SAXSdb — 9aym

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1. Protein Identity and Related Structures Protein Identity & Related Structures

RNA cytidine acetyltransferase

Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719)

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 2	;[[(2~{R},3~{R},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(3~{S})-4-[[3-[2-[3-[1-[(2~{R},3~{R},4~{R},5~{S})-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]-2-oxidanylidene-pyrimidin-4-yl]sulfanyl-2-oxidanylidene-propyl]sulfanylethylamino]-3-oxidanylidene-propyl]amino]-2,2-dimethyl-3-oxidanyl-4-oxidanylidene-butyl] hydrogen phosphate ; × 2	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	G0S273_CHATD
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 14–1086； UniProt 1–1073 Author chain B； PDBConstruct 14–1086； UniProt 1–1073

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	9aym
Deposition date deposition_date	2024-03-08
Last revision last_revision	2024-09-11
Structure title title	Cryo-EM Structure of E.coli produced recombinant N-acetyltransferase 10 (NAT10) in complex with cytidine-acetone-CoA bisubstrate probe
Keywords keywords	RNA binding protein, ac4C modification, RNA acetyltransferase; RNA BINDING PROTEIN
Experimental Method method	ELECTRON MICROSCOPY

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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

9aym__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

9aym__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

9aym__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	41.91 Å
Rg (electron density)	41.60 Å
Total Rg	41.93 Å
Atom count	13044
Residues	1624
Excluded volume	232560 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`9aym__assembly_1__model_1`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download

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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Description description	RNA cytidine acetyltransferase
Molecular weight formula_weight	121475.9 kDa
EC 编号 ec_number	2.3.1.-
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B
Atom count atom_count	13044

HHHHHHENLYFQGMTVQKTVDSRIPTLIRNGLQTKKRSFFVVVGDHAKEAIVHLYYIMSSMDVRQNKSVLWAYKKELLGFTSHRKKREAKIKKEIKRGIREPNQADPFELFISLNDIRYCYYKETDKILGNTYGMCILQDFEAITPNILARTIETVEGGGLVVLLLKGMTSLKQLYTMTMDVHARYRTEAHDDVIARFNERFLLSLGSCESCLVIDDELNVLPISGGKGVKPLPPPDEDEELSPAAKELKKIKDELEDTQPIGSLIKLARTVDQAKALLTFVDAIAEKTLRNTVTLTAARGRGKSAAMGVAIAAAVAYGYSNIFITSPSPENLKTLFEFVFKGFDALDYKDHADYTIIQSTNPEFNKAIVRVNIHRNHRQTIQYIRPQDAHVLGQAELVVIDEAAAIPLPLVKKLMGPYLVFMASTISGYEGTGRSLSLKLIKQLREQSRAGANPNGGNAVEVDRSTLKATKETTSVGGRSLKEITLSEPIRYAQGDNVEKWLNTLLCLDATLPRSKISTTGCPDPSQCELLHVNRDTLFSFHPVSEKFLQQMVALYVASHYKNSPNDLQLMSDAPAHELFVLTGPIQEGRLPEPLCVIQVSLEGKISKQSILKSLSRGQQPAGDLIPWLVSQQFQDDEFASLSGARIVRIATNPDYMSMGYGSKALQLLVDYYEGKFADLSEDAAAEVPRSIPRVTDAELSKGSLFDDIKVRDMHELPPLFSKLSERRPEKLDYVGVSYGLTQQLHKFWKRAQFVPVYLRQTANDLTGEHTCVMIRPLQDGNDPSWLGAFAADFHKRFLSLLSYKFREFPSILALTIEESANAGAMLDPSNAPTELTKAELDQLFTPFDHKRLESYANGLLDYHVVLDLMPTIAQLYFTGRLREAVKLSGLQQAILLALGLQRKDIDTLATELNLPGSQVLAIFMKIMRKVTQHFGALVSGAIAAELPDPNKTVGVSKENAMGIHDDEVVGLKFEALEQRLEDELDEGGDEALRELRKKQRELIDSLPLDQYEIDGDDDAWKEAEKRVASAAKSGKKVDGTLVSVPSAKAAKRKAEEMAALRDELEKMEKGKERGSKKAKKEKRR

Source Source

Source organism organism	Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719)
NCBI taxonomy ID ncbi_taxonomy_id	759272
Host organism host_organism	Escherichia coli BL21(DE3)

Entity 2 Entity 2 non-polymer

Description description	;[[(2~{R},3~{R},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(3~{S})-4-[[3-[2-[3-[1-[(2~{R},3~{R},4~{R},5~{S})-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]-2-oxidanylidene-pyrimidin-4-yl]sulfanyl-2-oxidanylidene-propyl]sulfanylethylamino]-3-oxidanylidene-propyl]amino]-2,2-dimethyl-3-oxidanyl-4-oxidanylidene-butyl] hydrogen phosphate ;
Molecular weight formula_weight	1081.8 kDa
Source method src_method	syn
Copy count entity_count	2

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Unit-cell length a length_a	1.000 Å
Unit-cell length b length_b	1.000 Å
Unit-cell length c length_c	1.000 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	—

Space group space_group	P 1
Space-group number int_tables_number	1
Crystal system crystal_system	—

Resolution resolution	3.29 Å
Resolution测定Method resolution_method	—
颗粒数 num_particles	160385

Cryo-EM Structure of E.coli produced recombinant N-acetyltransferase 10 (NAT10) in complex with cytidine-acetone-CoA bisubstrate probe

1. Protein Identity and Related Structures Protein Identity & Related Structures

RNA cytidine acetyltransferase

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9aym__assembly_1__model_1

9aym__assembly_1__model_1 | I(q)

9aym__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

7. Citations (1)

Cryo-EM Structure of E.coli produced recombinant N-acetyltransferase 10 (NAT10) in complex with cytidine-acetone-CoA bisubstrate probe

1. Protein Identity and Related Structures Protein Identity & Related Structures

RNA cytidine acetyltransferase

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9aym__assembly_1__model_1

9aym__assembly_1__model_1 | I(q)

9aym__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

7. Citations (1)