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1b5w

;CONTRIBUTION OF HYDROGEN BONDS TO THE CONFORMATIONAL STABILITY OF HUMAN LYSOZYME: CALORIMETRY AND X-RAY ANALYSIS OF SIX SER->ALA MUTANTS ;

Method: X-RAY DIFFRACTION D_max: 57.3 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1b5w
deposition_date	1999-01-11
title	;CONTRIBUTION OF HYDROGEN BONDS TO THE CONFORMATIONAL STABILITY OF HUMAN LYSOZYME: CALORIMETRY AND X-RAY ANALYSIS OF SIX SER->ALA MUTANTS ;
keywords	HYDROGEN BOND, STABILITY, HYDROLASE; HYDROLASE
method	X-RAY DIFFRACTION

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Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

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2. SAXS Parameters (CRYSOL)

rg_guinier	15.53 Å
rg_electron	14.13 Å
i0	4909210.00
molecular_weight	14787.0 kDa
excluded_volume	18049 Å³
envelope_volume	20555 Å³
shell_volume	12353 Å³
envelope_diameter	49.7 Å
shell_rg	19.83 Å
envelope_rg	14.57 Å
shape_rg	14.07 Å
total_rg	15.35 Å
total_atoms	1031
n_residues	130
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

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3. P(r) Analysis (GNOM)

dmax	57.3 Å
rg_real	15.45 Å
rg_real_error	0.44 Å
i0_real	4.9090e+06
i0_real_error	6.4700e+04
rg_reciprocal	15.46 Å
i0_reciprocal	4909000.0000
total_estimate	0.7510
solution_quality	GOOD a GOOD solution
n_peaks	3
r_peak_primary	20.3 Å
skewness	0.183
kurtosis	-0.311
angular_range	— – 0.5000 Å⁻¹
current_alpha	0.0000
highest_alpha	915600.0000
n_real_points	80
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.605; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.944; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	PROTEIN (LYSOZYME)
formula_weight	14704.7 kDa
ec_number	3.2.1.17
mutation	S61A
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	1175

KVFERCELARTLKRLGMDGYRGISLANWMCLAKWESGYNTRATNYNAGDRSTDYGIFQINARYWCNDGKTPGAVNACHLSCSALLQDNIADAVACAKRVVRDPQGIRAWVAWRNRCQNRDVRQYVQGCGV

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Saccharomyces cerevisiae

Entity 2 non-polymer

description	CHLORIDE ION
formula_weight	35.5 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	SODIUM ION
formula_weight	23.0 kDa
src_method	syn
entity_count	1

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	144

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6. Citations (7)

;Contribution of hydrogen bonds to the conformational stability of human lysozyme: calorimetry and X-ray analysis of six Ser --> Ala mutants. ;

Biochemistry (1999)

PMID: 10350481 · DOI: 10.1021/bi9901228 PRIMARY

;A General Rule for the Relationship between Hydrophobic Effect and Conformational Stability of a Protein: Stability and Structure of a Series of Hydrophobic Mutants of Human Lysozyme ;

J.Mol.Biol. (1998)

;Contribution of Hydrogen Bonds to the Conformational Stability of Human Lysozyme: Calorimetry and X-Ray Analysis of Six Tyr->Phe Mutants ;

Biochemistry (1998)

;Contribution of Hydrophobic Effect Valine Mutants to the Stability of Human Lysozyme: Calorimetric Studies and X-Ray Structural Analyses of the Nine Valine to Alanine Mutants ;

Biochemistry (1997)

Contribution of Water Molecules in the Interior of a Protein to the Conformational Stability

J.Mol.Biol. (1997)

The Structure, Stability, and Folding Process of Amyloidogenic Mutant Human Lysozyme

J.Biochem.(TOKYO) (1996)

;Contribution of Hydrophobic Residues to the Stability of Human Lysozyme: Calorimetric Studies and X-Ray Structural Analysis of the Five Isoleucine to Valine Mutants ;

J.Mol.Biol. (1995)

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length_a	56.570 Å
length_b	60.710 Å
length_c	33.520 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	4

space_group	P 21 21 21
int_tables_number	19
crystal_system	—

resolution	2.170 Å
resolution_low	8.000 Å
r_factor	0.1550
r_work	0.1550
r_free	—

fit	/app/data/saxs_computation/b5/1b5w/1b5w.fit
pddf	/app/data/pr_computation/b5/1b5w/1b5w.pr.out
profile	/app/data/saxs_computation/b5/1b5w/1b5w.dat

;CONTRIBUTION OF HYDROGEN BONDS TO THE CONFORMATIONAL STABILITY OF HUMAN LYSOZYME: CALORIMETRY AND X-RAY ANALYSIS OF SIX SER->ALA MUTANTS ;

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Unit Cell

Symmetry

Refinement

Diffraction