Literature DB >> 22259413

(11aS)-7-Bromo-2,3,5,10,11,11a-hexa-hydro-1H-pyrrolo-[2,1-c][1,4]benzodiazepine-3,11-dione.

Chao Ma, Zhen-Zhong Wang, Li Pan, Yu Tian, Wei Xiao.   

Abstract

The title compound, C(12)H(11)BrN(2)O(2), was prepared by an intra-cyclization reaction of (S)-1-(5-bromo-2-nitro-benz-yl)-5-oxopyrrolidine-2-carb-oxy-lic acid methyl ester in the presence of EtOH/Fe. The five-membered pyrrolidinone ring adopts an approximate envelope conformation, while the seven-membered diazepanone ring displays a twisted boat conformation. Inter-molecular classical N-H⋯O hydrogen bonds and weak C-H⋯O inter-actions help to stabilize the crystal structure.

Entities:  

Year:  2011        PMID: 22259413      PMCID: PMC3254472          DOI: 10.1107/S1600536811052962

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


Related literature

For applications of pyrrolo­[2,1-c][1,4]benzodiazepines, see: Bose et al. (1992 ▶); Hu et al. (2001 ▶); Jitendra et al. (2007 ▶); Kamal et al. (2002 ▶); Thurston & Bose (1994 ▶). For a related structure, see: Cheng et al. (2007 ▶).

Experimental

Crystal data

C12H11BrN2O2 M = 295.14 Orthorhombic, a = 4.3880 (4) Å b = 13.1210 (11) Å c = 19.8722 (16) Å V = 1144.14 (17) Å3 Z = 4 Mo Kα radiation μ = 3.58 mm−1 T = 185 K 0.22 × 0.18 × 0.07 mm

Data collection

Bruker APEX CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2001 ▶) T min = 0.506, T max = 0.788 7012 measured reflections 2244 independent reflections 2074 reflections with I > 2σ(I) R int = 0.021

Refinement

R[F 2 > 2σ(F 2)] = 0.022 wR(F 2) = 0.057 S = 1.02 2244 reflections 154 parameters H-atom parameters constrained Δρmax = 0.49 e Å−3 Δρmin = −0.21 e Å−3 Absolute structure: Flack (1983 ▶), 884 Friedel pairs Flack parameter: −0.007 (9) Data collection: SMART (Bruker, 2007 ▶); cell refinement: SAINT (Bruker, 2007 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXTL (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXTL; molecular graphics: SHELXTL; software used to prepare material for publication: SHELXTL. Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536811052962/xu5404sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811052962/xu5404Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811052962/xu5404Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C12H11BrN2O2F(000) = 592
Mr = 295.14Dx = 1.713 Mg m3
Orthorhombic, P212121Mo Kα radiation, λ = 0.71073 Å
Hall symbol: P 2ac 2abCell parameters from 3967 reflections
a = 4.3880 (4) Åθ = 2.6–26.0°
b = 13.1210 (11) ŵ = 3.58 mm1
c = 19.8722 (16) ÅT = 185 K
V = 1144.14 (17) Å3Plate, colorless
Z = 40.22 × 0.18 × 0.07 mm
Bruker APEX CCD area-detector diffractometer2244 independent reflections
Radiation source: fine-focus sealed tube2074 reflections with I > 2σ(I)
graphiteRint = 0.021
φ and ω scansθmax = 26.0°, θmin = 1.9°
Absorption correction: multi-scan (SADABS; Bruker, 2001)h = −5→5
Tmin = 0.506, Tmax = 0.788k = −14→16
7012 measured reflectionsl = −23→24
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.022H-atom parameters constrained
wR(F2) = 0.057w = 1/[σ2(Fo2) + (0.0236P)2] where P = (Fo2 + 2Fc2)/3
S = 1.02(Δ/σ)max = 0.001
2244 reflectionsΔρmax = 0.49 e Å3
154 parametersΔρmin = −0.21 e Å3
0 restraintsAbsolute structure: Flack (1983), 884 Friedel pairs
Primary atom site location: structure-invariant direct methodsFlack parameter: −0.007 (9)
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
Br10.25401 (6)0.050666 (16)0.521650 (10)0.04269 (9)
O11.0495 (4)0.02986 (12)0.85625 (8)0.0421 (4)
O20.9421 (4)0.41192 (12)0.82097 (8)0.0443 (4)
N10.8206 (4)0.16602 (12)0.80547 (8)0.0238 (4)
N20.7499 (5)0.35871 (11)0.72148 (7)0.0275 (3)
H20.80760.41630.70270.033*
C10.8919 (5)0.10757 (16)0.85843 (11)0.0301 (5)
C20.7399 (7)0.15233 (16)0.92027 (10)0.0388 (5)
H2A0.88260.15370.95880.047*
H2B0.55740.11230.93290.047*
C30.6517 (5)0.26009 (17)0.89928 (10)0.0322 (5)
H3A0.80330.31010.91570.039*
H3B0.44890.27850.91750.039*
C40.6457 (4)0.25772 (15)0.82215 (10)0.0253 (5)
H40.43100.25020.80600.030*
C50.9226 (5)0.14577 (17)0.73654 (10)0.0249 (4)
H5A0.95720.07170.73120.030*
H5B1.11950.18080.72890.030*
C60.6986 (4)0.18057 (14)0.68438 (9)0.0214 (4)
C70.6198 (5)0.28407 (15)0.67832 (10)0.0240 (4)
C80.7940 (5)0.35007 (14)0.78876 (10)0.0276 (4)
C90.5797 (5)0.11109 (15)0.63852 (10)0.0233 (4)
H90.62710.04070.64240.028*
C100.3923 (5)0.14489 (17)0.58721 (10)0.0267 (4)
C110.3113 (5)0.24598 (17)0.58081 (10)0.0295 (5)
H110.18050.26760.54550.035*
C120.4250 (5)0.31536 (17)0.62704 (11)0.0291 (5)
H120.36920.38510.62370.035*
U11U22U33U12U13U23
Br10.06219 (16)0.03517 (14)0.03072 (13)0.00004 (16)−0.01668 (12)−0.00718 (8)
O10.0678 (12)0.0294 (9)0.0292 (9)0.0169 (9)−0.0064 (8)0.0009 (7)
O20.0671 (12)0.0285 (9)0.0374 (10)−0.0143 (9)−0.0088 (9)−0.0034 (7)
N10.0321 (10)0.0195 (8)0.0199 (8)0.0021 (7)0.0005 (7)−0.0026 (6)
N20.0391 (9)0.0173 (7)0.0262 (8)−0.0044 (10)0.0027 (9)−0.0003 (6)
C10.0400 (12)0.0244 (11)0.0261 (12)−0.0031 (10)−0.0012 (10)−0.0022 (9)
C20.0597 (13)0.0332 (11)0.0235 (10)0.0038 (16)0.0059 (14)0.0014 (8)
C30.0411 (13)0.0314 (12)0.0241 (11)0.0036 (9)0.0040 (9)−0.0054 (9)
C40.0293 (11)0.0230 (10)0.0236 (10)0.0028 (8)0.0022 (8)−0.0028 (8)
C50.0268 (11)0.0250 (10)0.0229 (10)0.0004 (9)0.0013 (8)−0.0031 (9)
C60.0230 (11)0.0221 (9)0.0190 (9)0.0013 (8)0.0077 (8)0.0005 (7)
C70.0288 (10)0.0202 (10)0.0231 (10)−0.0035 (8)0.0048 (9)0.0011 (8)
C80.0316 (12)0.0195 (9)0.0318 (11)0.0024 (10)0.0010 (9)−0.0039 (8)
C90.0273 (10)0.0202 (10)0.0226 (10)−0.0005 (8)0.0028 (9)−0.0010 (8)
C100.0313 (10)0.0271 (11)0.0218 (11)−0.0033 (9)0.0014 (9)−0.0043 (9)
C110.0359 (13)0.0320 (11)0.0205 (10)0.0047 (10)−0.0015 (9)0.0051 (8)
C120.0383 (12)0.0219 (11)0.0271 (12)0.0035 (9)0.0050 (10)0.0029 (9)
Br1—C101.896 (2)C3—H3B0.9900
O1—C11.233 (3)C4—C81.527 (3)
O2—C81.221 (2)C4—H41.0000
N1—C11.339 (3)C5—C61.500 (3)
N1—C41.465 (2)C5—H5A0.9900
N1—C51.465 (3)C5—H5B0.9900
N2—C81.356 (2)C6—C91.391 (3)
N2—C71.422 (3)C6—C71.406 (3)
N2—H20.8800C7—C121.392 (3)
C1—C21.517 (3)C9—C101.383 (3)
C2—C31.524 (3)C9—H90.9500
C2—H2A0.9900C10—C111.379 (3)
C2—H2B0.9900C11—C121.386 (3)
C3—C41.533 (3)C11—H110.9500
C3—H3A0.9900C12—H120.9500
C1—N1—C4114.51 (16)N1—C5—C6113.00 (16)
C1—N1—C5124.01 (17)N1—C5—H5A109.0
C4—N1—C5121.36 (15)C6—C5—H5A109.0
C8—N2—C7126.49 (16)N1—C5—H5B109.0
C8—N2—H2116.8C6—C5—H5B109.0
C7—N2—H2116.8H5A—C5—H5B107.8
O1—C1—N1125.2 (2)C9—C6—C7118.99 (18)
O1—C1—C2126.5 (2)C9—C6—C5119.95 (17)
N1—C1—C2108.19 (18)C7—C6—C5120.95 (18)
C1—C2—C3104.43 (17)C12—C7—C6119.90 (19)
C1—C2—H2A110.9C12—C7—N2119.02 (18)
C3—C2—H2A110.9C6—C7—N2120.98 (18)
C1—C2—H2B110.9O2—C8—N2122.50 (19)
C3—C2—H2B110.9O2—C8—C4121.76 (18)
H2A—C2—H2B108.9N2—C8—C4115.73 (17)
C2—C3—C4105.02 (17)C10—C9—C6119.74 (19)
C2—C3—H3A110.7C10—C9—H9120.1
C4—C3—H3A110.7C6—C9—H9120.1
C2—C3—H3B110.7C11—C10—C9121.97 (19)
C4—C3—H3B110.7C11—C10—Br1118.79 (15)
H3A—C3—H3B108.8C9—C10—Br1119.20 (16)
N1—C4—C8109.27 (16)C10—C11—C12118.56 (19)
N1—C4—C3103.52 (16)C10—C11—H11120.7
C8—C4—C3114.27 (17)C12—C11—H11120.7
N1—C4—H4109.9C11—C12—C7120.8 (2)
C8—C4—H4109.9C11—C12—H12119.6
C3—C4—H4109.9C7—C12—H12119.6
D—H···AD—HH···AD···AD—H···A
N2—H2···O1i0.882.002.864 (2)169.
C5—H5A···O2ii0.992.383.328 (3)160.
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N2—H2⋯O1i0.882.002.864 (2)169
C5—H5A⋯O2ii0.992.383.328 (3)160

Symmetry codes: (i) ; (ii) .

  4 in total

1.  An efficient synthesis of pyrrolo[2,1-c][1,4]benzodiazepine. Synthesis of the antibiotic DC-81.

Authors:  W P Hu; J J Wang; F L Lin; Y C Lin; S R Lin; M H Hsu
Journal:  J Org Chem       Date:  2001-04-20       Impact factor: 4.354

2.  A short history of SHELX.

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

3.  Amino acid-based enantiomerically pure 3-substituted 1,4-benzodiazepin-2-ones: a new class of anti-ischemic agents.

Authors:  Jitendra Kumar Mishra; Puja Garg; Preeti Dohare; Ashutosh Kumar; Mohammad Imran Siddiqi; Madhur Ray; Gautam Panda
Journal:  Bioorg Med Chem Lett       Date:  2006-12-03       Impact factor: 2.823

Review 4.  Recent developments in the design, synthesis and structure-activity relationship studies of pyrrolo[2,1-c][1,4]benzodiazepines as DNA-interactive antitumour antibiotics.

Authors:  Ahmed Kamal; Maddamsetty V Rao; N Laxman; G Ramesh; G S K Reddy
Journal:  Curr Med Chem Anticancer Agents       Date:  2002-03
  4 in total

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