SAXSdb — 9x2b

▼

1. Structure Basics

entry_id	9x2b
deposition_date	2025-10-04
title	Cryo-EM structure of PsoA in apo state (PsoA-PKS-II)
keywords	PKS-NRPS hybrid synthetase; part of the gene cluster that mediates the biosynthesis of pseurotin A, BIOSYNTHETIC PROTEIN; BIOSYNTHETIC PROTEIN
method	ELECTRON MICROSCOPY

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	68.94 Å
rg_electron	69.25 Å
i0	3805040000.00
molecular_weight	515230.0 kDa
excluded_volume	642850 Å³
envelope_volume	1023200 Å³
shell_volume	127210 Å³
envelope_diameter	223.8 Å
shell_rg	64.91 Å
envelope_rg	67.05 Å
shape_rg	69.23 Å
total_rg	69.25 Å
total_atoms	72161
n_residues	4733
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

▼

3. P(r) Analysis (GNOM)

dmax	206.7 Å
rg_real	68.90 Å
rg_real_error	1.67 Å
i0_real	3.8050e+09
i0_real_error	7.7840e+07
rg_reciprocal	68.91 Å
i0_reciprocal	3805000000.0000
total_estimate	0.8387
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	98.9 Å
skewness	0.238
kurtosis	-0.398
angular_range	— – 0.1150 Å⁻¹
current_alpha	0.0001
highest_alpha	207400000.0000
n_real_points	24
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.950; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.997; Smooth: 0.055

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (1)

Entity 1 polymer

description	PKS-NRPS hybrid synthetase psoA
formula_weight	436200.6 kDa
ec_number	2.3.1.-,6.3.2.-
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	72161

MVYTHSPKEPIAIIGTGCRFPGGSTSPSKLWDLLYSPRDLTREVPAESRFNPKGFYNVDGEHHGASNATNAYFIEEDPRYFDAGFFSIAPREAESIDPQQRLLLETVYEAMENAGLTLNGMRGSATSAYMGAMSADYTDTQLRDIENVSKYMITGTSRALLANRLSYFFDWKGPSISVDTACSSSLAAVHLGVQALRAGECTISCVGGSNIILNPDCYLAATSLHLLSPTGRSQMWDQAADGYARGEGVCVFFMKTLSQALRDGDRIDALLRETCVNSDGRTQGIALPSAEAQVSLMRTAYKNAGLDLSKAEDRPQYIEAHGTGTQAGDPREAYAIATTFFPPGEDHSHRPKLVVGSVKTIIGHTEGCAGIAGILKAVLAMRHKTIPPNQHFHNLNPSVKPSFKHLSIATSPQPWPVVPPDTPLRASVNGFGSGGTNCHAIVESYVPEIHDNGPWGKPKEMTQVPNGVAAPETDFSPIPLIFSASSGTALRAMLERYQEYLERTEVSLLRLAMTLNSHRSTLPVRVSIPGTSKADVLAAIRTQLAKVGSNPGAEIGTRSSVPEFDHVRRPKILGVFTGQGAQWAGMGQGLMAKSALFRQVIEVMEEAMAQLPDGPEWSLKEEIMKPPKTSRLGEAEISLPVCAALQVGLVKVLRSAGITFSMVVGHSGGEIGSAYAAGKISEVDAIKIAYYRGVYTKLAIGKDGKKGGMIAVGFGYEDGLNFCAMEQFADRLTVAASNSPKSVTLSGDLDAVHEAKELLDAEGVFNRVLRLDTAYHSPHMYPCAAPYLAAIERCGLVAGKSNGTAWASSVYDDNRMMTSAQDKDLEAAYWKDNLIGRVLFSQAVERALDEGNGDFDLALEIGPHPSLKGPTLETIRHKIGSEIPYSGVLDRKADDILALSTALGFSWLTLGSGVVDFAGYVSGFDPSNASILNAPALPDLPTYPWDHKKVLYRESRLNKNVRHRVDPPHPLLGSRTPDDTDYEPRWRNFLIMEELPWLRDHCVQGQIIVPAATYSVMALEAAKVLCRGKHVQSIELSDVAILRPIVLDEASDGTETLFSVRSDLDSNKKHEDEIHAQFTLSAGAMDDRHLRTAATGHIRITLAAEAPSSFPNGPRPTELDLLPTSVDRFYASMDEIGLSYSGPFRAMTSMKRRLNVASATVAVDRDLAGTIPVHPTWLDACFQTFLAAFAAPRDGSLWTAFMPTAIGRMVFSPSSTSQVPGRSVTVDAHITDFAPGYQVSLPTLTGDMSIFNSETNQLQIQIEDFVMSSFLPASEKDDRRFYLQNVWGQEMLSGALCAAAERCVAPTESESKIIDTCEKAVHYYLSKLKAAGLLDQWADKNPGLRSLMNEIEARVTSIPEQSDLVSMLGEVGEHIDLVLVRTIGESLLNSPSEGLGPITPSPMGALISRWHHEGLGFAQLQRHFVSAAKQISHQHANLRILQVGPSSPGLVRSVCQELGRSLERYTLVDDSEQTIEEMKSALAADQLRVDFTTASVENGIDAVNHLTSAGGFDLVIVHKAFTKQVTALKTVRNLLRPGGFMLMMAATGAQLRFPFMLMSTLPSLDDERLAQTKFINATRAETHDLLRQIGFSGVDSIALDNVPDKHTFSVVVSQALDDHIAFLRSPLTSPSPVPLSGNLLVVGGFSADIAKLATAIQSLVSTVWHGDIINVRTLAELDDEASTVEAVLSLTDLDRPVLEDVRAPTFRGLQRLFSEAKTVLWITHRAKADNPYHNATIGLGRSFQSENPQKVLQFLDVDTLDGVESAIAETFLKLIGGVNMRNSNPADPTRLWTIEPEVSLENGKYLVPRLFPDTERNDRLNALRRKVQTQVSVETQPISLSRSAQSDQVAYTAEAVHFHRDLADGATDPVTIQVELCSTEPVIPNIDNEDLFCFVGRTSEGARLVGLSTSNSSVVKVPREWTIPVDKHTSHDQGAFVLELRNEIQSLVIAKSIPPGSTTLIYEPDPHLAASLQRPGRPATSSVSFRARSTWSIPGSHILIDPHASRKDIQAKVPPKTRMLIHMEQGPETCEFLALRQALPPYATVVAFNDLAADDVNPRELLAEALSIIRGDSQSTKVPFDPSSVVKASALVAGGTREHANAAVVDWTGAQSITLSPRPVDTRNLFSPNKTYLLVGLTGHIGQSICRWMVQGGARHIVVTSRHPEKQGQLWREELLRQGVNIVIEAADVTKEHDLLDLRARIVSSMPPVGGIANGAMVLDDKLFIDMPFESFQAAMKPKVQGSIYLEEVFSADNLDFFLFFSSISVMTGQRTQANYVAANNFMVAMAERRRARGLPASVIDIGMVVGIGVIQRSQNDKGVSAMENSIRQMDYMPVSETDLHHLLAEAILVGQRDESPELITGLETYKPVEGEAPFWHHNVRFSHLITDPDAAQAGADSAGSAQKSLKEMLLSSGGPEEARKVMENALLQYLASSLKLSRETIYTDVPIIDLGIDSLVAVQIRNWTWAEAGYDLPVLKILGGSSVTQICDEVVASLSFDKSSIAAAKVDSQAAPAHKLRPWDKPSADTKRTDSIAPVPRSQIAANGPNGLPNGALKKASKLAVKVRPLWTTQAGGKDTKKGPRPAPIRIQPLSLGQSRLYFLSQYMDDDRVLNCTISYALSGKLDVSKLEQSLIQVVQRHEALRTSFYTDEKDGKPMQGLLEKSPFRLRVVPGVSASSDVETEFNLIRYRPYDLEQADTFAATLLSHSPDSHTLICGYHHIIMDGVSWQIFQKDLAMFYNNSGIADSAKHLPAQYSEFTRKQQEDLSCGAYAERLRFFQDQFREPVESLPLFPFAKVGTRKVVKQYAVQEATTHLNAKVVSAIKQASQTSRTTPFHFYLSAFQVLLHRLLETDKMCIGVVDANRSDQNFVNTIGFFLETIPLWFKVNSEQRFVELLKETRTKAYAALAQTGVPTEEILRACGVASSTTETPLFQVCFNYRMGAGRTAALQGVEMKFLDYVDAQNPFDLVATVDDLDDGTAMITLYLQDYLYDQEGAQLLATMYANVLQVLAENPERLVGSVSISNATLEDEGVKLGTGPILDLVAPSTPTLSKIFHTWVDKDPHALAVKDTTGKSKTYVQLAERANAIAASLLNAGAAPSIPIGVLLDPGVDTIATILAILRIGAAYVPLDTRSSDAVLSDILQESQPGIVIHHSATAPRSQILLKASAKTKLVTLNAVPQKTIRKIQDVSVPEGLAMILYTSGSTGSPKGIPLTNANIRTPILGVSERVPLGREVVLQQSGQGFDAAVYQIFIALANGGTLIMVDNRDDPAKVAALMAQESVTCTTHIVSEMQALLKYGYDELRNCSSWRIAMVAGEAFTVHLLDQFRALNRPDLKVINAYGPTEASICSSLGEVSFNRISSSETSIPIGKAIPNYGTYIVDQHCKPVPLGWPGEVAIAGPGVASGYLNLGELTQAKFRSAATLGEVFGSDCLYLTGDRGRMLSDGSIVLSGRVDGDDQVKIRGHRVQLGDVARALVQASRGVFADAAVILKGDDTSNPQLVAYVVFSRTSNIQDQQTYLRQLNQDLPVPAYMRPAITIPLDTLPVTDRGKLDSKKLASLPLPSISVDYEEDEQLTPTEARLRDVWKNVLGDIASSIPIRRSSDFFSVGGNSLILLALKAEIAQVFGVGLSVSELFQASTLELLAARLDGTSLLAQINWEEETAPDETQFTLPPPINGINGHGSSNGHAQGISVLLTGATGFLGGHILRQLVQLPSVEHVHCVAIRPNKVDVRRQLSVESPKIIRYSGDLALPNMGMSESEFSDLFKSIDVIVHNGAEVSHMKNYRSLRAANFLSTVGLARAAVSRGIPIHYISTGGVARLSVADEQPEASLAAFHPPIDGSDGYVASKWASEVFLEKVQRRFQGQVWIHRPSSITGDDVPDNDIAHSLLKFSRELGAVPELTGSGFFDFINVETVSNNIAASVVRSSEKSGGGLIYLHQSGEQVIPVGDLQKYVEELEGRPLQVLPLKEWVDLSIRKGLDEVLGSYMLASKGVIRAPLLQRGPHVE

Source

organism	Aspergillus fumigatus Af293
ncbi_taxonomy_id	330879
host_organism	Saccharomyces cerevisiae

▶

6. Citations (1)

▶

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	3.390 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.39 Å
resolution_method	—
num_particles	30549

fit	/app/data/saxs_computation/x2/9x2b/9x2b.fit
pddf	/app/data/pr_computation/x2/9x2b/9x2b.pr.out
profile	/app/data/saxs_computation/x2/9x2b/9x2b.dat

Cryo-EM structure of PsoA in apo state (PsoA-PKS-II)

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 (1)

Entity 1 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)