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9qko

Structure of the cyanobacteria specific PRK from Chroococcidiopsis (Hyella disjuncta) PCC 6712 (P1 crystal form)

Method: X-RAY DIFFRACTION D_max: 102.4 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9qko
deposition_date	2025-03-20
last_revision	2026-04-08
title	Structure of the cyanobacteria specific PRK from Chroococcidiopsis (Hyella disjuncta) PCC 6712 (P1 crystal form)
keywords	carbon fixation, sugar kinase, PHOTOSYNTHESIS; PHOTOSYNTHESIS
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	30.47 Å
rg_electron	30.31 Å
i0	82936000.00
molecular_weight	70069.0 kDa
excluded_volume	86946 Å³
envelope_volume	106560 Å³
shell_volume	30707 Å³
envelope_diameter	108.1 Å
shell_rg	35.87 Å
envelope_rg	30.31 Å
shape_rg	30.32 Å
total_rg	30.76 Å
total_atoms	4918
n_residues	604
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	102.4 Å
rg_real	30.68 Å
rg_real_error	0.87 Å
i0_real	8.2940e+07
i0_real_error	1.3490e+06
rg_reciprocal	30.59 Å
i0_reciprocal	82930000.0000
total_estimate	0.8438
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	29.5 Å
skewness	0.483
kurtosis	-0.427
angular_range	— – 0.2600 Å⁻¹
current_alpha	0.0000
highest_alpha	14900000.0000
n_real_points	53
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.785; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.820; Smooth: 0.790

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	cyanobacteria specific phoshoribulokinase from Hyella disjuncta PCC 6712
formula_weight	35208.0 kDa
ec_number	2.7.1.19
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	B,A
atom_count	4918

MSERPIILGIVGDSAAGKTTLTRGLAQVFGEENVTAICTDDYHRYDRQQRAEMGISALHPDCNYVDIIEQHLDLLRQGKPILKPIYNHNTGKFDPPEYIQPRKYVVVEGLLGYSTRPMRDSYDVKVYLAPPESLRYSWKIKRDTRKRGYTEEQVLEQLKMREHDSENYIRPQRQWADVVVSFYPPDAESEANNLLLNVKLILRPTIPHPNLTNILSAEGNHLGSAIRLGLERDMGKPVDVLSIDGHATAEQVRELEKIFCSEVPFLGQFCSLEGNTEIGTVIGTTGESLQSYPLALTQLLIAYHMLKELGS

Source

organism	Chroococcidiopsis
ncbi_taxonomy_id	118675
host_organism	Escherichia coli KRX

Entity 2 non-polymer

description	SULFATE ION
formula_weight	96.1 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	ADENOSINE-5'-DIPHOSPHATE
formula_weight	427.2 kDa
src_method	syn
entity_count	2

Entity 4 non-polymer

description	RIBULOSE-1,5-DIPHOSPHATE
formula_weight	310.1 kDa
src_method	syn
entity_count	2

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6. Citations (1)

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length_a	46.572 Å
length_b	53.080 Å
length_c	64.367 Å
angle_alpha	92.95 °
angle_beta	101.84 °
angle_gamma	103.24 °
z_pdb	2

space_group	P 1
int_tables_number	1
crystal_system	triclinic

resolution	2.600 Å
resolution_low	38.490 Å
r_factor	0.2371
r_work	0.2352
r_free	0.2750

fit	/app/data/saxs_computation/qk/9qko/9qko.fit
pddf	/app/data/pr_computation/qk/9qko/9qko.pr.out
profile	/app/data/saxs_computation/qk/9qko/9qko.dat

Structure of the cyanobacteria specific PRK from Chroococcidiopsis (Hyella disjuncta) PCC 6712 (P1 crystal form)

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