#------------------------------------------------------------------------------
#$Date: 2025-08-19 11:01:59 +0100 (Tue, 19 Aug 2025) $
#$Revision: 301802 $
#$URL: svn://www.crystallography.net/cod/cif/2/10/51/2105103.cif $
#------------------------------------------------------------------------------
#
# This file is available in the Crystallography Open Database (COD),
# http://www.crystallography.net/. The original data for this entry
# were provided by IUCr Journals, http://journals.iucr.org/.
#
# The file may be used within the scientific community so long as
# proper attribution is given to the journal article from which the
# data were obtained.
#
data_2105103
loop_
_publ_author_name
'Zakharov, Boris A.'
'Kolesov, Boris A.'
'Boldyreva, Elena V.'
_publ_section_title
;
Effect of pressure on crystalline L- and
DL-serine: revisited by a combined single-crystal X-ray
diffraction at a laboratory source and polarized Raman spectroscopy study
;
_journal_coeditor_code GP5049
_journal_issue 3
_journal_name_full 'Acta Crystallographica Section B'
_journal_page_first 275
_journal_page_last 286
_journal_paper_doi 10.1107/S0108768112015960
_journal_volume 68
_journal_year 2012
_chemical_formula_moiety 'C3 H7 N O3'
_chemical_formula_sum 'C3 H7 N O3'
_chemical_formula_weight 105.10
_chemical_melting_point 501
_chemical_name_common DL-serine
_chemical_name_systematic
;
2-amino-3-hydroxypropanoic acid
;
_space_group_IT_number 14
_symmetry_cell_setting monoclinic
_symmetry_space_group_name_Hall '-P 2yn'
_symmetry_space_group_name_H-M 'P 1 21/n 1'
_atom_sites_solution_hydrogens geom
_atom_sites_solution_primary direct
_atom_sites_solution_secondary difmap
_audit_creation_method SHELXL-97
_cell_angle_alpha 90.00
_cell_angle_beta 102.35(4)
_cell_angle_gamma 90.00
_cell_formula_units_Z 4
_cell_length_a 4.7505(6)
_cell_length_b 8.6644(6)
_cell_length_c 9.725(11)
_cell_measurement_reflns_used 1837
_cell_measurement_temperature 293(2)
_cell_measurement_theta_max 30.9600
_cell_measurement_theta_min 2.3459
_cell_volume 391.0(4)
_computing_cell_refinement
;
CrysAlisPro, Oxford Diffraction Ltd.,
Version 1.171.34.44 (release 25-10-2010 CrysAlis171 .NET)
(compiled Oct 25 2010,18:11:34)
;
_computing_data_collection
;
CrysAlisPro, Oxford Diffraction Ltd.,
Version 1.171.34.44 (release 25-10-2010 CrysAlis171 .NET)
(compiled Oct 25 2010,18:11:34)
;
_computing_data_reduction
;
CrysAlisPro, Oxford Diffraction Ltd.,
Version 1.171.34.44 (release 25-10-2010 CrysAlis171 .NET)
(compiled Oct 25 2010,18:11:34)
;
_computing_molecular_graphics 'Mercury (Macrae et al., 2006)'
_computing_publication_material
;
Mercury (Macrae et al., 2006),
PLATON (Spek, 2009),
enCIFer (Allen et al., 2004)
;
_computing_structure_refinement 'SHELXL-97 (Sheldrick, 2008)'
_computing_structure_solution 'SHELXS-97 (Sheldrick, 2008)'
_diffrn_ambient_temperature 293(2)
_diffrn_measured_fraction_theta_full 0.282
_diffrn_measured_fraction_theta_max 0.282
_diffrn_measurement_device_type 'Xcalibur, Ruby, Gemini ultra'
_diffrn_measurement_method 'rotation method'
_diffrn_radiation_monochromator graphite
_diffrn_radiation_source 'Enhance (Mo) X-ray Source'
_diffrn_radiation_type MoK\a
_diffrn_radiation_wavelength 0.71073
_diffrn_reflns_av_R_equivalents 0.0503
_diffrn_reflns_av_sigmaI/netI 0.0281
_diffrn_reflns_limit_h_max 6
_diffrn_reflns_limit_h_min -6
_diffrn_reflns_limit_k_max 12
_diffrn_reflns_limit_k_min -12
_diffrn_reflns_limit_l_max 4
_diffrn_reflns_limit_l_min -4
_diffrn_reflns_number 3625
_diffrn_reflns_theta_full 31.03
_diffrn_reflns_theta_max 31.03
_diffrn_reflns_theta_min 4.46
_exptl_absorpt_coefficient_mu 0.160
_exptl_absorpt_correction_T_max 0.474
_exptl_absorpt_correction_T_min 0.397
_exptl_absorpt_correction_type gaussian
_exptl_absorpt_process_details
;
Absorb Angel (2004) J. Appl. Cryst. 37:486-492
;
_exptl_crystal_colour colourless
_exptl_crystal_density_diffrn 1.785
_exptl_crystal_density_method 'not measured'
_exptl_crystal_description prism
_exptl_crystal_F_000 224
_exptl_crystal_size_max 0.25
_exptl_crystal_size_mid 0.15
_exptl_crystal_size_min 0.07
_refine_diff_density_max 0.111
_refine_diff_density_min -0.106
_refine_ls_extinction_method none
_refine_ls_goodness_of_fit_ref 1.069
_refine_ls_hydrogen_treatment constr
_refine_ls_matrix_type full
_refine_ls_number_parameters 66
_refine_ls_number_reflns 354
_refine_ls_number_restraints 55
_refine_ls_restrained_S_all 0.989
_refine_ls_R_factor_all 0.0418
_refine_ls_R_factor_gt 0.0315
_refine_ls_shift/su_max 0.000
_refine_ls_shift/su_mean 0.000
_refine_ls_structure_factor_coef Fsqd
_refine_ls_weighting_details
'calc w=1/[\s^2^(Fo^2^)+(0.0444P)^2^+0.0577P] where P=(Fo^2^+2Fc^2^)/3'
_refine_ls_weighting_scheme calc
_refine_ls_wR_factor_gt 0.0731
_refine_ls_wR_factor_ref 0.0783
_reflns_number_gt 301
_reflns_number_total 354
_reflns_threshold_expression >2sigma(I)
_iucr_refine_instructions_details
;
TITL
CELL 0.71073 4.75049 8.66442 9.72525 90.00000 102.35040 90.00000
ZERR 4 0.00060 0.00061 0.01102 0.00000 0.04370 0.00000
LATT 1
SYMM -X+ 0.50000, Y+ 0.50000, -Z+ 0.50000
SFAC C H N O
UNIT 12 28 4 12
PLAN 30
FMAP 2
L.S. 20
EQIV $1 1/2+X,1/2-Y,1/2+Z
EQIV $2 1/2-X,-1/2+Y,1/2-Z
EQIV $3 3/2-X,-1/2+Y,1/2-Z
HTAB N1 O2_$1
HTAB N1 O3_$2
HTAB N1 O3_$3
HTAB O2 O1_$2
BOND $H
BOND
CONF
ACTA
DELU
SIMU
ISOR 0.01 C1
WGHT 0.044400 0.057700
FVAR 7.38285
O1 4 0.261488 0.376930 0.335824 11.00000 0.02140 0.02208 =
0.03622 -0.00105 0.01439 0.00110
O2 4 0.337299 0.138408 0.052819 11.00000 0.03055 0.01771 =
0.03462 0.00381 -0.00106 -0.00261
AFIX 147
H2 2 0.303716 0.056096 0.087712 11.00000 -1.20000
AFIX 0
N1 3 0.618666 0.146127 0.362728 11.00000 0.01817 0.01802 =
0.02232 -0.00157 0.00532 0.00144
AFIX 137
H1A 2 0.447227 0.100313 0.340717 11.00000 -1.20000
H1B 2 0.636805 0.194369 0.444952 11.00000 -1.20000
H1C 2 0.756848 0.075490 0.368980 11.00000 -1.20000
AFIX 0
O3 4 0.388445 0.479871 0.147885 11.00000 0.02245 0.01970 =
0.02534 0.00377 0.00540 0.00121
C1 1 0.643612 0.258667 0.253066 11.00000 0.01528 0.01551 =
0.03257 -0.00183 0.00940 -0.00054
AFIX 13
H1 2 0.831968 0.309122 0.280219 11.00000 -1.20000
AFIX 0
C2 1 0.410883 0.381820 0.245230 11.00000 0.01532 0.01282 =
0.04343 -0.00338 0.00997 -0.00314
C3 1 0.624064 0.186109 0.113746 11.00000 0.02094 0.02253 =
0.03214 -0.00489 0.00582 0.00305
AFIX 23
H3A 2 0.688391 0.259084 0.051336 11.00000 -1.20000
H3B 2 0.751001 0.097239 0.123746 11.00000 -1.20000
HKLF 4
REM
REM R1 = 0.0315 for 301 Fo > 4sig(Fo) and 0.0418 for all 354 data
REM 66 parameters refined using 55 restraints
END
WGHT 0.0444 0.0577
REM Highest difference peak 0.111, deepest hole -0.106, 1-sigma level 0.030
Q1 1 0.5382 0.3191 0.2476 11.00000 0.05 0.11
Q2 1 0.3480 0.5636 0.2451 11.00000 0.05 0.10
Q3 1 0.8804 0.2562 0.3369 11.00000 0.05 0.10
Q4 1 0.1899 0.1311 0.1734 11.00000 0.05 0.10
Q5 1 0.5813 0.2566 0.0800 11.00000 0.05 0.10
Q6 1 0.6547 0.4431 0.2547 11.00000 0.05 0.08
Q7 1 0.3178 0.0583 0.3725 11.00000 0.05 0.08
Q8 1 0.7310 0.2996 0.3438 11.00000 0.05 0.08
Q9 1 0.8190 0.1039 0.0512 11.00000 0.05 0.08
Q10 1 0.7194 0.2791 0.4224 11.00000 0.05 0.08
Q11 1 0.5725 0.2471 0.5528 11.00000 0.05 0.08
Q12 1 0.8185 0.1382 0.1102 11.00000 0.05 0.08
Q13 1 0.4674 0.1383 -0.0578 11.00000 0.05 0.08
Q14 1 0.5775 0.2941 -0.0241 11.00000 0.05 0.07
Q15 1 0.6669 0.0347 0.4551 11.00000 0.05 0.07
Q16 1 0.6553 0.0370 0.4157 11.00000 0.05 0.07
Q17 1 0.2099 0.1958 0.0371 11.00000 0.05 0.07
Q18 1 0.4628 0.0613 0.4570 11.00000 0.05 0.07
Q19 1 0.4994 0.4341 0.3706 11.00000 0.05 0.07
Q20 1 0.5728 -0.0614 0.3123 11.00000 0.05 0.06
Q21 1 0.7089 0.2580 0.1840 11.00000 0.05 0.06
Q22 1 0.9065 0.0661 0.4735 11.00000 0.05 0.06
Q23 1 0.5068 0.5221 0.1815 11.00000 0.05 0.06
Q24 1 0.5344 0.0425 0.3351 11.00000 0.05 0.06
Q25 1 1.0276 0.1649 0.1119 11.00000 0.05 0.06
Q26 1 0.8684 0.4197 0.3821 11.00000 0.05 0.06
Q27 1 0.1400 0.4630 0.3358 11.00000 0.05 0.06
Q28 1 0.9614 0.0362 0.0264 11.00000 0.05 0.06
Q29 1 0.2108 0.3206 0.3033 11.00000 0.05 0.06
Q30 1 0.3722 0.4167 0.0169 11.00000 0.05 0.06
;
_cod_data_source_file gp5049.cif
_cod_data_source_block DL-serine4.4GPa
_cod_depositor_comments
;
The following automatic conversions were performed:
'_exptl_absorpt_correction_type' value 'GAUSSIAN' changed to
'gaussian' according to
/home/saulius/struct/CIF-dictionaries/cif_core.dic dictionary named
'cif_core.dic' version 2.4.1 from 2010-06-29.
Automatic conversion script
Id: cif_fix_values 1891 2012-01-12 08:04:46Z andrius
;
_cod_original_sg_symbol_H-M P21/n
_cod_database_code 2105103
_cod_database_fobs_code 2105103
loop_
_symmetry_equiv_pos_as_xyz
'x, y, z'
'-x+1/2, y+1/2, -z+1/2'
'-x, -y, -z'
'x-1/2, -y-1/2, z-1/2'
loop_
_atom_site_type_symbol
_atom_site_label
_atom_site_fract_x
_atom_site_fract_y
_atom_site_fract_z
_atom_site_U_iso_or_equiv
_atom_site_adp_type
_atom_site_calc_flag
_atom_site_refinement_flags
_atom_site_occupancy
_atom_site_symmetry_multiplicity
O O1 0.2615(3) 0.37693(11) 0.3358(4) 0.025(2) Uani d U 1 1
O O2 0.3373(3) 0.13841(13) 0.0528(4) 0.029(2) Uani d U 1 1
H H2 0.3037 0.0561 0.0877 0.035 Uiso calc R 1 1
N N1 0.6187(3) 0.14613(15) 0.3627(5) 0.019(3) Uani d U 1 1
H H1A 0.4472 0.1003 0.3407 0.023 Uiso calc R 1 1
H H1B 0.6368 0.1944 0.4450 0.023 Uiso calc R 1 1
H H1C 0.7568 0.0755 0.3690 0.023 Uiso calc R 1 1
O O3 0.3884(3) 0.47987(13) 0.1479(4) 0.022(2) Uani d U 1 1
C C1 0.6436(4) 0.25867(18) 0.2531(6) 0.020(2) Uani d U 1 1
H H1 0.8320 0.3091 0.2802 0.025 Uiso calc R 1 1
C C2 0.4109(4) 0.38182(16) 0.2452(6) 0.023(3) Uani d U 1 1
C C3 0.6241(4) 0.1861(2) 0.1137(7) 0.025(2) Uani d U 1 1
H H3A 0.6884 0.2591 0.0513 0.030 Uiso calc R 1 1
H H3B 0.7510 0.0972 0.1237 0.030 Uiso calc R 1 1
loop_
_atom_site_aniso_label
_atom_site_aniso_U_11
_atom_site_aniso_U_22
_atom_site_aniso_U_33
_atom_site_aniso_U_12
_atom_site_aniso_U_13
_atom_site_aniso_U_23
O1 0.0214(7) 0.0221(6) 0.036(7) 0.0011(4) 0.0144(18) -0.0011(11)
O2 0.0306(8) 0.0177(6) 0.035(7) -0.0026(4) -0.0011(17) 0.0038(11)
N1 0.0182(8) 0.0180(6) 0.022(8) 0.0014(5) 0.005(2) -0.0016(13)
O3 0.0224(7) 0.0197(6) 0.025(7) 0.0012(4) 0.0054(19) 0.0038(11)
C1 0.0153(8) 0.0155(7) 0.033(7) -0.0005(6) 0.009(2) -0.0018(16)
C2 0.0153(8) 0.0128(7) 0.043(9) -0.0031(5) 0.010(2) -0.0034(15)
C3 0.0209(10) 0.0225(8) 0.032(8) 0.0031(6) 0.006(2) -0.005(2)
loop_
_atom_type_symbol
_atom_type_description
_atom_type_scat_dispersion_real
_atom_type_scat_dispersion_imag
_atom_type_scat_source
C C 0.0033 0.0016 'International Tables Vol C Tables 4.2.6.8 and 6.1.1.4'
H H 0.0000 0.0000 'International Tables Vol C Tables 4.2.6.8 and 6.1.1.4'
N N 0.0061 0.0033 'International Tables Vol C Tables 4.2.6.8 and 6.1.1.4'
O O 0.0106 0.0060 'International Tables Vol C Tables 4.2.6.8 and 6.1.1.4'
loop_
_geom_angle_atom_site_label_1
_geom_angle_atom_site_label_2
_geom_angle_atom_site_label_3
_geom_angle
C3 O2 H2 109.5
C1 N1 H1A 109.5
C1 N1 H1B 109.5
H1A N1 H1B 109.5
C1 N1 H1C 109.5
H1A N1 H1C 109.5
H1B N1 H1C 109.5
N1 C1 C3 112.6(2)
N1 C1 C2 109.3(3)
C3 C1 C2 110.4(4)
N1 C1 H1 108.1
C3 C1 H1 108.1
C2 C1 H1 108.1
O1 C2 O3 125.85(17)
O1 C2 C1 117.2(3)
O3 C2 C1 116.9(3)
O2 C3 C1 111.8(3)
O2 C3 H3A 109.3
C1 C3 H3A 109.3
O2 C3 H3B 109.3
C1 C3 H3B 109.3
H3A C3 H3B 107.9
loop_
_geom_bond_atom_site_label_1
_geom_bond_atom_site_label_2
_geom_bond_distance
O1 C2 1.245(5)
O2 C3 1.426(4)
O2 H2 0.8200
N1 C1 1.468(5)
N1 H1A 0.8900
N1 H1B 0.8900
N1 H1C 0.8900
O3 C2 1.259(5)
C1 C3 1.478(8)
C1 C2 1.527(2)
C1 H1 0.9800
C3 H3A 0.9700
C3 H3B 0.9700
loop_
_geom_hbond_atom_site_label_D
_geom_hbond_atom_site_label_H
_geom_hbond_atom_site_label_A
_geom_hbond_site_symmetry_A
_geom_hbond_distance_DH
_geom_hbond_distance_HA
_geom_hbond_distance_DA
_geom_hbond_angle_DHA
N1 H1B O2 4_666 0.89 1.92 2.676(5) 141.9
N1 H1A O3 2_545 0.89 1.93 2.7898(17) 162.3
N1 H1C O3 2_645 0.89 1.92 2.7698(17) 160.2
O2 H2 O1 2_545 0.82 1.78 2.597(3) 178.8
loop_
_geom_torsion_atom_site_label_1
_geom_torsion_atom_site_label_2
_geom_torsion_atom_site_label_3
_geom_torsion_atom_site_label_4
_geom_torsion
N1 C1 C2 O1 6.1(5)
C3 C1 C2 O1 130.5(3)
N1 C1 C2 O3 -174.2(3)
C3 C1 C2 O3 -49.9(3)
N1 C1 C3 O2 72.9(3)
C2 C1 C3 O2 -49.5(3)
loop_
_cod_related_entry_id
_cod_related_entry_database
_cod_related_entry_code
1 ChemSpider 597
2 PubChem 6857581