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1dap

C. GLUTAMICUM DAP DEHYDROGENASE IN COMPLEX WITH NADP+

Method: X-RAY DIFFRACTION D_max: 89.0 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1dap
deposition_date	1996-07-08
title	C. GLUTAMICUM DAP DEHYDROGENASE IN COMPLEX WITH NADP+
keywords	NADP, DEHYDROGENASE, D-AMINO ACID DEHYDROGENASE, LYSINE BIOSYNTHESIS, ASYMMETRIC DIMER, OXIDOREDUCTASE; OXIDOREDUCTASE
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	27.85 Å
rg_electron	26.94 Å
i0	91947800.00
molecular_weight	71514.0 kDa
excluded_volume	87772 Å³
envelope_volume	106250 Å³
shell_volume	33192 Å³
envelope_diameter	93.4 Å
shell_rg	34.09 Å
envelope_rg	27.15 Å
shape_rg	26.94 Å
total_rg	27.60 Å
total_atoms	5031
n_residues	640
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	89.0 Å
rg_real	27.84 Å
rg_real_error	0.55 Å
i0_real	9.1950e+07
i0_real_error	1.2420e+06
rg_reciprocal	27.84 Å
i0_reciprocal	91950000.0000
total_estimate	0.8931
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	31.2 Å
skewness	0.363
kurtosis	-0.313
angular_range	— – 0.2850 Å⁻¹
current_alpha	0.0000
highest_alpha	17830000.0000
n_real_points	58
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.906; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.889

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	DIAMINOPIMELIC ACID DEHYDROGENASE
formula_weight	35242.3 kDa
ec_number	1.4.1.16
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	5214

MTNIRVAIVGYGNLGRSVEKLIAKQPDMDLVGIFSRRATLDTKTPVFDVADVDKHADDVDVLFLCMGSATDIPEQAPKFAQFACTVDTYDNHRDIPRHRQVMNEAATAAGNVALVSTGWDPGMFSINRVYAAAVLAEHQQHTFWGPGLSQGHSDALRRIPGVQKAVQYTLPSEDALEKARRGEAGDLTGKQTHKRQCFVVADAADHERIENDIRTMPDYFVGYEVEVNFIDEATFDSEHTGMPHGGHVITTGDTGGFNHTVEYILKLDRNPDFTASSQIAFGRAAHRMKQQGQSGAFTVLEVAPYLLSPENLDDLIARDV

Source

organism	Corynebacterium glutamicum
ncbi_taxonomy_id	1718
host_organism	Escherichia coli BL21(DE3)

Entity 2 non-polymer

description	NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
formula_weight	745.4 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	ACETATE ION
formula_weight	59.0 kDa
src_method	syn
entity_count	2

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	183

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6. Citations (2)

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length_a	75.900 Å
length_b	65.800 Å
length_c	84.500 Å
angle_alpha	90.00 °
angle_beta	106.60 °
angle_gamma	90.00 °
z_pdb	4

space_group	P 1 21 1
int_tables_number	4
crystal_system	—

resolution	2.200 Å
resolution_low	20.000 Å
r_factor	—
r_work	0.1700
r_free	—

fit	/app/data/saxs_computation/da/1dap/1dap.fit
pddf	/app/data/pr_computation/da/1dap/1dap.pr.out
profile	/app/data/saxs_computation/da/1dap/1dap.dat

C. GLUTAMICUM DAP DEHYDROGENASE IN COMPLEX WITH NADP+

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