SAXSdb — 12fh

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1. Structure Basics

entry_id	12fh
deposition_date	2026-04-01
last_revision	2026-06-03
title	Structure of eIF2B bound to a activator
keywords	guanine nucleotide exchange factor, translation initiation, protein complex, SUGAR BINDING PROTEIN; SUGAR BINDING PROTEIN
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	36.64 Å
rg_electron	36.10 Å
i0	675686000.00
molecular_weight	139390.0 kDa
excluded_volume	133870 Å³
envelope_volume	241990 Å³
shell_volume	54841 Å³
envelope_diameter	127.5 Å
shell_rg	42.95 Å
envelope_rg	36.51 Å
shape_rg	36.11 Å
total_rg	36.40 Å
total_atoms	10538
n_residues	1342
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	118.8 Å
rg_real	36.60 Å
rg_real_error	0.99 Å
i0_real	6.7570e+08
i0_real_error	1.1070e+07
rg_reciprocal	36.63 Å
i0_reciprocal	675700000.0000
total_estimate	0.8841
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	44.2 Å
skewness	0.332
kurtosis	-0.261
angular_range	— – 0.2150 Å⁻¹
current_alpha	0.0000
highest_alpha	61220000.0000
n_real_points	44
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.897; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.799

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4. Crystallography & Experiment

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5. Entities & Polymer Info (6)

Entity 1 polymer

description	Isoform 2 of Translation initiation factor eIF2B subunit delta
formula_weight	59649.2 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	10540

PTQQPAAPSTRAPKPSRSLSGSLCALFSDADSGSGMKAELPPGPGAVGREMTKEEKLQLRKEKKQQKKKRKEEKGAEPETGSAVSAAQCQGPTRELPESGIQLGTPREKVPAGRSKAELRAERRAKQEAERALKQARKGEQGGPPPKASPSTAGETPSGVKRLPEYPQVDDLLLRRLVKKPERQQVPTRKDYGSKVSLFSHLPQYSRQNSLTQFMSIPSSVIHPAMVRLGLQYSQGLVSGSNARCIALLRALQQVIQDYTTPPNEELSRDLVNKLKPYMSFLTQCRPLSASMHNAIKFLNKEITSVGSSKREEEAKSELRAAIDRYVQEKIVLAAQAISRFAYQKISNGDVILVYGCSSLVSRILQEAWTEGRRFRVVVVDSRPWLEGRHTLRSLVHAGVPASYLLIPAASYVLPEVSKVLLGAHALLANGSVMSRVGTAQLALVARAHNVPVLVCCETYKFCERVQTDAFVSNELDDPDDLQCKRGEHVALANWQNHASLRLLNLVYDVTPPELVDLVITELGMIPCSSVPVVLRVKSSDQ

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 2 polymer

description	Translation initiation factor eIF2B subunit beta
formula_weight	40998.4 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	C,D

DYKDDDDKENLYFQSMPGSAAKGSELSERIESFVETLKRGGGPRSSEEMARETLGLLRQIITDHRWSNAGELMELIRREGRRMTAAQPSETTVGNMVRRVLKIIREEYGRLHGRSDESDQQESLHKLLTSGGLNEDFSFHYAQLQSNIIEAINELLVELEGTMENIAAQALEHIHSNEVIMTIGFSRTVEAFLKEAARKRKFHVIVAECAPFCQGHEMAVNLSKAGIETTVMTDAAIFAVMSRVNKVIIGTKTILANGALRAVTGTHTLALAAKHHSTPLIVCAPMFKLSPQFPNEEDSFHKFVAPEEVLPFTEGDILEKVSVHCPVFDYVPPELITLFISNIGGNAPSYIYRLMSELYHPDDHVL

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 3 polymer

description	unidentified protein fragment
formula_weight	1379.7 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	F

XXXXXXXXXXXXXXXX

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 4 non-polymer

description	SULFATE ION
formula_weight	96.1 kDa
src_method	man
entity_count	2

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 5 non-polymer

description	N,N'-[(1S,2S,4R)-2-hydroxybicyclo[2.2.2]octane-1,4-diyl]bis[2-(4-chloro-3-fluorophenoxy)acetamide]
formula_weight	529.4 kDa
src_method	syn
entity_count	1

Entity 6 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	2

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6. Citations (1)

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length_a	131.470 Å
length_b	230.810 Å
length_c	89.480 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 21 21 2
int_tables_number	18
crystal_system	—

resolution	3.500 Å
resolution_low	49.980 Å
r_factor	0.2177
r_work	0.2151
r_free	0.2706

fit	/app/data/saxs_computation/2f/12fh/12fh.fit
pddf	/app/data/pr_computation/2f/12fh/12fh.pr.out
profile	/app/data/saxs_computation/2f/12fh/12fh.dat

Structure of eIF2B bound to a activator

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

5. Entities & Polymer Info (6)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 non-polymer

Source

Entity 5 non-polymer

Entity 6 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)