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Hamdan AM, Bijaksana S, Tjoa A, Dahrin D, Kirana KH. Magnetic characterizations of nickel hyperaccumulating plants (Planchonella oxyhedra and Rinorea bengalensis) from Halmahera, Indonesia. INTERNATIONAL JOURNAL OF PHYTOREMEDIATION 2019; 21:364-371. [PMID: 30638049 DOI: 10.1080/15226514.2018.1524839] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/09/2018] [Revised: 08/15/2018] [Accepted: 08/27/2018] [Indexed: 06/09/2023]
Abstract
Magnetic minerals, such as magnetite and hematite, have been reported to be present, in particular, leaves as biogenic particles. The magnetic minerals and properties of Ni hyperaccumulators have not previously been reported in the literature. This study aimed to characterize the magnetic properties of two Ni hyperaccumulating plant species, R. bengalensis and P. oxyhedra, which grow in an ultramafic region on Halmahera Island, Indonesia. For comparison, similar characterization was carried out on two non-hyperaccumulating plant species which grow in the same region. Concentrations of Ni, Fe, and Mn in the leaves of the hyperaccumulating plants were measured using atomic absorption spectroscopy (AAS) and their magnetic properties were characterized using measurements of magnetic susceptibility, low temperature magnetic susceptibility, and hysteresis curves. The results show that, compared to the non-hyperaccumulating plants, the Ni hyperaccumulating plants have higher concentrations of Ni and similar concentration of Fe. The magnetic susceptibilities of hyperaccumulating plants are positive, and those of non-hyperaccumulating plants are negative. This suggests that the abundance of Ni, rather than Fe, may control the magnetic properties of Ni hyperaccumulating plants. This probable connection between Ni concentration and plant magnetic properties could be advantageous for identifying hyperaccumulators, and should, therefore, be explored further.
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Affiliation(s)
- Abd Mujahid Hamdan
- a Faculty of Mining and Petroleum Engineering , Institut Teknologi Bandung , Bandung , Indonesia
| | - Satria Bijaksana
- a Faculty of Mining and Petroleum Engineering , Institut Teknologi Bandung , Bandung , Indonesia
| | - Aiyen Tjoa
- b Faculty of Agriculture , Tadulako University , Palu , Indonesia
| | - Darharta Dahrin
- a Faculty of Mining and Petroleum Engineering , Institut Teknologi Bandung , Bandung , Indonesia
| | - Kartika Hajar Kirana
- c Faculty of Mathematics and Natural Sciences , Universitas Padjadjaran , Jatinangor , Indonesia
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Patel R, Singh A, Shukla K, Patel DK, Sondhiya V. Synthesis, characterization, and superoxide dismutase activity of copper(II) complexes with bidentate ligands. J COORD CHEM 2010. [DOI: 10.1080/00958972.2010.511203] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- R.N. Patel
- a Department of Chemistry , A. P. S. University , Rewa 486003, MP, India
| | - Anurag Singh
- a Department of Chemistry , A. P. S. University , Rewa 486003, MP, India
| | - K.K. Shukla
- a Department of Chemistry , A. P. S. University , Rewa 486003, MP, India
| | - Dinesh K. Patel
- a Department of Chemistry , A. P. S. University , Rewa 486003, MP, India
| | - V.P. Sondhiya
- a Department of Chemistry , A. P. S. University , Rewa 486003, MP, India
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Synthesis and spectral studies of transition metal complexes with 1,5:11,15-dimetheno-2,4,10,12-tetramethyl-[1,5,9,13]-tetraazahexadeca-1,3,5,6,10,11,13,15,16,20-decene a sixteen-membered tetradentate macrocyclic ligand. TRANSIT METAL CHEM 2007. [DOI: 10.1007/s11243-006-0117-y] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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King G, Andary T, Freeman H, Gavrilovic L, Wright P. An examination of the basic blue copper protein from cucumber peelings by 1
H-NMR. FEBS Lett 2001. [DOI: 10.1016/0014-5793(84)80097-6] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Kojiro CL, Markley JL. Connectivity of proton and carbon spectra of the blue copper protein, plastocyanin, established by two-dimensional nuclear magnetic resonance. FEBS Lett 2001. [DOI: 10.1016/0014-5793(83)81047-3] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Taneva SG, Kaiser U, Donchev AA, Dimitrov MI, Mäntele W, Muga A. Redox-induced conformational changes in plastocyanin: an infrared study. Biochemistry 1999; 38:9640-7. [PMID: 10423242 DOI: 10.1021/bi990376t] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The conformational changes associated with the redox transition of plastocyanin (PC) were investigated by absorption and reaction-induced infrared spectroscopy. In addition to spectral features readily ascribed to beta and turn protein secondary structures, the amide I band shows a major component band at 1647 cm(-1) in both redox states of the protein. The sensitivity of this component to deuteration and increasing temperature suggests that PC adopts an unusual secondary structure in solution, which differs from those described for other type I copper proteins, such as azurin and halocyanin. The conformations of oxidized and reduced PC are different, as evidenced (1) by analysis of their amide I band contour and the electrochemically induced oxidized-minus-reduced difference spectrum and (2) by their different thermal stability. The redox-induced difference spectrum exhibits a number of difference bands within the conformationally sensitive amide I band that could be assigned to peptide C=O modes, in light of their small shift upon deuteration, and to signals attributable to side chain vibrational modes of Tyr residues. Lowering the pH to 4.8 induces destabilization of both redox states of the protein, more pronounced for reduced PC, without significantly affecting their secondary structure. Besides the conformational differences obtained at neutral pH, the oxidized-minus-reduced difference spectrum shows two broad and strong negative bands at 1405 and 1571 cm(-1), assigned to COO(-) vibrations, and a broad positive band at 1710 cm(-1), attributed to the C=O vibration of a COOH group(s). These bands are indicative of a protonation of (an) Asp or Glu side chain(s) upon plastocyanin oxidation at acidic pH.
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Affiliation(s)
- S G Taneva
- Unidad de Biofísica (CSIC-UPV/EHU), Departamento de Bioquímica, Universidad del País Vasco, Bilbao, Spain
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Groeneveld CM, Ouwerling MC, Erkelens C, Canters GW. 1H nuclear magnetic resonance study of the protonation behaviour of the histidine residues and the electron self-exchange reaction of azurin from Alcaligenes denitrificans. J Mol Biol 1988; 200:189-99. [PMID: 2837576 DOI: 10.1016/0022-2836(88)90343-9] [Citation(s) in RCA: 49] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
The proton nuclear magnetic resonance spectrum of azurin from Alcaligenes denitrificans at pH 6.0 and 309 K is reported. Proton signals from all methionine and histidine residues (among them the copper ligands) have been assigned. The data have been used to study the pH behaviour of His35 and to establish the electron self-exchange rate of the protein. His35 appears to be protonated at pH less than 4.5, possibly after rupture of a salt bridge. No effects of this protonation on the tertiary structure around the copper site are observed, however, contrary to the case of Pseudomonas aeruginosa azurin. The electron self-exchange rate amounts to 4 x 10(5) M-1 S-1 at pH 6.7 and 297 K. The data support the conclusion that the electron self-exchange takes place by way of the hydrophobic surface patch around His117, and that His35 is not involved in this reaction. Oxidation of azurin increases the acidity of the freely titrating His32 and His83 by 0.07 and 0.25 pKa units, respectively. The data can be used to test the theory of electrostatic interactions in proteins. The optical extinction coefficient at 625 nm was experimentally determined and amounts to 4.8(+/- 0.1) x 10(3) M-1 cm-1.
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Affiliation(s)
- C M Groeneveld
- Gorlaeus Laboratories, Leiden University, The Netherlands
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Fatiadi AJ, Andersson L. Affinity Chromatography And Metal Chelate Affinity Chromatography. ACTA ACUST UNITED AC 1987. [DOI: 10.1080/10408348708542800] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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Guss JM, Harrowell PR, Murata M, Norris VA, Freeman HC. Crystal structure analyses of reduced (CuI) poplar plastocyanin at six pH values. J Mol Biol 1986; 192:361-87. [PMID: 3560221 DOI: 10.1016/0022-2836(86)90371-2] [Citation(s) in RCA: 273] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
The structure of poplar plastocyanin in the reduced (CuI) state has been determined and refined, using counter data recorded from crystals at pH 3.8, 4.4, 5.1, 5.9, 7.0 and 7.8 (resolution 1.9 A, 1.9 A, 2.05 A, 1.7 A, 1.8 A and 2.15 A; the final residual R value was 0.15, 0.15, 0.16, 0.17, 0.16 and 0.15, respectively). The molecular and crystal structure of the protein is substantially the same in the reduced state as in the oxidized state. The refinements of the structures of the six forms of the reduced protein could therefore be commenced with a model derived from the known structure of CuII-plastocyanin. The refinements were made by reciprocal space least-squares calculations interspersed with inspections of electron-density difference maps. Precautions were taken to minimize any bias of the results of the refinements in the direction of the starting model. The most significant differences among the structures of the reduced protein at the six pH values, or between them and the structure of the oxidized protein, are concentrated at the Cu site. In the reduced protein at high pH (pH 7.8), the CuI atom is co-ordinated by the N delta(imidazole) atoms of His37 and His87, the S gamma(thiolate) atom of Cys84, and the S delta(thioether) atom of Met92, just as in CuII-plastocyanin. The distorted tetrahedral geometry and the unusually long Cu-S(Met92) bond are retained. The only effects of the change in oxidation state are a lengthening of the two Cu-N(His) bonds by about 0.1 A, and small changes in two bond angles involving the Cu-S(Cys) bond. The high-pH form of reduced plastocyanin accordingly meets all the requirements for efficient electron transfer. As the pH is lowered, the Cu atom and the four Cu-binding protein side-chains appear to undergo small but concerted movements in relation to the rest of the molecule. At low pH (pH 3.8), the CuI atom is trigonally co-ordinated by N delta(His37), S gamma(Cys84) and S delta(Met92). The fourth Cu-ligand bond is broken, the Cu atom making only a van der Waals' contact with the imidazole ring of His87. The trigonal geometry of the Cu atom strongly favours CuI, so that this form of the protein should be redox-inactive. This is known to be the case.(ABSTRACT TRUNCATED AT 400 WORDS)
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Chapter 1 Nuclear magnetic resonance spectroscopy in biochemistry. NEW COMPREHENSIVE BIOCHEMISTRY 1985. [DOI: 10.1016/s0167-7306(08)60560-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/05/2022]
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Engeseth HR, McMillin DR, Otvos JD. Comparative Cd-113 nuclear magnetic resonance studies of Cd(II)-substituted blue copper proteins. J Biol Chem 1984. [DOI: 10.1016/s0021-9258(17)42919-x] [Citation(s) in RCA: 36] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
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Adman ET, Canters GW, Hill HA, Kitchen NA. The effect of pH and temperature on the structure of the active site of azurin from Pseudomonas aeruginosa. FEBS Lett 1982; 143:287-92. [PMID: 6811322 DOI: 10.1016/0014-5793(82)80118-x] [Citation(s) in RCA: 60] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
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Cookson DJ, Hayes MT, Wright PE. NMR study of the interaction of plastocyanin with chromium(II) analogues of inorganic electron transfer reagents. BIOCHIMICA ET BIOPHYSICA ACTA 1980; 591:162-76. [PMID: 7388013 DOI: 10.1016/0005-2728(80)90230-3] [Citation(s) in RCA: 66] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
High resolution nuclear magnetic resonance spectroscopy has been used to examine the interaction of plastocyanins from French bean (Phaseolus vulgaris) and cucumber (Cucumis sativus) with three complexes--potassium hexacyano-chromate(III), hexamminechromium(III) nitrate and tris(1,10-phenanthroline)-chromium(III) perchlorate--which are analogues of inorganic electron transfer reagents. The results indicate a high degree of specificity in the binding of these complexes and two binding sites on the protein are identified. One binding site is situated close to the copper atom and is clearly suited to outer sphere electron transfer through one of the histidine ligands. The other binding site is more distant from the copper atom and this mechanism cannot be operative. Electron transfer via hydrophobic channels or electron tunneling are possible mechanisms of electron transfer.
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Investigation of the binding of inorganic complexes to blue copper proteins by 1H nmr spectroscopy, I. The interaction between the [Cr(phen)3]3+ and [Cr(CN)6]3− ions and the copper(I) form of parsley plastocyanin. J Inorg Biochem 1980. [DOI: 10.1016/s0162-0134(00)80216-0] [Citation(s) in RCA: 57] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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