SAXSdb — 9v46

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1. Structure Basics

entry_id	9v46
deposition_date	2025-05-22
title	Coupling of polymerase-nucleoprotein-RNA in an influenza virus mini ribonucleoprotein complex
keywords	Influenza virus, ribonucleoprotein complex, polymerase, cryo-EM, VIRAL PROTEIN/RNA, VIRAL PROTEIN-RNA complex; VIRAL PROTEIN/RNA
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	38.78 Å
rg_electron	38.41 Å
i0	646595000.00
molecular_weight	200230.0 kDa
excluded_volume	247760 Å³
envelope_volume	337730 Å³
shell_volume	71195 Å³
envelope_diameter	137.3 Å
shell_rg	45.86 Å
envelope_rg	38.11 Å
shape_rg	38.44 Å
total_rg	38.76 Å
total_atoms	14005
n_residues	1696
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	126.0 Å
rg_real	38.64 Å
rg_real_error	0.81 Å
i0_real	6.4660e+08
i0_real_error	1.0510e+07
rg_reciprocal	38.73 Å
i0_reciprocal	646700000.0000
total_estimate	0.8756
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	49.2 Å
skewness	0.299
kurtosis	-0.215
angular_range	— – 0.2050 Å⁻¹
current_alpha	0.0000
highest_alpha	158800000.0000
n_real_points	42
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.846; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.987; Smooth: 0.853

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	Polymerase acidic protein
formula_weight	82998.8 kDa
ec_number	3.1.-.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	14005

MEDFVRQCFNPMIVELAEKAMKEYGEDLKIETNKFAAICTHLEVCFMYSDFHFINEQGESIVVELDDPNALLKHRFEIIEGRDRTMAWTVVNSICNTTGAEKPKFLPDLYDYKENRFIEIGVTRREVHIYYLEKANKIKSENTHIHIFSFTGEEMATKADYTLDEESRARIKTRLFTIRQEMANRGLWDSFRQSERGEETIEERFEITGTMRRLADQSLPPNFSCLENFRAYVDGFEPNGCIEGKLSQMSKEVNAKIEPFLKTTPRPIKLPDGPPCFQRSKFLLMDALKLSIEDPSHEGEGIPLYDAIKCMRTFFGWKEPYIVKPHERGINSNYLLSWKQVLAELQDIENEEKIPRTKNMKKTSQLKWALGENMAPEKVDFDNCRDISDLKQYDSDEPELRSLSSWIQNEFNKACELTDSIWIELDEIGEDVAPIEYIASMRRNYFTAEVSHCRATEYIMKGVYINTALLNASCAAMDDFQLIPMISKCRTKEGRRKTNLYGFIIKGRSHLRNDTDVVNFVSMEFSLTDPRLEPHKWEKYCVLEIGDMLLRSAIGQMSRPMFLYVRTNGTSKIKMKWGMEMRRCLLQSLQQIESMIEAESSVKEKDMTKEFFENKSETWPIGESPKGVEEGSIGKVCRTLLAKSVFNSLYASPQLEGFSAESRKLLLVVQALRDNLEPGTFDLGGLYEAIEECLINDPWVLLNASWFNSFLTHALR

Source

organism	Influenza A virus (A/Victoria/3/1975(H3N2))
ncbi_taxonomy_id	392809
host_organism	Homo sapiens

Entity 2 polymer

description	RNA-directed RNA polymerase catalytic subunit
formula_weight	86578.2 kDa
ec_number	2.7.7.48
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B

MDVNPTLLFLKVPAQNAISTTFPYTGDPPYSHGTGTGYTMDTVNRTHQYSEKGKWTTNTETGAPQLNPIDGPLPEDNEPSGYAQTDCVLEAMAFLEESHPGIFENSCLETMEVVQQTRVDRLTQGRQTYDWTLNRNQPAATALANTIEVFRSNGLTANESGRLIDFLKDVIESMDKEEMEITTHFQRKRRVRDNMTKKMVTQRTIGKKKQRVNKRSYLIRALTLNTMTKDAERGKLKRRAIATPGMQIRGFVYFVETLARSICEKLEQSGLPVGGNEKKAKLANVVRKMMTNSQDTELSFTITGDNTKWNENQNPRMFLAMITYITKNQPEWFRNILSIAPIMFSNKMARLGKGYMFESKRMKLRTQIPAEMLASIDLKYFNESTRKKIEKIRPLLIDGTASLSPGMMMGMFNMLSTVLGVSILNLGQKKYTKTTYWWDGLQSSDDFALIVNAPNHEGIQAGVDRFYRTCKLVGINMSKKKSYINRTGTFEFTSFFYRYGFVANFSMELPSFGVSGINESADMSIGVTVIKNNMINNDLGPATAQMALQLFIKDYRYTYRCHRGDTQIQTRRSFELKKLWEQTRSKAGLLVSDGGPNLYNIRNLHIPEVCLKWELMDEDYQGRLCNPLNPFVSHKEIESVNNAVVMPAHGPAKSMEYDAVATTHSWIPKRNRSILNTSQRGILEDEQMYQKCCNLFEKFFPSSSYRRPVGISSMVEAMVSRARIDARIDFESGRIKKEEFSEIMKICSTIEELRRQK

Source

organism	Influenza A virus (A/Victoria/3/1975(H3N2))
ncbi_taxonomy_id	392809
host_organism	Homo sapiens

Entity 3 polymer

description	Polymerase basic protein 2
formula_weight	86243.4 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	C

MERIKELRNLMSQSRTREILTKTTVDHMAIIKKYTSGRQEKNPSLRMKWMMAMKYPITADKRITEMVPERNEQGQTLWSKMSDAGSDRVMVSPLAVTWWNRNGPVTSTVHYPKVYKTYFDKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKISPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGGEVRNDDIDQSLIIAARNIVRRASVSADPLASLLEMCHSTQIGGTRMVDILRQNPTEEQAVDICKAAMGLRISSSFSFGGFTFKRTSGSSIKREEEVLTGNLQTLKIRVHEGYEEFTMVGKRATAILRKATRRLVQLIVSGRDEQSIAEAIIVAMVFSQEDCMIKAVRGDLNFVNRANQRLNPMHQLLRHFQKDAKVLFQNWGIEHIDNVMGMVGVLPDMTPSTEMSMRGIRVSKMGVDEYSSTERVVVSIDRFLRVRDQRGNVLLSPEEVSETHGTERLTITYSSSMMWEINGPESVLVNTYQWIIRNWETVKIQWSQNPTMLYNKMEFEPFQSLVPKAIRGQYSGFVRTLFQQMRDVLGTFDTTQIIKLLPFAAAPPKQSRMQFSSLTVNVRGSGMRILVRGNSPVFNYNKTTKRLTILGKDAGTLIEDPDESTSGVESAVLRGFLILGKEDRRYGPALSINELSNLAKGEKANVLIGQGDVVLVMKRKRDSSILTDSQTATKRIRMAIN

Source

organism	Influenza A virus (A/Victoria/3/1975(H3N2))
ncbi_taxonomy_id	392809
host_organism	Homo sapiens

Entity 4 polymer

description	;RNA (5'-R(PCPAPCPCPCPUPGPCP*U)-3') ;
formula_weight	2767.7 kDa
src_method	man
entity_count	1

Polymer

type	polyribonucleotide
strand_id	E

CACCCUGCU

Source

organism	Influenza A virus (A/Victoria/3/1975(H3N2))
ncbi_taxonomy_id	392809
host_organism	Homo sapiens

Entity 5 polymer

description	;RNA (5'-R(PAPGPUPAPGPAPAPAPCPAPAPGPGPGPUPG)-3') ;
formula_weight	5248.2 kDa
src_method	man
entity_count	1

Polymer

type	polyribonucleotide
strand_id	F

AGUAGAAACAAGGGUG

Source

organism	Influenza A virus (A/Victoria/3/1975(H3N2))
ncbi_taxonomy_id	392809
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	3.62 Å
resolution_method	—
num_particles	112185

fit	/app/data/saxs_computation/v4/9v46/9v46.fit
pddf	/app/data/pr_computation/v4/9v46/9v46.pr.out
profile	/app/data/saxs_computation/v4/9v46/9v46.dat

Coupling of polymerase-nucleoprotein-RNA in an influenza virus mini ribonucleoprotein complex

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 (5)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 polymer

Polymer

Source

Entity 5 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)