SAXSdb — 9xqs

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1. Structure Basics

entry_id	9xqs
deposition_date	2025-11-18
title	Structure of the inner peripheral region in the phage phiKZ baseplate complex
keywords	baseplate, inner peripheral, VIRAL PROTEIN; VIRAL 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	93.93 Å
rg_electron	93.88 Å
i0	22780500000.00
molecular_weight	1300600.0 kDa
excluded_volume	1631800 Å³
envelope_volume	3227900 Å³
shell_volume	283490 Å³
envelope_diameter	335.3 Å
shell_rg	93.43 Å
envelope_rg	90.33 Å
shape_rg	93.87 Å
total_rg	93.90 Å
total_atoms	91692
n_residues	11498
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	244.3 Å
rg_real	89.99 Å
rg_real_error	0.63 Å
i0_real	2.1810e+10
i0_real_error	3.4310e+08
rg_reciprocal	93.38 Å
i0_reciprocal	22740000000.0000
total_estimate	0.9172
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	1
r_peak_primary	100.6 Å
skewness	0.188
kurtosis	-0.656
angular_range	— – 0.0850 Å⁻¹
current_alpha	0.5700
highest_alpha	4262000000.0000
n_real_points	18
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 1.000; Stabil: 0.980; Sysdev: 1.000; Positv: 1.000; Valcen: 0.991; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (8)

Entity 1 polymer

description	PHIKZ087
formula_weight	110486.0 kDa
src_method	nat
entity_count	4

Polymer

type	polypeptide(L)
strand_id	A,B,U,V
atom_count	91692

MASEFKNQLLNLRRNPVLMQSLMLSELDKQLNGETGERYDIPDSANPFVSLMEMGVIGVSAAFTEMEALSRRLYPRLAITSDELYLHMSDEDYIGRFAIPAQNYFNFILDYDEVIKYAVPYGDQGQRKLVIPRLTKFTGAGISYTMQYPLELRVMRHGGVVAEYNTDSLSPIETLSTNIAQMTMINDGRGHRLMNLIIPVKQFDITRYQETLNPSNLFEKEYVFSDQFYYARAYIKRTVDAQEWEEVITTHTDQVYDPLNLTVVLKVINNRLQVSIPAIYNTTGLATGVIRIDIYSTRGKIEIDYGSYQPDQFTYSLNDIDDDPKYTEPLKKLARISALSTYYVSGGSNSMDFDTLRNQVIDNTTGPQQLPITNVQLSADLARRGYTLVTNIDNITKKQYLASRRLGAPRTLDIISGAGVAMSQLQVSMNELVKSKHVKDNGDRITILPSMLYRFSNGRVSVVPDAQLDSILSSSAESIARQINDSRTVYCPFHGVLDATEDNFDYRPYYLDNPVINEKTFVGENDTAQLQASIDVFEIDRVTEGYRIKIRLDEGEQFKKLADEQIAVQIGYQPKGETKYASINGKFLGIEEEKRVYEFIIETNYDIDSSGAIYTTNMSMYDQFQKVFSTPLNTDFDVSIIVVNTITPGYIPNELDSLVQRHLLPSEFMVINRERLITTLGYDMTKIWHRNRTVFSQESYQTWPADVPAYYQKDVFETDSTGHIVITIGPDGKPVYKVKHKKGDPVLDANGKPVMQYRKGDTKLDANGKPILLEPRKILREMMVLMVDGLFYFATEQEAVAYRKEIPMEFVKWIQNDIDYIDQRLLETCELYLYPTTTFGDTIVSVREGQKSTVQVDQNFFTMLYLKPSAFANSTIRPSLIKTVKTIVNDMLGRKTIALSEIIAALEAAIGEDVLQIDAGGLGGSNNYSIITVDDDAVRLTLRKKLTVMANQELTIEDDMSITFLRHEQIQ

Entity 2 polymer

description	PHIKZ128
formula_weight	84297.8 kDa
src_method	nat
entity_count	2

Polymer

type	polypeptide(L)
strand_id	C,D

MNNSNSVYFKVYLDDVIRLARSIVIKFDDIADQINTELYRDYLFKADPDKPWTWKYYLNLAGEYHETDTMMYVTSADTLERIEFTKENLRLHRATAREFTPGSQSYNNLVLKYPTQAGLINGILYPIDINFAIDSDNGDILYFDNKYVEGNEDNFIPELQSWIKAFYNSNYNSQYLITDDLYLTAFLGELTVLLPLEIMNIRLGNARSRRVHSFHIREYLASANRLDEFMPYLNKSQQLWLYRNIQFLRRNSGKQAIFDQLVEKILTERGIPVISYTLEQNTANMPPNLKPDVEMVKHDMNIPVVQPGQDKNTVLEILTREDPIARDNPLVKYDAEKEITEQVSTSAFSNLPTRVLDSEVIDRSNSSVRNLMNVLLNNWLHLSTSGRYRAYVSIPNPRTGEYMLMTVKDAFIVMLYSYGRTKDFKFDKIPSVPAYEVLRNPFPTYEELQVQVDKKLVGPNLLGAVRDNFTPMGDYISTELFYTDSSRFHKEYLKGWELYSFNDHKDIRCYLEQSVKTFYINRMCKLVNEDISFEQYFKDSAFAIADLTTSEYEQLVVDCINIATGSDLNRVITLGEIQRELLRLVSKLSSYPLQFLRNVSFTDFHVLGIVMPRLGDYGAAGNANHIVPINNINVLTYRTSAEMTYYINDVDIIPFNDWSYWAEDRWWINPFVGIKELSLSEYTYQIPSMVNVWQYTEEVSEHTPPDGGLGQYNNSTDPNWPNLP

Entity 3 polymer

description	PHIKZ161
formula_weight	22584.5 kDa
src_method	nat
entity_count	4

Polymer

type	polypeptide(L)
strand_id	E,F,G,H

MIPPIGTKGRYELISPFDKLIKPNTLYVNSAVRAFIDIENNGRNVYDTYYKPLNIDISEYNKDRENGEYIVTLTTEQYNPVYVPSSYIARYPDLNGVPYQQTVLSASLGALPVTLDLTNLQAKVAGVISDVIGVEPVINLGSMPLMSDVTPQQHEAAENAREAKIKDRETDYARIVKLEADNTSLSQRLAIAENLLIENGIIS

Entity 4 polymer

description	PHIKZ088
formula_weight	40503.5 kDa
src_method	nat
entity_count	2

Polymer

type	polypeptide(L)
strand_id	I,J

MAASEFLDQIIQNIGQSPRDKAISDSIRGLNIIGRNSTIAPNTENHGFTFFTRPILNLSYDNCKIDRKLTMLLNDNPYSLSRSIRAILDPWSNRDGMNAVDVDPLNPFIPLLSNNLVSLTGWEDFQLNLATTNPGIYRDAMSYVDDVPYQFNTFDLQASFRNMEGDPITNLLYMWERYSALVKEGRLWPYPEMILLKEVDYNTRVWRIVTDVTRTYITRIFCSGASIFMNANTGRTGDFIGDGSETPFQNANDLLSVSIRCMGMDVYDYILFYEFNDLVEDFNPNMSDERRYTQMQKIKIYEREYFSRSKVYPYINTDNSELEWWISKEDYNAMLPGLLRNPPPPQKEG

Entity 5 polymer

description	PHIKZ182
formula_weight	73539.5 kDa
src_method	nat
entity_count	2

Polymer

type	polypeptide(L)
strand_id	K,L

MATDSKPIWLRQAFLLPTPDERQVGFGSRSKRRNAASAAFKFTNTSPGGNWAINPLPQYTRYADIRLPGIGRTYDERHLGMGRYYSEAHDDTAQLIHMSFGVPRFSSWASFFTNFYDRSAAQFANSGTTSRAWYELGNAAGYLVSLPLQPFIIGVTAANRVINFLAKTQPSKWYYFKPTMHAYWSAVNTLANEFAINLGIRPRVFDGIQKDLEIPGQTVTPADLANFHRMFPGLIREDGSFDIMSLSGRTQRKSDEAKKIWDTLVEKARNQDDLHNVVDNYLRSSFKDNGDSKVSARDYLLSYIEVDRKPGAGVIDSENFSSWSKLKNVYDFVVGAQRDGSQFVTFRVEHNGEVSESFTNTTTDIGVAQTLNSKVQEGRAAQFNFMQGNVTEMMGNVTRGVMDFIGGALDSVNMAGLATLAGSAFVDVPEHWENSVASLPTASYTIPLVCPYGNVMSRFLDIFIPLAMILPMGLPRSAGRSAYTSPFICQIFHQGRVQRQLGIVDSITIRRGTGNIGWNAENHMLNCEVQINVKDLSKIMHIPLKAGFADGSIIDTAFKAAGATIGEAVAEGIGADGDRGIGVGLALTDGSVWDEQSLFQDYTATLTSQSWSDFYYVGKRMNLNITRATQSFKNWRSPSNFLSWVLDGEPARALSAFANTTGRF

Entity 6 polymer

description	PHIKZ049
formula_weight	15212.2 kDa
src_method	nat
entity_count	8

Polymer

type	polypeptide(L)
strand_id	M,N,O,P,Q,R,S,T

MAVNIRDIQAGDRISFEVYPYAILGTNFKNVTVEGIVTASVASAMGFDVAAAGQQVYPSLPAGSAPVDPTQYNYIRVRMANNESVMFIGIPWIVANTLERVDGKRLTLVWDDVDNKMYDRILLAVRQNNAPPTSVTYE

Entity 7 polymer

description	PHIKZ029
formula_weight	77712.3 kDa
src_method	nat
entity_count	4

Polymer

type	polypeptide(L)
strand_id	W,X,Y,Z

MAYYNAVPRVVFNGIRDRSRRPLIRPDITFAQHCPLLRLFTETGPTETTYVGDSDDGFASIYGQASLDPRSKFFNTQSLLALNLLGRGNGFYVKRLRPEDAANPSRLIVAIEIVEDEIPLTIRRLSGFNYPNSVRDIGNAPVPTTDKVDGLKARIILIEDNTSEVGTQRVLPGTLVSDKDGSQSLVYPLFEAPVSFFGKLGDSNGMRVWSTTTADIEEFDEAAMAKFKTRQFRIQLIEKPEVGTSPVIVKTADQQDYLNITFDKGVYSDMYNADLYVGDVLVDSYSDDGVVSGLSPLYSPFSQFYVYHENIDLVRQMIYDTEMRVNPAAAAHTTAPGEIDFLTFLAVDGDPYQGIQVLGPLDGGITLGKDGNIYASGGTDGTTDLEEYAKLVDIENINFGKLNDRYNNIAEYQFGVLYDTGLPMESKYRAMRVLSARRDLQYFFTTFVETDSRLPDEATELSRVQQIITRLKAFPESTLYGTGVCRAMIVMQSGKLMDGTYRKYVPQLLDVAMSWARYAGAGTGNLVPGMEMDVSPNNRVTFVKDLNVKFFDDRVRAQAWANGATWSQSYDHRSSYYPCLRSVMLDDTSVLLSPITVNICCVLIRLIHKVHAQFSGNATLTPEQLVERCDEYILDLVRDMFGTRVNIIPRTEITPIDANNGTSWTCNVTVEANNPRTTLNFNLETVRIETPPAQQ

Entity 8 polymer

description	PHIKZ062
formula_weight	15352.4 kDa
src_method	nat
entity_count	2

Polymer

type	polypeptide(L)
strand_id	a,b

MPKTIPTVSVSGWIDTPEQVADKTISYFILSNPSQDIINRERSTSLPYLLKVYANDYPQLEIELRRILSDKFNIVFGNELIDSNVIVKDESNTGDGKMSITFTATILVQGKPVQIGKLVRYQYSNILEIARLNNGE

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6. Citations (1)

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resolution	3.650 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.65 Å
resolution_method	—
num_particles	22539

fit	/app/data/saxs_computation/xq/9xqs/9xqs.fit
pddf	/app/data/pr_computation/xq/9xqs/9xqs.pr.out
profile	/app/data/saxs_computation/xq/9xqs/9xqs.dat

Structure of the inner peripheral region in the phage phiKZ baseplate complex

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Refinement

EM 3D

5. Entities & Polymer Info (8)

Entity 1 polymer

Polymer

Entity 2 polymer

Polymer

Entity 3 polymer

Polymer

Entity 4 polymer

Polymer

Entity 5 polymer

Polymer

Entity 6 polymer

Polymer

Entity 7 polymer

Polymer

Entity 8 polymer

Polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)