Structure of the GH13 and MucBP domains of Ruminococcus bromii Amy10

Method: ELECTRON MICROSCOPY D_max: 82.7 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9qf8
deposition_date	2025-03-11
title	Structure of the GH13 and MucBP domains of Ruminococcus bromii Amy10
keywords	GH13, Ruminococcus bromii, Amy10, MucBP, HYDROLASE; HYDROLASE
method	ELECTRON MICROSCOPY

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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	26.66 Å
rg_electron	25.72 Å
i0	105013000.00
molecular_weight	77780.0 kDa
excluded_volume	95829 Å³
envelope_volume	109170 Å³
shell_volume	34615 Å³
envelope_diameter	85.9 Å
shell_rg	34.07 Å
envelope_rg	25.99 Å
shape_rg	25.70 Å
total_rg	26.54 Å
total_atoms	10659
n_residues	717
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	82.7 Å
rg_real	26.56 Å
rg_real_error	0.57 Å
i0_real	1.0500e+08
i0_real_error	1.4650e+06
rg_reciprocal	26.60 Å
i0_reciprocal	105000000.0000
total_estimate	0.9031
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	31.7 Å
skewness	0.260
kurtosis	-0.393
angular_range	— – 0.3000 Å⁻¹
current_alpha	0.0000
highest_alpha	19640000.0000
n_real_points	61
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.920; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.997; Smooth: 0.982

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4. Crystallography & Experiment

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5. Entities & Polymer Info (1)

Entity 1 polymer

description	Ruminococcus bromii Amy10
formula_weight	131863.8 kDa
ec_number	3.2.1.41
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	10659

MAHHHHHHAVTSDESVSAGNYYNANYLESYASKAYNESGLGSVYSKTSTTWKTWSPDASSVKLKLYTTGSDNEAGASAIGTYDMKKDSSTGVWSLNLSGDYKNKYYTYLVTVNGTTKETQDVYSQAVGVNGNRTMVVDLDSTDPSGWSDDKHVLFNSASEAAVWEVHVRDFSVSKNSGVSEDNKGKYLAFAEGGTTLNSDTSSSAVSTGIDYLVEQGINCVQLMPVYDYGSVKEDVASSSSNRNWGYDPVNYNAPEGSYSTNPYDGNTRITEFKQMIQALHDRGISVVMDVVYNHTFSNDSCFNRTVPGYYYRMHSSSAYSNGSGCGNETASDKLMYRKYMIESVKYWAEEYHIDGFRFDLMGIHDITTMNDIRSALDGLYSDGSGKKILMYGEPWTGGSVAISDGCSQSKAGSLNPRVGMFCDSYRDAIKGSTDGSDKGFVQGNTDKAGTVANGVTGKGFSAQAPSQTIAYADAHDNLILWDKIVKSNGSSSWNSTSSSLRGQVKKVMGLLLTSQGIPFMTAGSEFCRTKQGDTNSYKSSDAINEIDWSRVKTYSDVAAYYKGLLEIRENYSPMKSSTFNTPSFQSTHGDVVAYTYSNNKSNEWGKVCVLVNASSTNDWPITLDGSGWTVVADGTTAGLKSLGTVSGNTYTVPANSACVLVQSSTFNNLKVSEKTFGTVTIKHIDDSGNVLKTSTAKYADGTTYRTYPDTTILYDYALKDTQGVTSGTVTGGKNYNVTYVYSSSGIRSGYVTVNYVDENGESIKDTVSTKYREGDSYSVPFTSIQGYQLDTDKYPANTTGTFNGTNTTINFVYKALDSTSSVVHYYNSNNWSNVRCYAYTDGGEEPNGKWNNATVMTSEGNGWLKCTIPASSSYVMFHTDSQQEPGANETGYLVSGEAWIQNKKLSFSSKVITSHIDAATGEKIADDEILIQSKVSSDDTYKTSPLSGRTDVIAPVNASGNLSSGIINVVYLYTSSERPSTAPSTVTPTTAPVTQPTEKILIGDVNLNGAIDIVDTTAVQKYIVKLITLSDKALIAAARCDADGENDIVSVKDATYIQMYVAKLDGHGNVGTYYESEVTPTTAPVTEPATEEPTVAPTTVPVTTAPVTEPTTTPSSTYTVKFTDSLNWDGTLYCYSWAEDGTSTKSWPGVAMTYLNTNDYGQKVYSVEVPNTVDYIIFTNGSSQTIDIGFDGTSLNYYTESQYDSKGHAYVGSW

Source

organism	Ruminococcus bromii L2-63
ncbi_taxonomy_id	657321
host_organism	Escherichia coli

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6. Citations (1)

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length_a	1.000 Å
length_b	1.000 Å
length_c	1.000 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	—

space_group	P 1
int_tables_number	1
crystal_system	triclinic

resolution	3.10 Å
resolution_method	—
num_particles	274000

fit	/app/data/saxs_computation/qf/9qf8/9qf8.fit
pddf	/app/data/pr_computation/qf/9qf8/9qf8.pr.out
profile	/app/data/saxs_computation/qf/9qf8/9qf8.dat

Structure of the GH13 and MucBP domains of Ruminococcus bromii Amy10

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

EM 3D

5. Entities & Polymer Info (1)

Entity 1 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)