2OMP | pdb_00002omp

LYQLEN peptide derived from human insulin chain A, residues 13-18

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
in silico model	Other		idealized beta strands, polyalanine

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	2.5	310	20mM peptide in 100 mM NaCl and 50 mM phosphate, pH 2.5, VAPOR DIFFUSION, HANGING DROP, temperature 310K

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 9.666	α = 90
b = 28.003	β = 96.24
c = 17.346	γ = 90

Symmetry
Space Group	P 1 21 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	MAR CCD 165 mm		2005-07-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID13		ESRF	ID13

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	1.8	90	91	0.186	4.8	2.1		752			15.2

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.8	1.94	83.5		0.402		1.9	137

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	idealized beta strands, polyalanine	1.9	17.24	682	41	91.91	0.191	0.189	0.19	0.228	0.27	RANDOM	5.283

Temperature Factor Modeling
Anisotropic B[1][1]	Anisotropic B[1][2]	Anisotropic B[1][3]	Anisotropic B[2][2]	Anisotropic B[2][3]	Anisotropic B[3][3]
-0.39		-0.29	-0.06		0.38

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	45.743
r_dihedral_angle_3_deg	18.223
r_dihedral_angle_1_deg	5.755
r_scangle_it	5.465
r_scbond_it	5.139
r_mcbond_it	3.237
r_mcangle_it	2.389
r_angle_other_deg	2.015
r_angle_refined_deg	1.357
r_symmetry_vdw_refined	0.264
r_symmetry_hbond_refined	0.211
r_nbd_other	0.201
r_nbtor_refined	0.194
r_nbd_refined	0.19
r_symmetry_vdw_other	0.186
r_xyhbond_nbd_refined	0.126
r_nbtor_other	0.09
r_mcbond_other	0.045
r_chiral_restr	0.041
r_bond_other_d	0.012
r_bond_refined_d	0.008
r_gen_planes_refined	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	110
Nucleic Acid Atoms
Solvent Atoms	6
Heterogen Atoms

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction