Literature DB >> 21588204

Dibenzoatobis[3-(pyrrol-1-ylmeth-yl)pyridine]-zinc(II).

Hong Gyu Lee, Jin Hoon Kim, Pan-Gi Kim, Cheal Kim, Youngmee Kim.   

Abstract

In the title compound, [Zn(C(7)H(5)O(2))(2)(C(10)H(10)N(2))(2)], the Zn(II) ion, located on a twofold axis, is coordinated by two N atoms from two 3-(pyrrol-1-ylmeth-yl)pyridine ligands and two O atoms from two benzoate ligands in a distorted tetra-hedral geometry. The pyridine and the pyrrole rings are nearly perpendicular to each other, making a dihedral angle of 84.83 (7)°.

Entities:  

Year:  2010        PMID: 21588204      PMCID: PMC3007343          DOI: 10.1107/S1600536810028503

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


Related literature

For examples of inter­actions between transition metal ions and biologically active mol­ecules, see: Daniele et al. (2008 ▶); Parkin (2004 ▶); Tshuva & Lippard (2004 ▶). For related structures, see: Lee et al. (2008 ▶); Park et al. (2008 ▶); Shin et al.(2009 ▶); Yu et al. (2008 ▶, 2009 ▶, 2010 ▶). For a description of the Cambridge Structural Database, see: Allen (2002 ▶).

Experimental

Crystal data

[Zn(C7H5O2)2(C10H10N2)2] M = 623.99 Monoclinic, a = 14.4347 (14) Å b = 9.4399 (9) Å c = 11.1959 (11) Å β = 102.896 (2)° V = 1487.1 (2) Å3 Z = 2 Mo Kα radiation μ = 0.87 mm−1 T = 170 K 0.15 × 0.10 × 0.03 mm

Data collection

Bruker SMART CCD diffractometer 8090 measured reflections 2904 independent reflections 2204 reflections with I > 2σ(I) R int = 0.065

Refinement

R[F 2 > 2σ(F 2)] = 0.034 wR(F 2) = 0.071 S = 0.91 2904 reflections 195 parameters H-atom parameters constrained Δρmax = 0.52 e Å−3 Δρmin = −0.51 e Å−3 Data collection: SMART (Bruker, 1997 ▶); cell refinement: SAINT (Bruker, 1997 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEPIII (Burnett & Johnson, 1996 ▶) and ORTEP-3 for Windows (Farrugia, 1997 ▶); software used to prepare material for publication: SHELXTL (Sheldrick, 2008 ▶). Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536810028503/dn2587sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810028503/dn2587Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
[Zn(C7H5O2)2(C10H10N2)2]F(000) = 648
Mr = 623.99Dx = 1.394 Mg m3
Monoclinic, P2/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ycCell parameters from 2361 reflections
a = 14.4347 (14) Åθ = 2.6–24.6°
b = 9.4399 (9) ŵ = 0.87 mm1
c = 11.1959 (11) ÅT = 170 K
β = 102.896 (2)°Plate, colorless
V = 1487.1 (2) Å30.15 × 0.10 × 0.03 mm
Z = 2
Bruker SMART CCD diffractometer2204 reflections with I > 2σ(I)
Radiation source: fine-focus sealed tubeRint = 0.065
graphiteθmax = 26.0°, θmin = 2.2°
φ and ω scansh = −9→17
8090 measured reflectionsk = −11→11
2904 independent reflectionsl = −13→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)] = 0.034Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.071H-atom parameters constrained
S = 0.91w = 1/[σ2(Fo2) + (0.0248P)2] where P = (Fo2 + 2Fc2)/3
2904 reflections(Δ/σ)max < 0.001
195 parametersΔρmax = 0.52 e Å3
0 restraintsΔρmin = −0.51 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
Zn10.50000.58373 (4)0.75000.02372 (12)
O110.39278 (9)0.51333 (15)0.63040 (12)0.0289 (4)
O120.36133 (10)0.38352 (16)0.78176 (13)0.0376 (4)
C110.33872 (14)0.4306 (2)0.67596 (19)0.0259 (5)
C120.24503 (14)0.3958 (2)0.59353 (18)0.0241 (5)
C130.22904 (14)0.4186 (2)0.46787 (18)0.0294 (5)
H130.27940.45110.43300.035*
C140.14056 (16)0.3944 (2)0.3935 (2)0.0364 (6)
H140.13030.40940.30760.044*
C150.06679 (16)0.3482 (2)0.4441 (2)0.0395 (6)
H150.00560.33300.39300.047*
C160.08190 (16)0.3240 (3)0.5688 (2)0.0387 (6)
H160.03110.29240.60340.046*
C170.17063 (15)0.3458 (2)0.6428 (2)0.0310 (5)
H170.18130.32660.72810.037*
N210.45103 (11)0.72476 (17)0.86239 (14)0.0238 (4)
N220.22689 (12)1.08801 (19)0.91482 (16)0.0316 (4)
C210.48598 (14)0.7216 (2)0.98335 (18)0.0258 (5)
H210.53240.65231.01620.031*
C220.45709 (15)0.8149 (2)1.06183 (19)0.0325 (5)
H220.48240.80881.14760.039*
C230.39112 (15)0.9174 (2)1.01497 (19)0.0328 (5)
H230.37080.98291.06820.039*
C240.35458 (14)0.9243 (2)0.88950 (19)0.0283 (5)
C250.38588 (14)0.8249 (2)0.81762 (18)0.0258 (5)
H250.36020.82700.73180.031*
C260.28375 (16)1.0365 (2)0.8315 (2)0.0380 (6)
H26A0.31841.11710.80530.046*
H26B0.24100.99660.75760.046*
C270.24005 (15)1.2131 (2)0.9763 (2)0.0337 (5)
H270.28431.28470.96750.040*
C280.17895 (16)1.2179 (3)1.0527 (2)0.0389 (6)
H280.17251.29321.10650.047*
C290.12722 (16)1.0912 (3)1.0374 (2)0.0443 (6)
H290.07901.06491.07860.053*
C300.15875 (16)1.0129 (3)0.9527 (2)0.0429 (6)
H300.13680.92120.92480.051*
U11U22U33U12U13U23
Zn10.0232 (2)0.0247 (2)0.0228 (2)0.0000.00434 (14)0.000
O110.0247 (8)0.0311 (9)0.0300 (8)−0.0069 (7)0.0045 (7)−0.0004 (7)
O120.0319 (9)0.0500 (11)0.0286 (9)−0.0016 (7)0.0017 (7)0.0079 (7)
C110.0262 (12)0.0236 (12)0.0279 (12)0.0047 (10)0.0060 (9)−0.0044 (10)
C120.0244 (11)0.0186 (11)0.0291 (12)0.0026 (9)0.0053 (9)−0.0004 (9)
C130.0300 (12)0.0264 (12)0.0319 (12)−0.0026 (10)0.0073 (10)−0.0006 (10)
C140.0398 (14)0.0333 (14)0.0307 (13)−0.0035 (11)−0.0039 (11)0.0008 (10)
C150.0244 (13)0.0347 (14)0.0524 (16)−0.0013 (11)−0.0066 (11)−0.0031 (12)
C160.0274 (13)0.0373 (14)0.0528 (16)−0.0030 (11)0.0121 (12)−0.0014 (12)
C170.0303 (13)0.0293 (12)0.0337 (13)0.0007 (10)0.0078 (10)0.0015 (10)
N210.0230 (10)0.0257 (10)0.0228 (9)−0.0016 (7)0.0054 (7)0.0014 (8)
N220.0309 (10)0.0248 (10)0.0403 (11)0.0040 (9)0.0104 (8)0.0000 (9)
C210.0243 (12)0.0289 (12)0.0240 (12)0.0007 (9)0.0051 (9)0.0047 (10)
C220.0374 (14)0.0400 (14)0.0196 (11)−0.0015 (11)0.0052 (10)0.0004 (10)
C230.0416 (14)0.0297 (12)0.0290 (12)0.0012 (11)0.0121 (10)−0.0053 (11)
C240.0312 (12)0.0252 (12)0.0296 (12)0.0010 (10)0.0094 (10)0.0008 (10)
C250.0266 (12)0.0290 (12)0.0209 (11)0.0006 (10)0.0038 (9)0.0017 (10)
C260.0456 (15)0.0331 (14)0.0367 (14)0.0114 (11)0.0122 (12)0.0002 (11)
C270.0319 (13)0.0268 (13)0.0417 (14)0.0008 (10)0.0070 (11)−0.0017 (11)
C280.0350 (15)0.0418 (15)0.0410 (14)0.0066 (11)0.0107 (12)−0.0063 (12)
C290.0298 (13)0.0471 (16)0.0604 (17)0.0038 (12)0.0197 (12)0.0083 (14)
C300.0353 (15)0.0275 (14)0.0649 (18)−0.0029 (11)0.0093 (13)−0.0004 (12)
Zn1—O11i1.9248 (13)N22—C271.359 (3)
Zn1—O111.9248 (13)N22—C261.457 (3)
Zn1—N21i2.0621 (16)C21—C221.373 (3)
Zn1—N212.0621 (16)C21—H210.9500
O11—C111.287 (2)C22—C231.377 (3)
O12—C111.239 (2)C22—H220.9500
C11—C121.494 (3)C23—C241.387 (3)
C12—C131.391 (3)C23—H230.9500
C12—C171.395 (3)C24—C251.376 (3)
C13—C141.379 (3)C24—C261.514 (3)
C13—H130.9500C25—H250.9500
C14—C151.383 (3)C26—H26A0.9900
C14—H140.9500C26—H26B0.9900
C15—C161.384 (3)C27—C281.359 (3)
C15—H150.9500C27—H270.9500
C16—C171.377 (3)C28—C291.400 (3)
C16—H160.9500C28—H280.9500
C17—H170.9500C29—C301.359 (3)
N21—C211.336 (2)C29—H290.9500
N21—C251.349 (2)C30—H300.9500
N22—C301.355 (3)
O11i—Zn1—O11139.60 (9)N21—C21—C22122.29 (19)
O11i—Zn1—N21i108.40 (6)N21—C21—H21118.9
O11—Zn1—N21i97.49 (6)C22—C21—H21118.9
O11i—Zn1—N2197.48 (6)C21—C22—C23119.3 (2)
O11—Zn1—N21108.39 (6)C21—C22—H22120.3
N21i—Zn1—N2199.58 (9)C23—C22—H22120.3
C11—O11—Zn1113.47 (13)C22—C23—C24119.6 (2)
O12—C11—O11122.87 (19)C22—C23—H23120.2
O12—C11—C12121.42 (19)C24—C23—H23120.2
O11—C11—C12115.70 (18)C25—C24—C23117.37 (19)
C13—C12—C17118.95 (19)C25—C24—C26120.30 (18)
C13—C12—C11120.95 (18)C23—C24—C26122.32 (19)
C17—C12—C11120.04 (18)N21—C25—C24123.58 (18)
C14—C13—C12120.5 (2)N21—C25—H25118.2
C14—C13—H13119.8C24—C25—H25118.2
C12—C13—H13119.8N22—C26—C24112.46 (17)
C13—C14—C15119.9 (2)N22—C26—H26A109.1
C13—C14—H14120.0C24—C26—H26A109.1
C15—C14—H14120.0N22—C26—H26B109.1
C14—C15—C16120.2 (2)C24—C26—H26B109.1
C14—C15—H15119.9H26A—C26—H26B107.8
C16—C15—H15119.9N22—C27—C28108.1 (2)
C17—C16—C15119.9 (2)N22—C27—H27125.9
C17—C16—H16120.0C28—C27—H27125.9
C15—C16—H16120.0C27—C28—C29107.3 (2)
C16—C17—C12120.5 (2)C27—C28—H28126.3
C16—C17—H17119.8C29—C28—H28126.3
C12—C17—H17119.8C30—C29—C28107.3 (2)
C21—N21—C25117.83 (17)C30—C29—H29126.3
C21—N21—Zn1120.05 (14)C28—C29—H29126.3
C25—N21—Zn1122.09 (13)N22—C30—C29108.3 (2)
C30—N22—C27108.97 (18)N22—C30—H30125.9
C30—N22—C26125.30 (19)C29—C30—H30125.9
C27—N22—C26125.43 (19)
O11i—Zn1—O11—C1156.95 (13)N21i—Zn1—N21—C2556.41 (14)
N21i—Zn1—O11—C11−172.84 (13)C25—N21—C21—C220.7 (3)
N21—Zn1—O11—C11−70.10 (14)Zn1—N21—C21—C22178.71 (15)
Zn1—O11—C11—O12−10.7 (3)N21—C21—C22—C23−1.2 (3)
Zn1—O11—C11—C12168.33 (12)C21—C22—C23—C240.3 (3)
O12—C11—C12—C13−164.0 (2)C22—C23—C24—C251.0 (3)
O11—C11—C12—C1317.0 (3)C22—C23—C24—C26−178.4 (2)
O12—C11—C12—C1718.9 (3)C21—N21—C25—C240.8 (3)
O11—C11—C12—C17−160.13 (18)Zn1—N21—C25—C24−177.24 (15)
C17—C12—C13—C141.1 (3)C23—C24—C25—N21−1.6 (3)
C11—C12—C13—C14−176.02 (19)C26—C24—C25—N21177.83 (19)
C12—C13—C14—C150.5 (3)C30—N22—C26—C24−70.4 (3)
C13—C14—C15—C16−1.1 (3)C27—N22—C26—C24102.6 (2)
C14—C15—C16—C17−0.1 (4)C25—C24—C26—N22153.59 (19)
C15—C16—C17—C121.8 (3)C23—C24—C26—N22−27.0 (3)
C13—C12—C17—C16−2.3 (3)C30—N22—C27—C28−0.7 (3)
C11—C12—C17—C16174.9 (2)C26—N22—C27—C28−174.69 (19)
O11i—Zn1—N21—C21−11.37 (15)N22—C27—C28—C290.2 (3)
O11—Zn1—N21—C21137.18 (14)C27—C28—C29—C300.3 (3)
N21i—Zn1—N21—C21−121.55 (16)C27—N22—C30—C290.9 (3)
O11i—Zn1—N21—C25166.58 (15)C26—N22—C30—C29174.90 (19)
O11—Zn1—N21—C25−44.86 (16)C28—C29—C30—N22−0.8 (3)
  10 in total

1.  The Cambridge Structural Database: a quarter of a million crystal structures and rising.

Authors:  Frank H Allen
Journal:  Acta Crystallogr B       Date:  2002-05-29

Review 2.  Synthetic analogues relevant to the structure and function of zinc enzymes.

Authors:  Gerard Parkin
Journal:  Chem Rev       Date:  2004-02       Impact factor: 60.622

Review 3.  Synthetic models for non-heme carboxylate-bridged diiron metalloproteins: strategies and tactics.

Authors:  Edit Y Tshuva; Stephen J Lippard
Journal:  Chem Rev       Date:  2004-02       Impact factor: 60.622

4.  A short history of SHELX.

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

5.  catena-Poly[[bis-(2-hydr-oxy-2-phenyl-acetato-κO,O)zinc(II)]-μ-1,2-di-4-pyridylethane-κN:N'].

Authors:  Seung Man Yu; Dong Hoon Shin; Pan-Gi Kim; Cheal Kim; Youngmee Kim
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-08-08

6.  A neutral cubane with a Zn(4)O(4) core: tetra-benzoato-tetra-kis(μ(3)-hydroxydi-2-pyridylmethano-lato)tetra-zinc(II)-acetone-methanol (1/2/1).

Authors:  Dong Hoon Shin; Sim-Hee Han; Pan-Gi Kim; Cheal Kim; Youngmee Kim
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-05-20

7.  Tetra-μ-benzoato-bis-{[4-(pyrrolidin-1-yl)pyridine]zinc(II)}.

Authors:  Seung Man Yu; Kyosang Koo; Pan-Gi Kim; Cheal Kim; Youngmee Kim
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-12-12

8.  Tetra-μ-benzoato-bis-[(3-methyl-quinoline)copper(II)](Cu-Cu).

Authors:  Byeong Kwon Park; Kyung-Hwan Jang; Pan-Gi Kim; Cheal Kim; Youngmee Kim
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2008-08-09

9.  Tetra-μ-benzoato-bis-[(6-methyl-quino-line)-copper(II)].

Authors:  Seung Man Yu; Chi-Ho Park; Pan-Gi Kim; Cheal Kim; Youngmee Kim
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2008-06-07

10.  Tetra-μ-benzoato-bis-[(quinoxaline)copper(II)].

Authors:  Eun Yong Lee; Byeong Kwon Park; Cheal Kim; Sung-Jin Kim; Youngmee Kim
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2008-01-04
  10 in total

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