SAXSdb — 9qb2

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1. Structure Basics

entry_id	9qb2
deposition_date	2025-02-28
title	H/ACA RNP protomer of human telomerase dimer
keywords	telomerase, H/ACA, RNA-binding protein, RNA BINDING PROTEIN; RNA BINDING PROTEIN
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	49.23 Å
rg_electron	48.06 Å
i0	1350330000.00
molecular_weight	257480.0 kDa
excluded_volume	302440 Å³
envelope_volume	461570 Å³
shell_volume	80518 Å³
envelope_diameter	183.2 Å
shell_rg	51.60 Å
envelope_rg	47.84 Å
shape_rg	48.03 Å
total_rg	48.26 Å
total_atoms	17807
n_residues	1881
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	172.8 Å
rg_real	49.36 Å
rg_real_error	1.91 Å
i0_real	1.3500e+09
i0_real_error	2.7690e+07
rg_reciprocal	49.24 Å
i0_reciprocal	1350000000.0000
total_estimate	0.8594
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	54.0 Å
skewness	0.430
kurtosis	-0.033
angular_range	— – 0.1600 Å⁻¹
current_alpha	0.0000
highest_alpha	74770000.0000
n_real_points	33
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.796; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.993; Smooth: 0.788

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4. Crystallography & Experiment

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5. Entities & Polymer Info (6)

Entity 1 polymer

description	H/ACA ribonucleoprotein complex subunit DKC1
formula_weight	57779.2 kDa
ec_number	5.4.99.-
src_method	nat
entity_count	2

Polymer

type	polypeptide(L)
strand_id	C,G
atom_count	17807

MADAEVIILPKKHKKKKERKSLPEEDVAEIQHAEEFLIKPESKVAKLDTSQWPLLLKNFDKLNVRTTHYTPLACGSNPLKREIGDYIRTGFINLDKPSNPSSHEVVAWIRRILRVEKTGHSGTLDPKVTGCLIVCIERATRLVKSQQSAGKEYVGIVRLHNAIEGGTQLSRALETLTGALFQRPPLIAAVKRQLRVRTIYESKMIEYDPERRLGIFWVSCEAGTYIRTLCVHLGLLLGVGGQMQELRRVRSGVMSEKDHMVTMHDVLDAQWLYDNHKDESYLRRVVYPLEKLLTSHKRLVMKDSAVNAICYGAKIMLPGVLRYEDGIEVNQEIVVITTKGEAICMAIALMTTAVISTCDHGIVAKIKRVIMERDTYPRKWGLGPKASQKKLMIKQGLLDKHGKPTDSTPATWKQEYVDYSESAKKEVVAEVVKAPQVVAEAAKTAKRKRESESESDETPPAAPQLIKKEKKKSKKDKKAKAGLESGAEPGDGDSDTTKKKKKKKKAKEVELVSE

Entity 2 polymer

description	H/ACA ribonucleoprotein complex subunit 1
formula_weight	22388.0 kDa
src_method	nat
entity_count	2

Polymer

type	polypeptide(L)
strand_id	D,H

MSFRGGGRGGFNRGGGGGGFNRGGSSNHFRGGGGGGGGGNFRGGGRGGFGRGGGRGGFNKGQDQGPPERVVLLGEFLHPCEDDIVCKCTTDENKVPYFNAPVYLENKEQIGKVDEIFGQLRDFYFSVKLSENMKASSFKKLQKFYIDPYKLLPLQRFLPRPPGEKGPPRGGGRGGRGGGRGGGGRGGGRGGGFRGGRGGGGGGFRGGRGGGFRGRGH

Entity 3 polymer

description	H/ACA ribonucleoprotein complex subunit 2
formula_weight	17226.1 kDa
src_method	nat
entity_count	2

Polymer

type	polypeptide(L)
strand_id	E,I

MTKIKADPDGPEAQAEACSGERTYQELLVNQNPIAQPLASRRLTRKLYKCIKKAVKQKQIRRGVKEVQKFVNKGEKGIMVLAGDTLPIEVYCHLPVMCEDRNLPYVYIPSKTDLGAAAGSKRPTCVIMVKPHEEYQEAYDECLEEVQSLPLPL

Entity 4 polymer

description	H/ACA ribonucleoprotein complex subunit 3
formula_weight	7720.0 kDa
src_method	nat
entity_count	2

Polymer

type	polypeptide(L)
strand_id	F,J

MFLQYYLNEQGDRVYTLKKFDPMGQQTCSAHPARFSPDDKYSRHRITIKKRFKVLMTQQPRPVL

Entity 5 polymer

description	Telomerase Cajal body protein 1
formula_weight	59357.1 kDa
src_method	nat
entity_count	1

Polymer

type	polypeptide(L)
strand_id	K

MKTLETQPLAPDCCPSDQDPAPAHPSPHASPMNKNADSELMPPPPERGDPPRLSPDPVAGSAVSQELREGDPVSLSTPLETEFGSPSELSPRIEEQELSENTSLPAEEANGSLSEEEANGPELGSGKAMEDTSGEPAAEDEGDTAWNYSFSQLPRFLSGSWSEFSTQPENFLKGCKWAPDGSCILTNSADNILRIYNLPPELYHEGEQVEYAEMVPVLRMVEGDTIYDYCWYSLMSSAQPDTSYVASSSRENPIHIWDAFTGELRASFRAYNHLDELTAAHSLCFSPDGSQLFCGFNRTVRVFSTARPGRDCEVRATFAKKQGQSGIISCIAFSPAQPLYACGSYGRSLGLYAWDDGSPLALLGGHQGGITHLCFHPDGNRFFSGARKDAELLCWDLRQSGYPLWSLGREVTTNQRIYFDLDPTGQFLVSGSTSGAVSVWDTDGPGNDGKPEPVLSFLPQKDCTNGVSLHPSLPLLATASGQRVFPEPTESGDEGEELGLPLLSTRHVHLECRLQLWWCGGAPDSSIPDDHQGEKGQGGTEGGVGELI

Entity 6 polymer

description	hTR, Human telomerase RNA
formula_weight	145477.8 kDa
src_method	man
entity_count	2

Polymer

type	polyribonucleotide
strand_id	b,B

GGGUUGCGGAGGGUGGGCCUGGGAGGGGUGGUGGCCAUUUUUUGUCUAACCCUAACUGAGAAGGGCGUAGGCGCCGUGCUUUUGCUCCCCGCGCGCUGUUUUUCUCGCUGACUUUCAGCGGGCGGAAAAGCCUCGGCCUGCCGCCUUCCACCGUUCAUUCUAGAGCAAACAAAAAAUGUCAGCUGCUGGCCCGUUCGCCCCUCCCGGGGACCUGCGGCGGGUCGCCUGCCCAGCCCCCGAACCCCGCCUGGAGGCCGCGGUCGGCCCGGGGCUUCUCCGGAGGCACCCACUGCCACCGCGAAGAGUUGGGCUCUGUCAGCCGCGGGUCUCUCGGGGGCGAGGGCGAGGUUCAGGCCUUUCAGGCCGCAGGAAGAGGAACGGAGCGAGUCCCCGCGCGCGGCGCGAUUCCCUGAGCUGUGGGACGUGCACCCAGGACUCGGCUCACACAUGC

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

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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	—

resolution	3.000 Å
resolution_low	165.200 Å
r_factor	0.2838
r_work	0.2838
r_free	—

resolution	3.00 Å
resolution_method	—
num_particles	260466

fit	/app/data/saxs_computation/qb/9qb2/9qb2.fit
pddf	/app/data/pr_computation/qb/9qb2/9qb2.pr.out
profile	/app/data/saxs_computation/qb/9qb2/9qb2.dat

H/ACA RNP protomer of human telomerase dimer

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

EM 3D

5. Entities & Polymer Info (6)

Entity 1 polymer

Polymer

Entity 2 polymer

Polymer

Entity 3 polymer

Polymer

Entity 4 polymer

Polymer

Entity 5 polymer

Polymer

Entity 6 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)