Literature DB >> 12239340

Doming modes and dynamics of model heme compounds.

Dennis D Klug1, Marek Z Zgierski, John S Tse, Zhenxian Liu, James R Kincaid, Kazimierz Czarnecki, Russell J Hemley.   

Abstract

Synchrotron far-IR spectroscopy and density-functional calculations are used to characterize the low-frequency dynamics of model heme FeCO compounds. The "doming" vibrational mode in which the iron atom moves out of the porphyrin plane while the periphery of this ring moves in the opposite direction determines the reactivity of oxygen with this type of molecule in biological systems. Calculations of frequencies and absorption intensities and the measured pressure dependence of vibrational modes in the model compounds are used to identify the doming and related normal modes.

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Year:  2002        PMID: 12239340      PMCID: PMC130493          DOI: 10.1073/pnas.152464699

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  12 in total

1.  Long-range reactive dynamics in myoglobin.

Authors:  J T Sage; S M Durbin; W Sturhahn; D C Wharton; P M Champion; P Hession; J Sutter; E E Alp
Journal:  Phys Rev Lett       Date:  2001-05-21       Impact factor: 9.161

2.  Determination of the phonon spectrum of iron in myoglobin using inelastic X-ray scattering of synchrotron radiation.

Authors:  C Keppler; K Achterhold; A Ostermann; U van Bürck; W Potzel; A I Chumakov; A Q Baron; R Rüffer; F Parak
Journal:  Eur Biophys J       Date:  1997       Impact factor: 1.733

Review 3.  Regulation of oxygen affinity of hemoglobin: influence of structure of the globin on the heme iron.

Authors:  M F Perutz
Journal:  Annu Rev Biochem       Date:  1979       Impact factor: 23.643

4.  Stereochemistry of cooperative effects in haemoglobin.

Authors:  M F Perutz
Journal:  Nature       Date:  1970-11-21       Impact factor: 49.962

5.  Nonexponential relaxation after ligand dissociation from myoglobin: a molecular dynamics simulation.

Authors:  K Kuczera; J C Lambry; J L Martin; M Karplus
Journal:  Proc Natl Acad Sci U S A       Date:  1993-06-15       Impact factor: 11.205

6.  Evidence for sub-picosecond heme doming in hemoglobin and myoglobin: a time-resolved resonance Raman comparison of carbonmonoxy and deoxy species.

Authors:  S Franzen; B Bohn; C Poyart; J L Martin
Journal:  Biochemistry       Date:  1995-01-31       Impact factor: 3.162

7.  The crystal structure of human deoxyhaemoglobin at 1.74 A resolution.

Authors:  G Fermi; M F Perutz; B Shaanan; R Fourme
Journal:  J Mol Biol       Date:  1984-05-15       Impact factor: 5.469

8.  Stereochemistry of carbonylmetalloporphyrins. The structure of (pyridine)(carbonyl)(5, 10, 15, 20-tetraphenylprophinato)iron(II).

Authors:  S M Peng; J A Ibers
Journal:  J Am Chem Soc       Date:  1976-12-08       Impact factor: 15.419

Review 9.  The stereochemical mechanism of the cooperative effects in hemoglobin revisited.

Authors:  M F Perutz; A J Wilkinson; M Paoli; G G Dodson
Journal:  Annu Rev Biophys Biomol Struct       Date:  1998

10.  Nonexponential protein relaxation: dynamics of conformational change in myoglobin.

Authors:  M Lim; T A Jackson; P A Anfinrud
Journal:  Proc Natl Acad Sci U S A       Date:  1993-06-15       Impact factor: 11.205

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  11 in total

1.  High-resolution waveguide THz spectroscopy of biological molecules.

Authors:  N Laman; S Sree Harsha; D Grischkowsky; Joseph S Melinger
Journal:  Biophys J       Date:  2007-10-12       Impact factor: 4.033

2.  Nuclear resonance vibrational spectra of five-coordinate imidazole-ligated iron(II) porphyrinates.

Authors:  Chuanjiang Hu; Alexander Barabanschikov; Mary K Ellison; Jiyong Zhao; E Ercan Alp; Wolfgang Sturhahn; Marek Z Zgierski; J Timothy Sage; W Robert Scheidt
Journal:  Inorg Chem       Date:  2012-01-13       Impact factor: 5.165

3.  Spectroscopic identification of reactive porphyrin motions.

Authors:  Alexander Barabanschikov; Alexander Demidov; Minoru Kubo; Paul M Champion; J Timothy Sage; Jiyong Zhao; Wolfgang Sturhahn; E Ercan Alp
Journal:  J Chem Phys       Date:  2011-07-07       Impact factor: 3.488

4.  Probing vibrational anisotropy with nuclear resonance vibrational spectroscopy.

Authors:  Jeffrey W Pavlik; Alexander Barabanschikov; Allen G Oliver; E Ercan Alp; Wolfgang Sturhahn; Jiyong Zhao; J Timothy Sage; W Robert Scheidt
Journal:  Angew Chem Int Ed Engl       Date:  2010-06-14       Impact factor: 15.336

Review 5.  What Can Be Learned from Nuclear Resonance Vibrational Spectroscopy: Vibrational Dynamics and Hemes.

Authors:  W Robert Scheidt; Jianfeng Li; J Timothy Sage
Journal:  Chem Rev       Date:  2017-09-18       Impact factor: 60.622

6.  Quantitative vibrational dynamics of iron in nitrosyl porphyrins.

Authors:  Bogdan M Leu; Marek Z Zgierski; Graeme R A Wyllie; W Robert Scheidt; Wolfgang Sturhahn; E Ercan Alp; Stephen M Durbin; J Timothy Sage
Journal:  J Am Chem Soc       Date:  2004-04-07       Impact factor: 15.419

7.  Low-frequency mode activity of heme: femtosecond coherence spectroscopy of iron porphine halides and nitrophorin.

Authors:  Minoru Kubo; Flaviu Gruia; Abdelkrim Benabbas; Alexander Barabanschikov; William R Montfort; Estelle M Maes; Paul M Champion
Journal:  J Am Chem Soc       Date:  2008-07-03       Impact factor: 15.419

8.  Subpicosecond oxygen trapping in the heme pocket of the oxygen sensor FixL observed by time-resolved resonance Raman spectroscopy.

Authors:  Sergei G Kruglik; Audrius Jasaitis; Klara Hola; Taku Yamashita; Ursula Liebl; Jean-Louis Martin; Marten H Vos
Journal:  Proc Natl Acad Sci U S A       Date:  2007-04-19       Impact factor: 11.205

9.  Quantitative vibrational dynamics of iron in carbonyl porphyrins.

Authors:  Bogdan M Leu; Nathan J Silvernail; Marek Z Zgierski; Graeme R A Wyllie; Mary K Ellison; W Robert Scheidt; Jiyong Zhao; Wolfgang Sturhahn; E Ercan Alp; J Timothy Sage
Journal:  Biophys J       Date:  2007-03-09       Impact factor: 4.033

10.  The glassy state of crambin and the THz time scale protein-solvent fluctuations possibly related to protein function.

Authors:  Kristina N Woods
Journal:  BMC Biophys       Date:  2014-08-16       Impact factor: 4.778

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