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In the title compound, N6-benzyl­adenine hydro­bromide [N6-benzyl­adeninium bromide], C12H12N5+·Br-, the adenine moiety exists as the N3-protonated N7-H tautomer. The N6 substituent is distal to N7 and the phenyl ring makes a dihedral angle of 108.43 (12)° with the adenine plane. Thus, protonation of benzyl­adenine does not affect the conformational requirements for cytokinin activity. The conformation of the title compound has been compared with other cytokinins.

Supporting information

cif

Crystallographic Information File (CIF) https://doi.org/10.1107/S1600536801013629/cv6033sup1.cif
Contains datablocks global, I

hkl

Structure factor file (CIF format) https://doi.org/10.1107/S1600536801013629/cv6033Isup2.hkl
Contains datablock I

CCDC reference: 172220

Key indicators

  • Single-crystal X-ray study
  • T = 293 K
  • Mean [sigma](C-C) = 0.014 Å
  • R factor = 0.067
  • wR factor = 0.173
  • Data-to-parameter ratio = 7.5

checkCIF results

No syntax errors found

ADDSYM reports no extra symmetry


Red Alert Alert Level A:
REFLT_03 From the CIF: _diffrn_reflns_theta_max 69.90 From the CIF: _reflns_number_total 1556 TEST2: Reflns within _diffrn_reflns_theta_max Count of symmetry unique reflns 2428 Completeness (_total/calc) 64.09% Alert A: < 85% complete (theta max?)
Yellow Alert Alert Level C:
RINTA_01 Alert C The value of Rint is greater than 0.10 Rint given 0.106 General Notes
ABSTM_02 When printed, the submitted absorption T values will be replaced by the scaled T values. Since the ratio of scaled T's is identical to the ratio of reported T values, the scaling does not imply a change to the absorption corrections used in the study. Ratio of Tmax expected/reported 1.075 Tmax scaled 0.524 Tmin scaled 0.352
1 Alert Level A = Potentially serious problem
0 Alert Level B = Potential problem
1 Alert Level C = Please check

Comment top

Many N6-substituted adenine derivatives function as plant growth stimulants (Hall, 1973). Kinetin (N6-furfurylaminopurine) is one of the naturally occurring cytokinins. Some of the N6-substituted adenines synthesized also show cytokinin activity depending upon their conformation (Pattabhi, 1990). N6-Benzyladenine hydrobromide (BABR), (I), has been investigated to explore the conformation of this molecule in a variety of crystalline and chemical environments. The ZORTEP diagram (Zsolnai, 1997) of the molecule with the atom-labeling scheme is shown in Fig. 1.

N6-Benzyladenine exists as the N9—H tautomer in the crystal structure (Ragunathan et al., 1983). In monoprotonated adenine systems, N1 is the protonation site (Voet & Rich, 1970). However, in this crystal structure, very interestingly, adenine moiety exists as the N7—H tautomer with the proton at N3. The H atoms at N7 and N3 were located in the difference Fourier map. Further evidence for the presence of the H atoms on these sites comes from the enhancement of the corresponding internal bond angles. The enhancement of the internal bond angles on protonation sites has been already well established (Taylor & Kennard, 1982). In the crystal structure of a copper complex of benzyladenine (Balasubramanian et al., 1996) also, which was prepared under slightly acidic conditions, the adenine moieties exist as the N7—H tautomer with protonation at N3 and coordination at N9. In BABR, the internal angle at N9 is 103.2 (7)°, which agrees well with that observed in N6-benzyladenine existing as N7—H tautomer. In the crystal structure of N6-benzoyladenine (Ragunathan & Pattabhi, 1981), the adeinine moiety exists as the N7—H tautomer rather than the normal N9—H tautomer for neutral adenines and this is due to intramolecular hydrogen bonding. It has been suggested that a free N1 position is one of the requirements for cytokinin activity and it is interesting to note that the N1 position is maintained free even under acidic conditions/metal binding namely in BABR and a copper complex of N6-benzyladenine. [Please clarify this wording]

There is no significant base stacking. This is in agreement with the packing patterns of other cytokinins previously reported. The molecules are packed by N—H···N and N—H···Br interactions.

The dihedral angle between the adenine plane and the phenyl-ring plane is 108.43 (12)°. This is in agreement with the range of values nearly 90° proposed for cytokinin activity. The N6 substituent is also distal to N7 as in other cytokinins (Sariano-Garcia & Parthasarathi, 1977; Ragunathan & Pattabhi, 1981; Bugg & Thewalt, 1972; McMullan & Sundaralingam, 1971; Walker & Tollin, 1982). Thus, a free N1, distal conformation of the N6 substituent with respect to N7, absence of base stacking and a near 90° value of the dihedral angle (between the adenine ring and the plane of the N6-substituent) seem to be necessary conditions for cytokinin activity.

Experimental top

N6-Benzyladenine (Loba Chemie, India) was dissolved in the minimum amount of dilute hydrobromic acid and recrystalliz ed from a methanol/n-pentane mixture.

Computing details top

Data collection: DIFABS (Walker & Stuart, 1983); cell refinement: DIFABS (Walker & Stuart, 1983); data reduction: DIFABS (Walker & Stuart, 1983); program(s) used to solve structure: SHELXS97 (sheldrick, 1997); program(s) used to refine structure: SHELXL97 (Sheldrick, 1997); molecular graphics: ZORTEP97 (Zsolnai, 1997); software used to prepare material for publication: PLATON (Spek, 1990).

Figures top
[Figure 1] Fig. 1. ZORTEP diagram (Zsolnai, 1997) of the title compound showing 50% probability displacement ellipsoids.
(I) top
Crystal data top
C12H12BrN5F(000) = 616
Mr = 306.16Dx = 1.592 Mg m3
Monoclinic, P21/cCu Kα radiation, λ = 1.54178 Å
a = 18.581 (3) ÅCell parameters from 40 reflections
b = 5.163 (2) Åθ = 6.8–16.3°
c = 13.344 (3) ŵ = 4.31 mm1
β = 93.71 (2)°T = 293 K
V = 1277.5 (6) Å3Needle, colourless
Z = 40.33 × 0.18 × 0.15 mm
Data collection top
Siemens AED
diffractometer
Rint = 0.106
ω–2θ scansθmax = 69.9°, θmin = 4.8°
Absorption correction: part of the refinement model (ΔF)
(Parkin et al., 1995)
h = 2222
Tmin = 0.327, Tmax = 0.488k = 06
1608 measured reflectionsl = 1615
1556 independent reflections3 standard reflections every 60 min
1556 reflections with I > 2σ(I) intensity decay: none
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)] = 0.067H atoms treated by a mixture of independent and constrained refinement
wR(F2) = 0.173 w = 1/[σ2(Fo2) + (0.0956P)2 + 1.1524P]
where P = (Fo2 + 2Fc2)/3
S = 1.04(Δ/σ)max < 0.001
1556 reflectionsΔρmax = 0.94 e Å3
208 parametersΔρmin = 1.44 e Å3
0 restraintsExtinction correction: SHELXL97
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 0.0025 (5)
Crystal data top
C12H12BrN5V = 1277.5 (6) Å3
Mr = 306.16Z = 4
Monoclinic, P21/cCu Kα radiation
a = 18.581 (3) ŵ = 4.31 mm1
b = 5.163 (2) ÅT = 293 K
c = 13.344 (3) Å0.33 × 0.18 × 0.15 mm
β = 93.71 (2)°
Data collection top
Siemens AED
diffractometer
1556 reflections with I > 2σ(I)
Absorption correction: part of the refinement model (ΔF)
(Parkin et al., 1995)
Rint = 0.106
Tmin = 0.327, Tmax = 0.4883 standard reflections every 60 min
1608 measured reflections intensity decay: none
1556 independent reflections
Refinement top
R[F2 > 2σ(F2)] = 0.0670 restraints
wR(F2) = 0.173H atoms treated by a mixture of independent and constrained refinement
S = 1.04Δρmax = 0.94 e Å3
1556 reflectionsΔρmin = 1.44 e Å3
208 parameters
Special details top

Geometry. Bond distances, angles etc. have been calculated using the rounded fractional coordinates. All e.s.d.'s are estimated from the variances of the (full) variance-covariance matrix. The cell e.s.d.'s are taken into account in the estimation of distances, angles and torsion angles

Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top
xyzUiso*/Ueq
Br10.16929 (4)0.53176 (16)0.30710 (5)0.0596 (3)
N10.2273 (3)0.2989 (12)0.0426 (4)0.057 (2)
N30.1098 (4)0.4556 (12)0.0018 (4)0.0560 (19)
N60.2478 (4)0.0404 (15)0.1532 (5)0.0603 (19)
N70.0819 (3)0.0472 (14)0.1658 (4)0.055 (2)
N90.0124 (4)0.2408 (13)0.0828 (4)0.061 (2)
C20.1815 (5)0.4583 (16)0.0052 (5)0.061 (2)
C40.0817 (4)0.2757 (14)0.0612 (5)0.053 (2)
C50.1274 (4)0.0999 (13)0.1106 (5)0.049 (2)
C60.2020 (4)0.1146 (14)0.1031 (5)0.051 (2)
C80.0158 (4)0.0417 (17)0.1466 (5)0.059 (3)
C100.3251 (5)0.033 (3)0.1476 (8)0.087 (4)
C110.3635 (4)0.0937 (18)0.2487 (6)0.062 (3)
C120.3496 (6)0.039 (2)0.3326 (8)0.081 (3)
C130.3846 (6)0.021 (2)0.4229 (8)0.090 (4)
C140.4354 (6)0.207 (3)0.4295 (8)0.100 (5)
C150.4499 (6)0.347 (3)0.3451 (9)0.096 (5)
C160.4131 (5)0.289 (2)0.2542 (7)0.071 (3)
H20.200 (4)0.601 (17)0.047 (6)0.06 (2)*
H30.084 (4)0.567 (13)0.032 (5)0.040 (18)*
H60.234 (3)0.178 (14)0.182 (5)0.042 (18)*
H70.094 (3)0.167 (13)0.197 (5)0.031 (17)*
H80.024 (5)0.024 (15)0.171 (7)0.07 (3)*
H10A0.333 (8)0.18 (3)0.090 (11)0.17 (6)*
H10B0.335 (5)0.125 (18)0.135 (7)0.06 (3)*
H120.314 (4)0.178 (17)0.328 (6)0.07 (2)*
H130.373180.067930.480360.1078*
H140.455 (8)0.27 (3)0.474 (11)0.17 (7)*
H150.486 (6)0.47 (2)0.345 (8)0.10 (4)*
H160.420 (6)0.40 (3)0.203 (9)0.11 (4)*
Atomic displacement parameters (Å2) top
U11U22U33U12U13U23
Br10.0661 (6)0.0654 (6)0.0464 (5)0.0064 (4)0.0025 (3)0.0038 (3)
N10.067 (4)0.063 (4)0.041 (3)0.004 (3)0.003 (3)0.004 (3)
N30.070 (4)0.051 (3)0.045 (3)0.004 (3)0.012 (3)0.007 (3)
N60.054 (3)0.075 (4)0.051 (3)0.003 (3)0.004 (3)0.020 (3)
N70.059 (4)0.056 (4)0.049 (3)0.007 (3)0.009 (3)0.007 (3)
N90.062 (4)0.069 (4)0.052 (3)0.012 (3)0.006 (3)0.002 (3)
C20.078 (5)0.062 (4)0.042 (3)0.003 (4)0.006 (3)0.003 (3)
C40.062 (4)0.052 (4)0.044 (3)0.001 (3)0.011 (3)0.006 (3)
C50.061 (4)0.047 (4)0.038 (3)0.003 (3)0.002 (3)0.000 (3)
C60.061 (4)0.052 (4)0.038 (3)0.002 (3)0.006 (3)0.000 (3)
C80.050 (4)0.076 (5)0.050 (4)0.006 (4)0.002 (3)0.002 (3)
C100.058 (5)0.132 (11)0.071 (6)0.015 (6)0.006 (4)0.039 (7)
C110.047 (4)0.078 (5)0.062 (4)0.002 (4)0.001 (3)0.020 (4)
C120.072 (5)0.088 (7)0.082 (6)0.024 (5)0.003 (4)0.002 (5)
C130.091 (7)0.109 (8)0.068 (5)0.018 (6)0.005 (5)0.017 (5)
C140.072 (6)0.161 (13)0.064 (6)0.008 (7)0.008 (5)0.028 (7)
C150.071 (6)0.129 (10)0.086 (7)0.038 (7)0.002 (5)0.032 (7)
C160.069 (5)0.085 (6)0.059 (5)0.014 (5)0.009 (4)0.006 (4)
Geometric parameters (Å, º) top
N1—C21.318 (10)C11—C161.365 (13)
N1—C61.352 (9)C11—C121.352 (13)
N3—C21.342 (12)C12—C131.367 (15)
N3—C41.348 (9)C13—C141.345 (17)
N6—C61.318 (10)C14—C151.379 (18)
N6—C101.444 (12)C15—C161.386 (15)
N7—C51.384 (9)C2—H21.00 (8)
N7—C81.321 (10)C8—H80.89 (9)
N9—C41.350 (10)C10—H10A1.10 (15)
N9—C81.334 (10)C10—H10B0.86 (9)
N3—H30.86 (7)C12—H120.98 (8)
N6—H60.85 (7)C13—H130.9299
N7—H70.77 (7)C14—H140.75 (15)
C4—C51.381 (10)C15—H150.92 (11)
C5—C61.398 (11)C16—H160.91 (13)
C10—C111.517 (13)
Br1···N6i3.408 (7)C5···Br13.491 (7)
Br1···N7i3.244 (6)C6···Br13.554 (7)
Br1···C53.491 (7)C8···Br1x3.534 (8)
Br1···C63.554 (7)C8···N9vii3.401 (9)
Br1···C8ii3.534 (8)C8···H3v3.08 (7)
Br1···C2iii3.557 (8)C12···H63.06 (6)
Br1···C2iv3.631 (8)C13···H10Axi2.92 (15)
Br1···H7i2.50 (6)C14···H10Axi3.01 (15)
Br1···H8ii2.75 (9)C16···H15xii2.88 (11)
Br1···H123.25 (8)H2···Br1ix2.75 (8)
Br1···H6i2.60 (7)H3···N9v2.12 (7)
Br1···H2iv2.75 (8)H3···C8v3.08 (7)
N3···N9v2.925 (10)H6···Br1vi2.60 (7)
N6···N73.098 (9)H6···N72.90 (6)
N6···Br1vi3.408 (7)H6···C123.06 (6)
N7···N63.098 (9)H7···Br1vi2.50 (6)
N7···Br1vi3.244 (6)H8···Br1x2.75 (9)
N9···C8vii3.401 (9)H10A···H162.42 (19)
N9···N3v2.925 (10)H10A···C13xiii2.92 (15)
N1···H10B2.45 (9)H10A···C14xiii3.01 (15)
N6···H122.80 (8)H10B···N12.45 (9)
N7···H62.90 (6)H12···Br13.25 (8)
N9···H3v2.12 (7)H12···N62.80 (8)
C2···Br1viii3.557 (8)H15···C16xiv2.88 (11)
C2···Br1ix3.631 (8)H16···H10A2.42 (19)
C2—N1—C6119.3 (6)C12—C11—C16119.6 (8)
C2—N3—C4118.2 (7)C11—C12—C13120.6 (10)
C6—N6—C10124.7 (8)C12—C13—C14120.7 (10)
C5—N7—C8107.4 (6)C13—C14—C15119.6 (11)
C4—N9—C8103.5 (6)C14—C15—C16119.3 (12)
C4—N3—H3123 (5)C11—C16—C15120.0 (10)
C2—N3—H3119 (5)N1—C2—H2120 (4)
C10—N6—H6112 (4)N3—C2—H2115 (4)
C6—N6—H6122 (4)N7—C8—H8125 (6)
C5—N7—H7124 (4)N9—C8—H8121 (6)
C8—N7—H7128 (4)N6—C10—H10A101 (8)
N1—C2—N3124.9 (7)N6—C10—H10B105 (6)
N9—C4—C5112.1 (6)C11—C10—H10A114 (8)
N3—C4—N9129.0 (7)C11—C10—H10B106 (6)
N3—C4—C5118.9 (7)H10A—C10—H10B119 (11)
N7—C5—C4103.7 (6)C11—C12—H12119 (5)
C4—C5—C6120.8 (6)C13—C12—H12120 (5)
N7—C5—C6135.3 (6)C12—C13—H13119.60
N1—C6—N6119.5 (7)C14—C13—H13119.67
N6—C6—C5122.8 (7)C13—C14—H14132 (11)
N1—C6—C5117.8 (6)C15—C14—H14108 (11)
N7—C8—N9113.4 (7)C14—C15—H15123 (7)
N6—C10—C11111.1 (8)C16—C15—H15118 (7)
C10—C11—C12121.8 (9)C11—C16—H16124 (8)
C10—C11—C16118.5 (9)C15—C16—H16116 (9)
C6—N1—C2—N30.7 (11)N9—C4—C5—C6175.9 (6)
C2—N1—C6—N6178.1 (7)N9—C4—C5—N70.5 (8)
C2—N1—C6—C51.0 (10)C4—C5—C6—N6176.3 (7)
C4—N3—C2—N10.7 (11)C4—C5—C6—N12.8 (10)
C2—N3—C4—N9177.4 (7)N7—C5—C6—N1176.4 (7)
C2—N3—C4—C51.2 (10)N7—C5—C6—N62.7 (13)
C10—N6—C6—N11.1 (12)N6—C10—C11—C16125.5 (10)
C10—N6—C6—C5179.8 (9)N6—C10—C11—C1254.2 (15)
C6—N6—C10—C11144.2 (9)C10—C11—C12—C13179.5 (10)
C8—N7—C5—C40.6 (8)C16—C11—C12—C130.2 (15)
C8—N7—C5—C6174.9 (8)C10—C11—C16—C15179.1 (10)
C5—N7—C8—N90.5 (9)C12—C11—C16—C151.2 (15)
C8—N9—C4—N3178.4 (7)C11—C12—C13—C142.4 (17)
C8—N9—C4—C50.3 (8)C12—C13—C14—C153.1 (19)
C4—N9—C8—N70.2 (8)C13—C14—C15—C161.6 (19)
N3—C4—C5—N7178.3 (6)C14—C15—C16—C110.5 (17)
N3—C4—C5—C62.9 (10)
Symmetry codes: (i) x, y+1, z; (ii) x, y+1/2, z+1/2; (iii) x, y+1/2, z+1/2; (iv) x, y+3/2, z+1/2; (v) x, y+1, z; (vi) x, y1, z; (vii) x, y, z; (viii) x, y+1/2, z1/2; (ix) x, y+3/2, z1/2; (x) x, y1/2, z+1/2; (xi) x, y1/2, z+1/2; (xii) x+1, y+1/2, z+1/2; (xiii) x, y1/2, z1/2; (xiv) x+1, y1/2, z+1/2.
Hydrogen-bond geometry (Å, º) top
D—H···AD—HH···AD···AD—H···A
N3—H3···N9v0.86 (7)2.12 (7)2.925 (10)156 (7)
N6—H6···Br1vi0.85 (7)2.60 (7)3.408 (7)159 (6)
N7—H7···Br1vi0.77 (7)2.50 (6)3.244 (6)161 (5)
C2—H2···Br1ix1.00 (8)2.75 (8)3.631 (8)147 (6)
C8—H8···Br1x0.89 (9)2.75 (9)3.534 (8)147 (7)
C10—H10B···N10.86 (9)2.45 (9)2.806 (14)106 (7)
Symmetry codes: (v) x, y+1, z; (vi) x, y1, z; (ix) x, y+3/2, z1/2; (x) x, y1/2, z+1/2.

Experimental details

Crystal data
Chemical formulaC12H12BrN5
Mr306.16
Crystal system, space groupMonoclinic, P21/c
Temperature (K)293
a, b, c (Å)18.581 (3), 5.163 (2), 13.344 (3)
β (°) 93.71 (2)
V3)1277.5 (6)
Z4
Radiation typeCu Kα
µ (mm1)4.31
Crystal size (mm)0.33 × 0.18 × 0.15
Data collection
DiffractometerSiemens AED
diffractometer
Absorption correctionPart of the refinement model (ΔF)
(Parkin et al., 1995)
Tmin, Tmax0.327, 0.488
No. of measured, independent and
observed [I > 2σ(I)] reflections
1608, 1556, 1556
Rint0.106
(sin θ/λ)max1)0.609
Refinement
R[F2 > 2σ(F2)], wR(F2), S 0.067, 0.173, 1.04
No. of reflections1556
No. of parameters208
H-atom treatmentH atoms treated by a mixture of independent and constrained refinement
Δρmax, Δρmin (e Å3)0.94, 1.44

Computer programs: DIFABS (Walker & Stuart, 1983), SHELXS97 (sheldrick, 1997), SHELXL97 (Sheldrick, 1997), ZORTEP97 (Zsolnai, 1997), PLATON (Spek, 1990).

Selected geometric parameters (Å, º) top
N1—C21.318 (10)N6—C101.444 (12)
N1—C61.352 (9)N7—C51.384 (9)
N3—C21.342 (12)N7—C81.321 (10)
N3—C41.348 (9)N9—C41.350 (10)
N6—C61.318 (10)N9—C81.334 (10)
C2—N1—C6119.3 (6)N3—C4—C5118.9 (7)
C2—N3—C4118.2 (7)N7—C5—C4103.7 (6)
C6—N6—C10124.7 (8)N7—C5—C6135.3 (6)
C5—N7—C8107.4 (6)N1—C6—N6119.5 (7)
C4—N9—C8103.5 (6)N6—C6—C5122.8 (7)
N1—C2—N3124.9 (7)N1—C6—C5117.8 (6)
N9—C4—C5112.1 (6)N7—C8—N9113.4 (7)
N3—C4—N9129.0 (7)N6—C10—C11111.1 (8)
Hydrogen-bond geometry (Å, º) top
D—H···AD—HH···AD···AD—H···A
N3—H3···N9i0.86 (7)2.12 (7)2.925 (10)156 (7)
N6—H6···Br1ii0.85 (7)2.60 (7)3.408 (7)159 (6)
N7—H7···Br1ii0.77 (7)2.50 (6)3.244 (6)161 (5)
C2—H2···Br1iii1.00 (8)2.75 (8)3.631 (8)147 (6)
C8—H8···Br1iv0.89 (9)2.75 (9)3.534 (8)147 (7)
C10—H10B···N10.86 (9)2.45 (9)2.806 (14)106 (7)
Symmetry codes: (i) x, y+1, z; (ii) x, y1, z; (iii) x, y+3/2, z1/2; (iv) x, y1/2, z+1/2.
 

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