Literature DB >> 23723776

[μ-3-(Methyl-sulfan-yl)benzene-1,2-di-thiol-ato-1:2κ(4) S,S':S,S']bis-[tri-carbonyl-iron(I)].

Yong Yang1, Ning Wang, Lin Chen.   

Abstract

The title compound, [Fe2(C7H6S3)(CO)6], was prepared as a biomimic for the active site of [FeFe]-hydrogenases. The central Fe2S2 core is in a butterfly conformation and each Fe(I) atom has a pseudo-square-pyramidal coordination by three O atoms and two S atoms. The Fe-Fe distance is 2.471 (2) Å and the dihedral angle between the two Fe-S-Fe planes is 78.96 (7)°. The least-squares plane through the -S(C7H6S)S- bridge nearly bis-ects the mol-ecular structure: except for the two Fe(CO)3 units, all atoms are in this plane with an average deviation from the plane of 0.028 (3) Å. In the crystal, the mol-ecules are linked into chains along [001] by C-H⋯π(arene) inter-actions.

Entities:  

Year:  2013        PMID: 23723776      PMCID: PMC3647810          DOI: 10.1107/S1600536813009860

Source DB:  PubMed          Journal:  Acta Crystallogr Sect E Struct Rep Online        ISSN: 1600-5368


Related literature

For general background to [FeFe]-hydrogenases, see: Capon et al. (2009 ▶); Tard & Pickett (2009 ▶). For the crystal structure of the natural enzyme, see: Peters et al. (1998 ▶); Nicolet et al. (1999 ▶). For related structures and the synthesis, see: Maiolo et al. (1981 ▶); Wang et al. (2005 ▶); Dong et al. (2006 ▶).

Experimental

Crystal data

[Fe2(C7H6S3)(CO)6] M = 466.06 Monoclinic, a = 16.531 (17) Å b = 7.975 (8) Å c = 13.047 (13) Å β = 92.055 (13)° V = 1719 (3) Å3 Z = 4 Mo Kα radiation μ = 2.08 mm−1 T = 295 K 0.39 × 0.24 × 0.08 mm

Data collection

Bruker APEXII CCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2001 ▶) T min = 0.555, T max = 0.847 8260 measured reflections 3024 independent reflections 2098 reflections with I > 2σ(I) R int = 0.055

Refinement

R[F 2 > 2σ(F 2)] = 0.036 wR(F 2) = 0.084 S = 0.97 3024 reflections 217 parameters H-atom parameters constrained Δρmax = 0.44 e Å−3 Δρmin = −0.31 e Å−3 Data collection: APEX2 (Bruker, 2007 ▶); cell refinement: SAINT-Plus (Bruker, 2007 ▶); data reduction: SAINT-Plus; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: SHELXTL (Sheldrick, 2008 ▶); software used to prepare material for publication: SHELXL97. Click here for additional data file. Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536813009860/vn2067sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536813009860/vn2067Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
[Fe2(C7H6S3)(CO)6]F(000) = 928
Mr = 466.06Dx = 1.801 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 2629 reflections
a = 16.531 (17) Åθ = 2.5–27.1°
b = 7.975 (8) ŵ = 2.08 mm1
c = 13.047 (13) ÅT = 295 K
β = 92.055 (13)°Block, red
V = 1719 (3) Å30.39 × 0.24 × 0.08 mm
Z = 4
Bruker APEXII CCD diffractometer3024 independent reflections
Radiation source: fine-focus sealed tube2098 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.055
φ and ω scansθmax = 25.0°, θmin = 2.5°
Absorption correction: multi-scan (SADABS; Bruker, 2001)h = −19→18
Tmin = 0.555, Tmax = 0.847k = −9→9
8260 measured reflectionsl = −15→13
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.036Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.084H-atom parameters constrained
S = 0.97w = 1/[σ2(Fo2) + (0.0341P)2] where P = (Fo2 + 2Fc2)/3
3024 reflections(Δ/σ)max < 0.001
217 parametersΔρmax = 0.44 e Å3
0 restraintsΔρmin = −0.31 e Å3
Geometry. All e.s.d.'s (except the e.s.d. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell e.s.d.'s are taken into account individually in the estimation of e.s.d.'s in distances, angles and torsion angles; correlations between e.s.d.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell e.s.d.'s is used for estimating e.s.d.'s involving l.s. planes.
Refinement. Refinement of F2 against ALL reflections. The weighted R-factor wR and goodness of fit S are based on F2, conventional R-factors R are based on F, with F set to zero for negative F2. The threshold expression of F2 > σ(F2) is used only for calculating R-factors(gt) etc. and is not relevant to the choice of reflections for refinement. R-factors based on F2 are statistically about twice as large as those based on F, and R- factors based on ALL data will be even larger.
xyzUiso*/Ueq
Fe10.17590 (2)0.29795 (7)0.64150 (4)0.04642 (17)
Fe20.18906 (3)0.54555 (7)0.52941 (4)0.04814 (18)
S30.46296 (5)0.53167 (12)0.73543 (7)0.0462 (2)
S20.22860 (5)0.28468 (12)0.48479 (7)0.0475 (2)
S10.27674 (5)0.48911 (12)0.66349 (7)0.0446 (2)
C80.35707 (16)0.3899 (4)0.5983 (2)0.0354 (7)
C100.3893 (2)0.2051 (4)0.4606 (3)0.0481 (9)
H10A0.37300.13750.40550.058*
C20.0831 (2)0.2118 (5)0.5909 (3)0.0560 (10)
C90.33421 (18)0.2915 (4)0.5159 (3)0.0401 (8)
C50.1075 (2)0.5260 (5)0.4373 (4)0.0605 (11)
C10.21760 (19)0.1120 (6)0.6991 (3)0.0564 (10)
C70.43793 (17)0.4062 (4)0.6280 (3)0.0377 (8)
C110.4698 (2)0.2221 (5)0.4897 (3)0.0514 (9)
H11A0.50860.16480.45350.062*
C120.49397 (19)0.3216 (4)0.5709 (3)0.0449 (9)
H12A0.54880.33240.58790.054*
O20.02428 (15)0.1593 (4)0.5570 (3)0.0859 (10)
O10.24308 (17)−0.0076 (4)0.7338 (3)0.0867 (11)
C40.2506 (2)0.6882 (6)0.4606 (4)0.0700 (12)
O50.05695 (18)0.5075 (4)0.3771 (3)0.0918 (11)
O60.09707 (19)0.7802 (4)0.6518 (3)0.0961 (12)
O40.2905 (2)0.7821 (5)0.4201 (3)0.1088 (13)
O30.09360 (19)0.4359 (5)0.8164 (3)0.0994 (12)
C60.1338 (2)0.6903 (5)0.6042 (4)0.0643 (12)
C30.1254 (2)0.3805 (6)0.7494 (4)0.0631 (11)
C130.57037 (19)0.5072 (4)0.7506 (3)0.0543 (10)
H13A0.59000.57210.80820.082*
H13B0.59560.54540.68970.082*
H13C0.58310.39110.76190.082*
U11U22U33U12U13U23
Fe10.0379 (3)0.0561 (4)0.0452 (3)−0.0011 (2)0.0000 (2)0.0002 (3)
Fe20.0429 (3)0.0491 (4)0.0522 (4)0.0050 (2)−0.0029 (2)−0.0011 (3)
S30.0421 (4)0.0487 (6)0.0479 (6)−0.0040 (4)0.0011 (4)−0.0067 (5)
S20.0480 (4)0.0519 (6)0.0422 (6)−0.0004 (4)−0.0046 (4)−0.0077 (5)
S10.0379 (4)0.0538 (6)0.0423 (6)0.0033 (4)0.0016 (4)−0.0123 (4)
C80.0392 (15)0.036 (2)0.0313 (19)0.0026 (15)0.0060 (13)−0.0023 (16)
C100.061 (2)0.046 (2)0.038 (2)0.0035 (18)0.0044 (17)−0.0051 (18)
C20.052 (2)0.058 (3)0.057 (3)0.0055 (19)−0.0012 (18)0.002 (2)
C90.0433 (16)0.040 (2)0.037 (2)0.0048 (15)0.0035 (14)0.0003 (17)
C50.052 (2)0.061 (3)0.068 (3)0.0124 (19)−0.001 (2)−0.002 (2)
C10.0372 (17)0.070 (3)0.061 (3)−0.0023 (19)−0.0012 (17)−0.001 (2)
C70.0405 (16)0.0300 (19)0.043 (2)−0.0003 (14)0.0051 (14)0.0067 (16)
C110.056 (2)0.050 (2)0.050 (3)0.0106 (18)0.0194 (17)0.003 (2)
C120.0416 (17)0.046 (2)0.048 (2)0.0045 (16)0.0079 (15)0.0058 (19)
O20.0549 (15)0.087 (2)0.115 (3)−0.0205 (15)−0.0156 (17)−0.004 (2)
O10.0665 (18)0.085 (2)0.108 (3)0.0094 (17)−0.0127 (18)0.028 (2)
C40.062 (2)0.069 (3)0.079 (3)0.006 (2)−0.005 (2)0.006 (3)
O50.0720 (19)0.109 (3)0.092 (3)0.0123 (17)−0.034 (2)−0.008 (2)
O60.083 (2)0.088 (3)0.117 (3)0.0311 (18)−0.0015 (19)−0.043 (2)
O40.101 (2)0.096 (3)0.130 (4)−0.025 (2)0.021 (2)0.030 (3)
O30.087 (2)0.145 (3)0.068 (3)0.028 (2)0.0250 (19)−0.007 (2)
C60.048 (2)0.064 (3)0.080 (3)0.004 (2)−0.011 (2)−0.005 (3)
C30.0422 (19)0.087 (3)0.060 (3)0.005 (2)0.0038 (19)0.007 (3)
C130.0432 (18)0.055 (3)0.064 (3)−0.0049 (16)−0.0044 (17)−0.001 (2)
Fe1—C11.789 (5)C8—C91.373 (4)
Fe1—C21.786 (4)C10—C91.368 (5)
Fe1—C31.788 (5)C10—C111.378 (5)
Fe1—Fe22.471 (2)C10—H10A0.9300
Fe1—S12.2695 (19)C11—C121.372 (5)
Fe1—S22.253 (2)C11—H11A0.9300
Fe2—C41.789 (5)C12—H12A0.9300
Fe2—C51.781 (4)C13—H13A0.9600
Fe2—C61.784 (5)C13—H13B0.9600
Fe2—S12.2763 (19)C13—H13C0.9600
Fe2—S22.263 (2)O3—C31.127 (5)
C1—O11.131 (4)O6—C61.139 (5)
C2—O21.133 (4)S1—C81.787 (3)
C4—O41.140 (5)S2—C91.779 (3)
C5—O51.135 (5)S3—C71.759 (4)
C7—C121.385 (5)S3—C131.790 (4)
C8—C71.385 (4)
C2—Fe1—C390.77 (19)C8—S1—Fe1101.39 (13)
C2—Fe1—C198.59 (17)C8—S1—Fe2100.67 (13)
C3—Fe1—C199.1 (2)Fe1—S1—Fe265.86 (5)
C2—Fe1—S290.09 (15)C9—C8—C7120.6 (3)
C3—Fe1—S2159.76 (15)C9—C8—S1115.9 (2)
C1—Fe1—S2100.74 (14)C7—C8—S1123.4 (2)
C2—Fe1—S1157.30 (13)C9—C10—C11117.3 (3)
C3—Fe1—S190.84 (14)C9—C10—H10A121.3
C1—Fe1—S1103.50 (13)C11—C10—H10A121.3
S2—Fe1—S180.80 (5)O2—C2—Fe1178.5 (4)
C2—Fe1—Fe2100.45 (13)C10—C9—C8122.1 (3)
C3—Fe1—Fe2103.00 (16)C10—C9—S2122.0 (3)
C1—Fe1—Fe2150.44 (12)C8—C9—S2115.9 (2)
S2—Fe1—Fe257.01 (5)O5—C5—Fe2177.1 (4)
S1—Fe1—Fe257.20 (5)O1—C1—Fe1178.4 (4)
C5—Fe2—C692.06 (19)C8—C7—C12117.4 (3)
C5—Fe2—C498.5 (2)C8—C7—S3118.3 (2)
C6—Fe2—C4100.1 (2)C12—C7—S3124.3 (2)
C5—Fe2—S287.98 (13)C12—C11—C10121.5 (3)
C6—Fe2—S2153.34 (15)C12—C11—H11A119.3
C4—Fe2—S2106.31 (16)C10—C11—H11A119.3
C5—Fe2—S1161.32 (14)C11—C12—C7121.0 (3)
C6—Fe2—S191.81 (15)C11—C12—H12A119.5
C4—Fe2—S198.82 (15)C7—C12—H12A119.5
S2—Fe2—S180.45 (5)O4—C4—Fe2177.5 (5)
C5—Fe2—Fe1104.41 (14)O6—C6—Fe2178.4 (4)
C6—Fe2—Fe197.78 (16)O3—C3—Fe1178.5 (5)
C4—Fe2—Fe1150.30 (13)S3—C13—H13A109.5
S2—Fe2—Fe156.64 (3)S3—C13—H13B109.5
S1—Fe2—Fe156.94 (5)H13A—C13—H13B109.5
C7—S3—C13103.30 (16)S3—C13—H13C109.5
C9—S2—Fe1101.52 (13)H13A—C13—H13C109.5
C9—S2—Fe2101.73 (12)H13B—C13—H13C109.5
Fe1—S2—Fe266.35 (4)
D—H···AD—HH···AD···AD—H···A
C13—H13A···Cg1i0.962.693.590 (5)157
Table 1

Selected bond lengths (Å)

Fe1—C11.789 (5)
Fe1—C21.786 (4)
Fe1—C31.788 (5)
Fe1—S12.2695 (19)
Fe1—S22.253 (2)
Fe2—C41.789 (5)
Fe2—C51.781 (4)
Fe2—C61.784 (5)
Fe2—S12.2763 (19)
Fe2—S22.263 (2)
Table 2

C—H⋯π(arene) inter­action geometry (Å, °)

Cg1 is the centroid of the C7–C12 ring.

D—H⋯A D—HH⋯A DA D—H⋯A
C13—H13ACg1i 0.962.693.590 (5)157

Symmetry code: (i) .

  6 in total

1.  An insight into the protonation property of a diiron azadithiolate complex pertinent to the active site of Fe-only hydrogenases.

Authors:  Weibing Dong; Mei Wang; Xiaoyang Liu; Kun Jin; Guanghua Li; Fujun Wang; Licheng Sun
Journal:  Chem Commun (Camb)       Date:  2005-11-22       Impact factor: 6.222

2.  Spectroscopic and crystallographic evidence for the N-protonated FeIFeI azadithiolate complex related to the active site of Fe-only hydrogenases.

Authors:  Fujun Wang; Mei Wang; Xiaoyang Liu; Kun Jin; Weibing Dong; Guanghua Li; Björn Akermark; Licheng Sun
Journal:  Chem Commun (Camb)       Date:  2005-05-18       Impact factor: 6.222

3.  A short history of SHELX.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

Review 4.  Structural and functional analogues of the active sites of the [Fe]-, [NiFe]-, and [FeFe]-hydrogenases.

Authors:  Cédric Tard; Christopher J Pickett
Journal:  Chem Rev       Date:  2009-06       Impact factor: 60.622

5.  Desulfovibrio desulfuricans iron hydrogenase: the structure shows unusual coordination to an active site Fe binuclear center.

Authors:  Y Nicolet; C Piras; P Legrand; C E Hatchikian; J C Fontecilla-Camps
Journal:  Structure       Date:  1999-01-15       Impact factor: 5.006

6.  X-ray crystal structure of the Fe-only hydrogenase (CpI) from Clostridium pasteurianum to 1.8 angstrom resolution.

Authors:  J W Peters; W N Lanzilotta; B J Lemon; L C Seefeldt
Journal:  Science       Date:  1998-12-04       Impact factor: 47.728

  6 in total
  1 in total

Review 1.  Synthesis of Diiron(I) Dithiolato Carbonyl Complexes.

Authors:  Yulong Li; Thomas B Rauchfuss
Journal:  Chem Rev       Date:  2016-06-03       Impact factor: 60.622

  1 in total

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