/10.1107/S1600577515017816; Available from http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4629863

Additional details

Identifiers

DOI
10.1107/S1600577515017816;
PII
S1600577515017816;

Publishing Information

Journal Title
Journal of Synchrotron Radiation
Journal Volume
22
Journal Issue
Pt 6
Journal Page Range
p. 1334-1344
ISSN
0909-0495
CODEN
JSYRES

INIS

Country of Publication
Denmark
Country of Input or Organization
International Atomic Energy Agency (IAEA)
INIS RN
49086748
Subject category
S43: PARTICLE ACCELERATORS; S46: INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND TECHNOLOGY;
Descriptors DEI
BRIDGES; HYDROGENASES; RESONANCE; SYNCHROTRON RADIATION
Descriptors DEC
BREMSSTRAHLUNG; ELECTROMAGNETIC RADIATION; ENZYMES; MECHANICAL STRUCTURES; ORGANIC COMPOUNDS; OXIDOREDUCTASES; PROTEINS; RADIATIONS

Optional Information

Copyright
Copyright (c) International Union of Crystallography 2015
Notes
PMCID: PMC4629863; PMID: 26524296; PMID: 26524296; PUBLISHER-ID: ie5149; OAI: oai:pubmedcentral.nih.gov:4629863; This is an open-access article distributed under the terms described at http://journals.iucr.org/services/termsofuse.html.