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The crystal structure of the title compound, [Pd(C7H16N2)2]Cl2·3CH3OH, has been determined at 180 (2) K in the non-centrosymmetric space group P212121. The structure contains only one crystallographically unique Pd metal centre, showing a slightly distorted square-planar geometry, in which the two chiral (S)-(−)-2-amino­methyl-1-ethyl­pyrrolidine di­amines are coordinated with a trans configuration in order to minimize the steric interaction between neighbouring substituent ethyl groups. [Pd(C7H16N2)2]2+ complex cations are strongly hydrogen-bonded to the Cl anions and methanol mol­ecules, forming supramolecular tapes running along the a axis.

Supporting information

cif

Crystallographic Information File (CIF) https://doi.org/10.1107/S1600536803022943/cf6288sup1.cif
Contains datablocks global, I

hkl

Structure factor file (CIF format) https://doi.org/10.1107/S1600536803022943/cf6288Isup2.hkl
Contains datablock I

CCDC reference: 226660

Key indicators

  • Single-crystal X-ray study
  • T = 180 K
  • Mean [sigma](C-C) = 0.005 Å
  • Disorder in solvent or counterion
  • R factor = 0.036
  • wR factor = 0.075
  • Data-to-parameter ratio = 21.9

checkCIF/PLATON results

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Alert level A PLAT029_ALERT_3_A _diffrn_measured_fraction_theta_full Low ....... 0.98
Alert level B PLAT415_ALERT_2_B Short Inter D-H..H-X H4C .. H17F = 2.06 Ang.
Alert level C PLAT042_ALERT_1_C Calc. and Rep. MoietyFormula Strings Differ .... ? PLAT302_ALERT_4_C Anion/Solvent Disorder ......................... 20.00 Perc. PLAT790_ALERT_4_C Centre of Gravity not Within Unit Cell: Resd. # 3 C H4 O
Alert level G REFLT03_ALERT_4_G Please check that the estimate of the number of Friedel pairs is correct. If it is not, please give the correct count in the _publ_section_exptl_refinement section of the submitted CIF. From the CIF: _diffrn_reflns_theta_max 27.45 From the CIF: _reflns_number_total 5324 Count of symmetry unique reflns 3239 Completeness (_total/calc) 164.37% TEST3: Check Friedels for noncentro structure Estimate of Friedel pairs measured 2085 Fraction of Friedel pairs measured 0.644 Are heavy atom types Z>Si present yes
1 ALERT level A = In general: serious problem 1 ALERT level B = Potentially serious problem 3 ALERT level C = Check and explain 1 ALERT level G = General alerts; check 1 ALERT type 1 CIF construction/syntax error, inconsistent or missing data 1 ALERT type 2 Indicator that the structure model may be wrong or deficient 1 ALERT type 3 Indicator that the structure quality may be low 3 ALERT type 4 Improvement, methodology, query or suggestion

Computing details top

Data collection: COLLECT (Nonius, 1998); cell refinement: HKL SCALEPACK (Otwinowski & Minor, 1997); data reduction: HKL DENZO (Otwinowski & Minor, 1997) and SCALEPACK; program(s) used to solve structure: SIR92 (Altomare et al., 1994); program(s) used to refine structure: SHELXTL (Bruker, 2001); molecular graphics: SHELXTL; software used to prepare material for publication: SHELXTL.

trans-Bis[(S)-(-)-2-aminomethyl-1-ethylpyrrolidine-κ2N]palladium(II) dichloride methanol trisolvate top
Crystal data top
[Pd(C7H16N2)2]Cl2·3CH4OF(000) = 1112
Mr = 529.86Dx = 1.417 Mg m3
Orthorhombic, P212121Mo Kα radiation, λ = 0.71073 Å
Hall symbol: P 2ac 2abCell parameters from 14842 reflections
a = 7.3092 (1) Åθ = 1.0–27.5°
b = 12.9075 (2) ŵ = 0.99 mm1
c = 26.3277 (6) ÅT = 180 K
V = 2483.85 (8) Å3Block, yellow
Z = 40.23 × 0.10 × 0.10 mm
Data collection top
Nonius Kappa CCD area-detector
diffractometer
4721 reflections with I > 2σ(I)
Radiation source: fine-focus sealed tubeRint = 0.046
thin slice ω and φ scansθmax = 27.5°, θmin = 3.5°
Absorption correction: multi-scan
(SORTAV; Blessing, 1995)
h = 99
Tmin = 0.843, Tmax = 0.906k = 1616
14487 measured reflectionsl = 2934
5324 independent reflections
Refinement top
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.036H-atom parameters constrained
wR(F2) = 0.075 w = 1/[σ2(Fo2) + (0.0286P)2 + 1.4529P]
where P = (Fo2 + 2Fc2)/3
S = 1.01(Δ/σ)max = 0.002
5324 reflectionsΔρmax = 0.52 e Å3
243 parametersΔρmin = 1.10 e Å3
0 restraintsAbsolute structure: Flack (1983), 2149 Friedel pairs
Primary atom site location: structure-invariant direct methodsAbsolute structure parameter: 0.02 (3)
Special details top

Experimental. -OH hydrogen atoms were not located in difference Fourier maps and were instead placed in calculated positions with AFIX 14 instructions.

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.

Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top
xyzUiso*/UeqOcc. (<1)
Pd10.45964 (3)0.68757 (2)0.129037 (10)0.01785 (7)
Cl10.86106 (13)0.04170 (8)0.23553 (4)0.0327 (2)
Cl20.90153 (12)0.61434 (8)0.02073 (4)0.0316 (2)
N10.4681 (4)0.8453 (2)0.13970 (10)0.0185 (6)
C10.8075 (5)0.8488 (3)0.12406 (18)0.0323 (10)
H1A0.90400.88800.10670.048*
H1B0.80480.77780.11090.048*
H1C0.83230.84750.16060.048*
N20.4355 (4)0.6835 (2)0.20626 (10)0.0225 (6)
H2A0.35710.63130.21580.027*
H2B0.54780.67130.22090.027*
C20.6253 (5)0.8999 (3)0.11461 (16)0.0255 (9)
H2C0.63040.97210.12720.031*
H2D0.60300.90250.07750.031*
N30.4224 (4)0.5312 (2)0.11751 (11)0.0212 (7)
C30.2921 (5)0.8920 (3)0.12177 (16)0.0242 (9)
H3A0.18790.84550.12950.029*
H3B0.29590.90450.08470.029*
N40.4974 (3)0.6908 (2)0.05212 (10)0.0209 (6)
H4A0.44750.75020.03870.025*
H4B0.62030.68980.04460.025*
C40.2737 (5)0.9943 (3)0.15075 (15)0.0300 (9)
H4C0.33161.05160.13160.036*
H4D0.14331.01150.15650.036*
C50.3721 (5)0.9766 (3)0.20123 (15)0.0297 (9)
H5A0.28350.97570.22970.036*
H5B0.46301.03200.20750.036*
C60.4680 (5)0.8702 (3)0.19618 (13)0.0216 (7)
H60.59610.87420.20930.026*
C70.3630 (5)0.7854 (3)0.22326 (14)0.0256 (9)
H7A0.37780.79260.26050.031*
H7B0.23110.79060.21510.031*
C80.7377 (5)0.4915 (3)0.15137 (16)0.0331 (10)
H8A0.80480.44290.17310.050*
H8B0.75310.56210.16440.050*
H8C0.78540.48760.11660.050*
C90.5354 (5)0.4634 (3)0.15137 (14)0.0263 (8)
H9A0.52180.39050.14020.032*
H9B0.48800.46850.18650.032*
C100.2238 (5)0.5038 (3)0.12357 (17)0.0258 (8)
H10A0.14510.56040.11060.031*
H10B0.19400.49180.15980.031*
C110.1951 (6)0.4051 (3)0.09266 (16)0.0340 (10)
H11A0.07050.40320.07800.041*
H11B0.21260.34290.11420.041*
C120.3395 (6)0.4096 (3)0.05078 (16)0.0337 (10)
H12A0.28060.41620.01710.040*
H12B0.41510.34590.05100.040*
C130.4581 (5)0.5052 (3)0.06218 (13)0.0223 (7)
H130.59030.48820.05710.027*
C140.4063 (5)0.5983 (3)0.03029 (15)0.0242 (8)
H14A0.44630.58790.00530.029*
H14B0.27190.60780.03050.029*
C151.1732 (6)0.2558 (4)0.2127 (2)0.0458 (12)
H15A1.15930.32900.22180.055*
H15B1.06790.23380.19230.055*
H15C1.28560.24670.19290.055*
O11.1830 (4)0.1947 (3)0.25769 (11)0.0411 (7)
H11.10130.14900.25690.049*
C160.7675 (7)0.1925 (5)0.1078 (2)0.0575 (13)
H16A0.82810.26000.10500.069*
H16B0.68400.18310.07900.069*
H16C0.85980.13740.10750.069*
O20.6691 (5)0.1881 (3)0.15290 (15)0.0704 (11)
H20.72390.14960.17360.084*
C170.7291 (8)0.3567 (5)0.9689 (3)0.0661 (11)*0.50
H17A0.69010.31540.99820.079*0.50
H17B0.71970.31470.93790.079*0.50
H17C0.65040.41780.96570.079*0.50
O30.9132 (10)0.3886 (6)0.9758 (3)0.0661 (11)*0.50
H30.91790.43420.99850.079*0.50
C17'0.7291 (8)0.3567 (5)0.9689 (3)0.0661 (11)*0.50
H17D0.60400.37440.97900.079*0.50
H17E0.73280.28470.95710.079*0.50
H17F0.76830.40270.94130.079*0.50
O3'0.8417 (10)0.3681 (6)1.0087 (3)0.0661 (11)*0.50
H3'0.90140.42331.00550.079*0.50
Atomic displacement parameters (Å2) top
U11U22U33U12U13U23
Pd10.01594 (12)0.01959 (13)0.01803 (12)0.00027 (11)0.00031 (11)0.00015 (13)
Cl10.0293 (5)0.0354 (6)0.0334 (5)0.0040 (4)0.0063 (4)0.0062 (5)
Cl20.0254 (5)0.0362 (6)0.0334 (5)0.0024 (4)0.0042 (4)0.0104 (5)
N10.0151 (13)0.0190 (14)0.0215 (15)0.0010 (12)0.0027 (12)0.0014 (12)
C10.0198 (19)0.044 (3)0.033 (2)0.0045 (16)0.0013 (17)0.003 (2)
N20.0248 (16)0.0233 (16)0.0195 (14)0.0014 (16)0.0008 (12)0.0013 (15)
C20.0207 (19)0.028 (2)0.028 (2)0.0066 (15)0.0046 (15)0.0028 (18)
N30.0217 (16)0.0215 (16)0.0204 (16)0.0011 (11)0.0004 (12)0.0016 (13)
C30.0174 (18)0.027 (2)0.029 (2)0.0056 (15)0.0029 (16)0.0010 (19)
N40.0212 (16)0.0218 (15)0.0197 (14)0.0022 (13)0.0023 (10)0.0022 (15)
C40.029 (2)0.028 (2)0.033 (2)0.0106 (17)0.0019 (17)0.002 (2)
C50.032 (2)0.029 (2)0.028 (2)0.0028 (18)0.0013 (17)0.0060 (19)
C60.0196 (16)0.0251 (19)0.0201 (17)0.0008 (17)0.0016 (16)0.0024 (16)
C70.0273 (19)0.030 (2)0.0197 (19)0.0031 (16)0.0014 (15)0.0020 (17)
C80.030 (2)0.037 (3)0.033 (2)0.0056 (18)0.0033 (18)0.001 (2)
C90.0306 (19)0.0218 (19)0.0266 (18)0.0040 (18)0.0030 (18)0.0026 (16)
C100.0218 (19)0.031 (2)0.025 (2)0.0057 (15)0.0041 (17)0.0011 (19)
C110.035 (2)0.036 (3)0.031 (2)0.0155 (18)0.0043 (18)0.002 (2)
C120.042 (2)0.029 (2)0.029 (2)0.0080 (18)0.0054 (18)0.005 (2)
C130.0201 (16)0.0251 (19)0.0218 (17)0.0024 (17)0.0021 (17)0.0026 (16)
C140.025 (2)0.027 (2)0.0202 (18)0.0019 (14)0.0008 (14)0.0037 (17)
C150.050 (3)0.035 (3)0.052 (3)0.009 (2)0.021 (2)0.007 (2)
O10.0420 (16)0.0391 (18)0.0424 (18)0.0111 (14)0.0157 (13)0.0078 (17)
C160.072 (3)0.054 (3)0.046 (3)0.011 (3)0.005 (3)0.005 (3)
O20.078 (3)0.077 (3)0.057 (2)0.020 (2)0.0108 (19)0.013 (2)
Geometric parameters (Å, º) top
Pd1—N22.041 (3)C8—C91.522 (6)
Pd1—N42.044 (3)C8—H8A0.980
Pd1—N12.056 (3)C8—H8B0.980
Pd1—N32.059 (3)C8—H8C0.980
N1—C31.496 (4)C9—H9A0.990
N1—C21.501 (4)C9—H9B0.990
N1—C61.521 (4)C10—C111.527 (6)
C1—C21.507 (5)C10—H10A0.990
C1—H1A0.980C10—H10B0.990
C1—H1B0.980C11—C121.527 (5)
C1—H1C0.980C11—H11A0.990
N2—C71.487 (4)C11—H11B0.990
N2—H2A0.920C12—C131.539 (5)
N2—H2B0.920C12—H12A0.990
C2—H2C0.990C12—H12B0.990
C2—H2D0.990C13—C141.513 (5)
N3—C91.498 (4)C13—H131.000
N3—C101.503 (5)C14—H14A0.990
N3—C131.517 (4)C14—H14B0.990
C3—C41.532 (5)C15—O11.425 (5)
C3—H3A0.990C15—H15A0.980
C3—H3B0.990C15—H15B0.980
N4—C141.484 (4)C15—H15C0.980
N4—H4A0.920O1—H10.840
N4—H4B0.920C16—O21.390 (6)
C4—C51.529 (5)C16—H16A0.980
C4—H4C0.990C16—H16B0.980
C4—H4D0.990C16—H16C0.980
C5—C61.547 (5)O2—H20.840
C5—H5A0.990C17—O31.419 (9)
C5—H5B0.990C17—H17A0.980
C6—C71.515 (5)C17—H17B0.980
C6—H61.000C17—H17C0.980
C7—H7A0.990O3—H30.840
C7—H7B0.990O3'—H3'0.840
N2—Pd1—N4177.17 (11)C5—C6—H6110.4
N2—Pd1—N183.80 (12)N2—C7—C6108.5 (3)
N4—Pd1—N196.36 (12)N2—C7—H7A110.0
N2—Pd1—N396.33 (12)C6—C7—H7A110.0
N4—Pd1—N383.80 (12)N2—C7—H7B110.0
N1—Pd1—N3174.09 (12)C6—C7—H7B110.0
C3—N1—C2109.3 (3)H7A—C7—H7B108.4
C3—N1—C6102.9 (3)C9—C8—H8A109.5
C2—N1—C6109.4 (3)C9—C8—H8B109.5
C3—N1—Pd1109.2 (2)H8A—C8—H8B109.5
C2—N1—Pd1115.3 (2)C9—C8—H8C109.5
C6—N1—Pd1110.02 (19)H8A—C8—H8C109.5
C2—C1—H1A109.5H8B—C8—H8C109.5
C2—C1—H1B109.5N3—C9—C8113.3 (3)
H1A—C1—H1B109.5N3—C9—H9A108.9
C2—C1—H1C109.5C8—C9—H9A108.9
H1A—C1—H1C109.5N3—C9—H9B108.9
H1B—C1—H1C109.5C8—C9—H9B108.9
C7—N2—Pd1107.9 (2)H9A—C9—H9B107.7
C7—N2—H2A110.1N3—C10—C11105.8 (3)
Pd1—N2—H2A110.1N3—C10—H10A110.6
C7—N2—H2B110.1C11—C10—H10A110.6
Pd1—N2—H2B110.1N3—C10—H10B110.6
H2A—N2—H2B108.4C11—C10—H10B110.6
N1—C2—C1113.5 (3)H10A—C10—H10B108.7
N1—C2—H2C108.9C10—C11—C12105.0 (3)
C1—C2—H2C108.9C10—C11—H11A110.8
N1—C2—H2D108.9C12—C11—H11A110.8
C1—C2—H2D108.9C10—C11—H11B110.8
H2C—C2—H2D107.7C12—C11—H11B110.8
C9—N3—C10109.4 (3)H11A—C11—H11B108.8
C9—N3—C13110.3 (3)C11—C12—C13106.2 (3)
C10—N3—C13102.5 (3)C11—C12—H12A110.5
C9—N3—Pd1114.4 (2)C13—C12—H12A110.5
C10—N3—Pd1110.0 (2)C11—C12—H12B110.5
C13—N3—Pd1109.6 (2)C13—C12—H12B110.5
N1—C3—C4105.4 (3)H12A—C12—H12B108.7
N1—C3—H3A110.7C14—C13—N3108.3 (3)
C4—C3—H3A110.7C14—C13—C12112.8 (3)
N1—C3—H3B110.7N3—C13—C12105.5 (3)
C4—C3—H3B110.7C14—C13—H13110.0
H3A—C3—H3B108.8N3—C13—H13110.0
C14—N4—Pd1107.8 (2)C12—C13—H13110.0
C14—N4—H4A110.1N4—C14—C13108.2 (3)
Pd1—N4—H4A110.1N4—C14—H14A110.1
C14—N4—H4B110.1C13—C14—H14A110.1
Pd1—N4—H4B110.1N4—C14—H14B110.1
H4A—N4—H4B108.5C13—C14—H14B110.1
C5—C4—C3105.2 (3)H14A—C14—H14B108.4
C5—C4—H4C110.7O1—C15—H15A109.5
C3—C4—H4C110.7O1—C15—H15B109.5
C5—C4—H4D110.7H15A—C15—H15B109.5
C3—C4—H4D110.7O1—C15—H15C109.5
H4C—C4—H4D108.8H15A—C15—H15C109.5
C4—C5—C6105.7 (3)H15B—C15—H15C109.5
C4—C5—H5A110.6C15—O1—H1109.5
C6—C5—H5A110.6O2—C16—H16A109.5
C4—C5—H5B110.6O2—C16—H16B109.5
C6—C5—H5B110.6H16A—C16—H16B109.5
H5A—C5—H5B108.7O2—C16—H16C109.5
C7—C6—N1107.9 (3)H16A—C16—H16C109.5
C7—C6—C5111.8 (3)H16B—C16—H16C109.5
N1—C6—C5105.8 (3)C16—O2—H2109.5
C7—C6—H6110.4C17—O3—H3109.5
N1—C6—H6110.4
N2—Pd1—N1—C3107.7 (2)C3—N1—C6—C533.8 (3)
N4—Pd1—N1—C375.1 (2)C2—N1—C6—C582.3 (3)
N2—Pd1—N1—C2128.8 (2)Pd1—N1—C6—C5150.1 (2)
N4—Pd1—N1—C248.4 (2)C4—C5—C6—C7101.5 (4)
N2—Pd1—N1—C64.5 (2)C4—C5—C6—N115.7 (4)
N4—Pd1—N1—C6172.6 (2)Pd1—N2—C7—C645.9 (3)
N1—Pd1—N2—C722.7 (2)N1—C6—C7—N250.1 (4)
N3—Pd1—N2—C7151.4 (2)C5—C6—C7—N2166.0 (3)
C3—N1—C2—C1171.5 (3)C10—N3—C9—C8175.0 (3)
C6—N1—C2—C176.6 (4)C13—N3—C9—C873.0 (4)
Pd1—N1—C2—C148.0 (4)Pd1—N3—C9—C851.1 (4)
N2—Pd1—N3—C948.0 (2)C9—N3—C10—C1178.2 (4)
N4—Pd1—N3—C9129.1 (2)C13—N3—C10—C1138.9 (4)
N2—Pd1—N3—C1075.6 (3)Pd1—N3—C10—C11155.4 (3)
N4—Pd1—N3—C10107.3 (3)N3—C10—C11—C1227.7 (4)
N2—Pd1—N3—C13172.5 (2)C10—C11—C12—C135.4 (4)
N4—Pd1—N3—C134.7 (2)C9—N3—C13—C14157.6 (3)
C2—N1—C3—C476.9 (4)C10—N3—C13—C1486.0 (3)
C6—N1—C3—C439.2 (3)Pd1—N3—C13—C1430.8 (3)
Pd1—N1—C3—C4156.1 (2)C9—N3—C13—C1281.4 (4)
N1—Pd1—N4—C14151.3 (2)C10—N3—C13—C1235.0 (4)
N3—Pd1—N4—C1422.8 (2)Pd1—N3—C13—C12151.8 (2)
N1—C3—C4—C529.6 (4)C11—C12—C13—C1499.7 (4)
C3—C4—C5—C68.2 (4)C11—C12—C13—N318.4 (4)
C3—N1—C6—C786.0 (3)Pd1—N4—C14—C1346.1 (3)
C2—N1—C6—C7157.9 (3)N3—C13—C14—N450.8 (4)
Pd1—N1—C6—C730.3 (3)C12—C13—C14—N4167.2 (3)
Hydrogen-bond geometry (Å, º) top
D—H···AD—HH···AD···AD—H···A
N2—H2A···Cl1i0.922.353.225 (3)159
N2—H2B···O1ii0.922.072.949 (4)160
N4—H4A···Cl2iii0.922.373.240 (3)158
N4—H4B···Cl20.922.363.222 (3)156
O1—H1···Cl10.842.313.127 (3)166
O2—H2···Cl10.842.373.205 (4)176
O3—H3···Cl2iv0.842.403.146 (8)148
O3—H3···Cl2iv0.842.503.224 (8)145
Symmetry codes: (i) x+1, y+1/2, z+1/2; (ii) x+2, y+1/2, z+1/2; (iii) x1/2, y+3/2, z; (iv) x, y, z+1.
 

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