Literature DB >> 22058991

N-Methyl-l-leucyl-l-leucine hydro-chloride monohydrate.

Tao Lu, Mu-Wu Xu, Xiao-Jian Liao, Shi-Hai Xu.   

Abstract

In the title compound C(13)H(27)N(2)O(3) (+)·Cl(-)·H(2)O, obtained by deprotecting the amino and carboxyl groups of an inter-mediate in the synthesis of the cyclic penta-peptide Galaxamide, a number of hydrogen-bonding inter-actions occur including aminium N-H⋯Cl, amide-carboxyl N-H⋯O, water O-H⋯Cl and carbox-yl-water O-H⋯O associations. The aminium N-H⋯Cl⋯H-N bridging extensions give rise to zigzag chains extending along the a axis, the overall two-dimensional structure lying in the (110) plane.

Entities:  

Year:  2011        PMID: 22058991      PMCID: PMC3200702          DOI: 10.1107/S1600536811031126

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


Related literature

For general background to peptides, see: Humphrey & Chamberlin (1997 ▶). For the synthesis of Galaxamide, see: Xu, Liao, Xu et al. (2008 ▶); Rodriguez et al. (2007 ▶). For related structures, see: Liao et al. (2007 ▶); Xu, Liao, Diao et al. (2008 ▶).

Experimental

Crystal data

C13H27N2O3 +·Cl−·H2O M = 312.83 Monoclinic, a = 5.2212 (2) Å b = 9.6032 (5) Å c = 18.4081 (8) Å β = 96.329 (4)° V = 917.36 (7) Å3 Z = 2 Mo Kα radiation μ = 0.22 mm−1 T = 295 K 0.45 × 0.32 × 0.17 mm

Data collection

Oxford Diffraction Xcalibur Sapphire3 Gemini Ultra CCD diffractometer Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2011 ▶) T min = 0.990, T max = 1.000 3703 measured reflections 2616 independent reflections 2271 reflections with I > 2sI) R int = 0.015

Refinement

R[F 2 > 2σ(F 2)] = 0.042 wR(F 2) = 0.114 S = 1.01 2616 reflections 186 parameters 1 restraint H-atom parameters constrained Δρmax = 0.37 e Å−3 Δρmin = −0.22 e Å−3 Absolute structure: Flack (1983 ▶), 686 Friedel pairs Flack parameter: −0.01 (8) Data collection: CrysAlis PRO (Agilent, 2011 ▶); cell refinement: CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: OLEX2 (Dolomanov et al., 2009 ▶); software used to prepare material for publication: OLEX2. Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536811031126/zs2126sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811031126/zs2126Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811031126/zs2126Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C13H27N2O3+·Cl·H2OF(000) = 340
Mr = 312.83Dx = 1.133 Mg m3
Monoclinic, P21Mo Kα radiation, λ = 0.7107 Å
a = 5.2212 (2) ÅCell parameters from 1351 reflections
b = 9.6032 (5) Åθ = 3.1–29.1°
c = 18.4081 (8) ŵ = 0.22 mm1
β = 96.329 (4)°T = 295 K
V = 917.36 (7) Å3Block, colourless
Z = 20.45 × 0.32 × 0.17 mm
Oxford Diffraction Xcalibur Sapphire3 Gemini Ultra CCD diffractometer2616 independent reflections
Radiation source: Enhance (Mo) X-ray Source2271 reflections with I > 2s˘I)
graphiteRint = 0.015
Detector resolution: 16.0288 pixels mm-1θmax = 26.0°, θmin = 3.1°
ω scansh = −6→6
Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2011)k = −7→11
Tmin = 0.990, Tmax = 1.000l = −19→22
3703 measured reflections
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.042H-atom parameters constrained
wR(F2) = 0.114w = 1/[σ2(Fo2) + (0.065P)2 + 0.1023P] where P = (Fo2 + 2Fc2)/3
S = 1.01(Δ/σ)max = 0.001
2616 reflectionsΔρmax = 0.37 e Å3
186 parametersΔρmin = −0.22 e Å3
1 restraintAbsolute structure: Flack (1983), 686 Friedel pairs
Primary atom site location: structure-invariant direct methodsFlack parameter: −0.01 (8)
Geometry. Bond distances, angles etc. have been calculated using the rounded fractional coordinates. All su's are estimated from the variances of the (full) variance-covariance matrix. The cell esds are taken into account in the estimation of distances, angles and torsion angles
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 > 2sigma(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
O10.9159 (3)0.8611 (2)0.21026 (11)0.0456 (7)
O21.1446 (4)1.1632 (3)0.27116 (12)0.0647 (9)
O30.8114 (4)1.1739 (3)0.18571 (12)0.0609 (8)
N10.5270 (4)0.7595 (3)0.09916 (12)0.0467 (8)
N20.5803 (4)0.9650 (3)0.25512 (13)0.0422 (8)
C10.4995 (5)0.7609 (3)0.17896 (15)0.0407 (9)
C20.6837 (5)0.8673 (3)0.21552 (14)0.0376 (8)
C30.7383 (5)1.0686 (3)0.29656 (15)0.0429 (9)
C40.9252 (5)1.1384 (3)0.24936 (15)0.0451 (9)
C50.5595 (5)0.6146 (4)0.20897 (15)0.0460 (8)
C60.8781 (6)1.0087 (4)0.36714 (16)0.0538 (10)
C70.5536 (5)0.5991 (4)0.29136 (15)0.0477 (9)
C80.7036 (7)0.9642 (5)0.42373 (18)0.0648 (13)
C90.6292 (8)0.4502 (4)0.3139 (2)0.0718 (14)
C100.2924 (7)0.6351 (6)0.3153 (2)0.0761 (14)
C110.8619 (12)0.8836 (9)0.4839 (3)0.124 (3)
C120.5709 (8)1.0854 (7)0.4543 (2)0.0883 (19)
C130.4878 (8)0.8963 (5)0.06236 (19)0.0701 (14)
O41.0969 (8)1.2934 (4)0.09741 (19)0.1200 (16)
Cl10.01614 (13)0.60884 (9)0.04716 (4)0.0580 (3)
H10.322400.786100.186400.0490*
H1A0.685700.728500.092800.0560*
H1B0.412600.698600.077100.0560*
H20.416100.966400.256100.0510*
H30.621601.141200.310700.0520*
H3A0.905701.211900.156800.0730*
H5A0.435900.550100.184300.0550*
H5B0.729000.587800.197000.0550*
H6A0.978300.928800.354800.0640*
H6B0.997801.078200.388900.0640*
H70.681900.662600.316100.0570*
H80.571600.901700.400000.0780*
H9A0.501600.386600.291900.1070*
H9B0.640100.442000.366200.1070*
H9C0.793400.428300.297900.1070*
H10A0.247800.728900.301100.1140*
H10B0.299800.626600.367500.1140*
H10C0.164600.572400.292600.1140*
H11A0.942900.805700.463100.1850*
H11B0.751200.850700.518600.1850*
H11C0.991600.943500.508200.1850*
H12A0.697301.147200.478600.1330*
H12B0.459001.052600.488700.1330*
H12C0.471401.134200.415400.1330*
H13A0.500500.885600.011000.1050*
H13B0.617200.960400.082800.1050*
H13C0.320200.931600.069400.1050*
H4A1.147401.232400.068800.1440*
H4B1.010501.355600.072700.1440*
U11U22U33U12U13U23
O10.0316 (9)0.0457 (13)0.0607 (12)0.0060 (9)0.0102 (8)−0.0027 (11)
O20.0421 (11)0.0755 (19)0.0769 (14)−0.0069 (12)0.0078 (10)0.0094 (14)
O30.0645 (13)0.0608 (16)0.0567 (12)−0.0036 (13)0.0038 (11)0.0162 (12)
N10.0420 (12)0.0530 (17)0.0443 (13)−0.0020 (12)0.0011 (10)0.0028 (12)
N20.0325 (11)0.0422 (15)0.0526 (13)0.0089 (11)0.0075 (10)0.0002 (12)
C10.0340 (12)0.0426 (17)0.0462 (15)0.0045 (13)0.0077 (11)0.0011 (14)
C20.0342 (12)0.0355 (16)0.0434 (14)0.0058 (13)0.0059 (11)0.0057 (13)
C30.0397 (13)0.0399 (18)0.0499 (15)0.0089 (13)0.0081 (12)−0.0017 (13)
C40.0446 (15)0.0358 (18)0.0555 (16)0.0064 (14)0.0083 (13)0.0016 (14)
C50.0427 (13)0.0393 (16)0.0551 (15)−0.0006 (15)0.0019 (11)0.0009 (16)
C60.0487 (16)0.062 (2)0.0497 (17)0.0062 (16)0.0009 (13)0.0009 (16)
C70.0475 (14)0.0412 (17)0.0535 (15)0.0020 (16)0.0022 (12)0.0052 (16)
C80.073 (2)0.071 (3)0.0502 (17)−0.022 (2)0.0056 (16)0.0017 (18)
C90.076 (2)0.050 (2)0.088 (3)0.004 (2)0.003 (2)0.018 (2)
C100.0628 (19)0.092 (3)0.077 (2)0.008 (2)0.0236 (17)0.025 (3)
C110.151 (5)0.144 (6)0.077 (3)0.009 (5)0.018 (3)0.054 (4)
C120.079 (2)0.130 (5)0.060 (2)−0.009 (3)0.0255 (18)−0.015 (3)
C130.078 (2)0.071 (3)0.059 (2)−0.003 (2)−0.0021 (18)0.018 (2)
O40.165 (3)0.099 (3)0.099 (2)−0.003 (3)0.028 (2)0.015 (2)
Cl10.0507 (4)0.0606 (5)0.0630 (4)−0.0075 (4)0.0081 (3)−0.0114 (5)
O1—C21.228 (3)C1—H10.9800
O2—C41.195 (3)C3—H30.9800
O3—C41.300 (4)C5—H5B0.9700
O3—H3A0.8500C5—H5A0.9700
O4—H4B0.8500C6—H6A0.9700
O4—H4A0.8500C6—H6B0.9700
N1—C131.482 (5)C7—H70.9800
N1—C11.492 (4)C8—H80.9800
N2—C21.338 (4)C9—H9C0.9600
N2—C31.454 (4)C9—H9B0.9600
N1—H1A0.9000C9—H9A0.9600
N1—H1B0.9000C10—H10B0.9600
N2—H20.8600C10—H10A0.9600
C1—C51.529 (5)C10—H10C0.9600
C1—C21.510 (4)C11—H11B0.9600
C3—C41.531 (4)C11—H11A0.9600
C3—C61.531 (4)C11—H11C0.9600
C5—C71.528 (4)C12—H12B0.9600
C6—C81.519 (5)C12—H12C0.9600
C7—C101.519 (5)C12—H12A0.9600
C7—C91.529 (5)C13—H13C0.9600
C8—C121.496 (7)C13—H13A0.9600
C8—C111.519 (8)C13—H13B0.9600
C4—O3—H3A116.00C3—C6—H6B108.00
H4A—O4—H4B110.00C8—C6—H6A109.00
C1—N1—C13114.8 (3)C3—C6—H6A109.00
C2—N2—C3121.7 (2)H6A—C6—H6B108.00
C1—N1—H1B109.00C8—C6—H6B109.00
C13—N1—H1A108.00C5—C7—H7108.00
H1A—N1—H1B108.00C9—C7—H7108.00
C1—N1—H1A109.00C10—C7—H7108.00
C13—N1—H1B109.00C6—C8—H8108.00
C2—N2—H2119.00C11—C8—H8108.00
C3—N2—H2119.00C12—C8—H8108.00
N1—C1—C2108.6 (2)C7—C9—H9B109.00
N1—C1—C5108.0 (2)C7—C9—H9C110.00
C2—C1—C5111.5 (2)H9A—C9—H9B109.00
O1—C2—C1121.2 (2)H9A—C9—H9C109.00
N2—C2—C1116.2 (2)H9B—C9—H9C109.00
O1—C2—N2122.6 (3)C7—C9—H9A110.00
N2—C3—C6112.2 (3)C7—C10—H10A109.00
C4—C3—C6111.9 (2)C7—C10—H10B109.00
N2—C3—C4111.2 (2)H10A—C10—H10B110.00
O2—C4—C3123.0 (3)H10A—C10—H10C110.00
O3—C4—C3111.7 (2)H10B—C10—H10C109.00
O2—C4—O3125.2 (3)C7—C10—H10C110.00
C1—C5—C7115.0 (3)C8—C11—H11B109.00
C3—C6—C8115.0 (3)C8—C11—H11C109.00
C5—C7—C10112.5 (2)C8—C11—H11A110.00
C9—C7—C10110.3 (3)H11A—C11—H11C109.00
C5—C7—C9109.1 (3)H11B—C11—H11C109.00
C6—C8—C12112.1 (4)H11A—C11—H11B109.00
C11—C8—C12111.1 (4)C8—C12—H12A109.00
C6—C8—C11108.9 (3)C8—C12—H12B109.00
C2—C1—H1110.00H12A—C12—H12B109.00
C5—C1—H1110.00H12A—C12—H12C109.00
N1—C1—H1110.00C8—C12—H12C110.00
C4—C3—H3107.00H12B—C12—H12C109.00
C6—C3—H3107.00N1—C13—H13B109.00
N2—C3—H3107.00N1—C13—H13C109.00
C1—C5—H5B109.00N1—C13—H13A110.00
C7—C5—H5A108.00H13A—C13—H13C109.00
C7—C5—H5B109.00H13B—C13—H13C109.00
H5A—C5—H5B107.00H13A—C13—H13B109.00
C1—C5—H5A109.00
C13—N1—C1—C2−56.0 (3)C2—C1—C5—C757.8 (3)
C13—N1—C1—C5−177.1 (2)N2—C3—C4—O2−138.2 (3)
C3—N2—C2—O1−1.8 (4)N2—C3—C4—O345.8 (3)
C3—N2—C2—C1176.3 (2)C6—C3—C4—O2−11.8 (4)
C2—N2—C3—C449.6 (3)C6—C3—C4—O3172.1 (3)
C2—N2—C3—C6−76.5 (3)N2—C3—C6—C8−66.0 (4)
N1—C1—C2—O1−56.6 (3)C4—C3—C6—C8168.1 (3)
N1—C1—C2—N2125.2 (3)C1—C5—C7—C9−177.4 (3)
C5—C1—C2—O162.3 (3)C1—C5—C7—C1059.8 (4)
C5—C1—C2—N2−115.9 (3)C3—C6—C8—C11169.8 (4)
N1—C1—C5—C7177.1 (2)C3—C6—C8—C12−66.9 (4)
D—H···AD—HH···AD···AD—H···A
N1—H1A···Cl1i0.902.313.174 (2)161
N1—H1B···Cl10.902.253.092 (2)155
N2—H2···O2ii0.862.403.006 (3)128
O3—H3A···O40.851.742.591 (5)179
O4—H4A···Cl1iii0.852.513.198 (4)139
O4—H4B···Cl1iv0.852.483.182 (4)141
C1—H1···O1ii0.982.333.306 (3)175
C3—H3···O2ii0.982.533.215 (3)127
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1A⋯Cl1i0.902.313.174 (2)161
N1—H1B⋯Cl10.902.253.092 (2)155
N2—H2⋯O2ii0.862.403.006 (3)128
O3—H3A⋯O40.851.742.591 (5)179
O4—H4A⋯Cl1iii0.852.513.198 (4)139
O4—H4B⋯Cl1iv0.852.483.182 (4)141

Symmetry codes: (i) ; (ii) ; (iii) ; (iv) .

  5 in total

1.  Chemical Synthesis of Natural Product Peptides: Coupling Methods for the Incorporation of Noncoded Amino Acids into Peptides.

Authors:  John M. Humphrey; A. Richard Chamberlin
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2.  A short history of SHELX.

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

3.  Synthesis of second-generation sansalvamide A derivatives: novel templates as potential antitumor agents.

Authors:  Rodrigo A Rodriguez; Po-Shen Pan; Chung-Mao Pan; Suchitra Ravula; Stephanie Lapera; Erinprit K Singh; Thomas J Styers; Joseph D Brown; Julia Cajica; Emily Parry; Katerina Otrubova; Shelli R McAlpine
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4.  Isolation, structure determination, and synthesis of galaxamide, a rare cytotoxic cyclic pentapeptide from a marine algae Galaxaura filamentosa.

Authors:  Wen-Jie Xu; Xiao-Jian Liao; Shi-Hai Xu; Jian-Zhong Diao; Bin Du; Xu-Long Zhou; Shan-Shan Pan
Journal:  Org Lett       Date:  2008-09-25       Impact factor: 6.005

5.  N-{N-[N-(1,1-Dimethyl-ethoxy-carbon-yl)-l-leuc-yl]-N-methyl-l-leuc-yl}-N-methyl-l-leucine benzyl ester.

Authors:  Wen Jie Xu; Xiao Jian Liao; Jian Zhong Diao; Lei Zhou; Shi Hai Xu
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2008-10-25
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