SAXSdb — 2yjn

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

GLYCOSYLTRANSFERASE

SACCHAROPOLYSPORA ERYTHRAEA

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 4	DTDP-4-KETO-6-DEOXY-HEXOSE 3,4-ISOMERASE × 2 （O54225）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	O54224_SACER
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 21–441； UniProt 1–421

DTDP-4-KETO-6-DEOXY-HEXOSE 3,4-ISOMERASE

SACCHAROPOLYSPORA ERYTHRAEA

UniProt O54225

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 4	GLYCOSYLTRANSFERASE × 2 （O54224）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	O54225_SACER
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain B； PDBConstruct 21–381； UniProt 1–361

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	2yjn
Deposition date deposition_date	2011-05-20
Structure title title	Structure of the glycosyltransferase EryCIII from the erythromycin biosynthetic pathway, in complex with its activating partner, EryCII
Keywords keywords	TRANSFERASE, CYTOCHROME P450; TRANSFERASE
Experimental Method method	X-RAY DIFFRACTION

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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.

2yjn__assembly_1__model_1

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

Download this curve (.dat)

2yjn__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

2yjn__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	46.27 Å
Rg (electron density)	46.40 Å
Total Rg	46.12 Å
Atom count	10838
Residues	1490
Excluded volume	190310 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`2yjn__assembly_1__model_1`	tetrameric （4）	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	GLYCOSYLTRANSFERASE
Molecular weight formula_weight	48147.4 kDa
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A
Atom count atom_count	5444

MGSSHHHHHHSSGLVPRGSHMRVVFSSMASKSHLFGLVPLAWAFRAAGHEVRVVASPALTEDITAAGLTAVPVGTDVDLVDFMTHAGHDIIDYVRSLDFSERDPATLTWEHLLGMQTVLTPTFYALMSPDTLIEGMVSFCRKWRPDLVIWEPLTFAAPIAAAVTGTPHARLLWGPDITTRARQNFLGLLPDQPEEHREDPLAEWLTWTLEKYGGPAFDEEVVVGQWTIDPAPAAIRLDTGLKTVGMRYVDYNGPSVVPEWLHDEPERRRVCLTLGISSRENSIGQVSIEELLGAVGDVDAEIIATFDAQQLEGVANIPDNVRTVGFVPMHALLPTCAATVHHGGPGSWHTAAIHGVPQVILPDGWDTGVRAQRTQEFGAGIALPVPELTPDQLRESVKRVLDDPAHRAGAARMRDDMLAEPSPAEVVGICEELAAGRREPR

Source Source

Source organism organism	SACCHAROPOLYSPORA ERYTHRAEA
NCBI taxonomy ID ncbi_taxonomy_id	405948
Host organism host_organism	ESCHERICHIA COLI

Entity 2 Entity 2 polymer

Description description	DTDP-4-KETO-6-DEOXY-HEXOSE 3,4-ISOMERASE
Molecular weight formula_weight	40726.8 kDa
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	B

MGSSHHHHHHSSGLVPRGSHMTTTDRAGLGRQLQMIRGLHWGYGSNGDPYPMLLCGHDDDPQRRYRSMRESGVRRSRTETWVVADHATARQVLDDPAFTRATGRTPEWMRAAGAPPAEWAQPFRDVHAASWEGEVPDVGELAESFAGLLPGAGARLDLVGDFAWQVPVQGMTAVLGAAGVLRGAAWDARVSLDAQLSPQQLAVTEAAVAALPADPALRALFAGAEMTANTVVDAVLAVSAEPGLAERIADDPAAAQRTVAEVLRLHPALHLERRTATAEVRLGEHVIGEGEEVVVVVAAANRDPEVFAEPDRLDVDRPDADRALSAHRGHPGRLEELVTALATAALRAAAKALPGLTPSGPVVRRRRSPVLRGTNRCPVEL

Source Source

Source organism organism	SACCHAROPOLYSPORA ERYTHRAEA
NCBI taxonomy ID ncbi_taxonomy_id	405948
Host organism host_organism	ESCHERICHIA COLI

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6. Fold Classification (SCOP + CATH) 3 domains

CATH v4.4 (3 domains)

Domain ID domain_id	2yjnA01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	2000 — Glycogen Phosphorylase B;

Domain ID domain_id	2yjnA02
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	2000 — Glycogen Phosphorylase B;

Domain ID domain_id	2yjnB00
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	630 — Cytochrome p450
Homologous superfamily homologous superfamily	10 — Cytochrome P450

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Unit-cell length a length_a	141.891 Å
Unit-cell length b length_b	141.891 Å
Unit-cell length c length_c	141.891 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	12

Space group space_group	P 2 3
Space-group number int_tables_number	195
Crystal system crystal_system	—

Resolution resolution	3.091 Å
Low-resolution limit resolution_low	19.677 Å
R factor r_factor	0.2129
R_work r_work	0.2102
R_free r_free	0.2615

Structure of the glycosyltransferase EryCIII from the erythromycin biosynthetic pathway, in complex with its activating partner, EryCII

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

GLYCOSYLTRANSFERASE

State in the Current Structure

Other States of the Same Protein in the Database

DTDP-4-KETO-6-DEOXY-HEXOSE 3,4-ISOMERASE

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

2yjn__assembly_1__model_1

2yjn__assembly_1__model_1 | I(q)

2yjn__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Source Source

6. Fold Classification (SCOP + CATH) 3 domains

CATH v4.4 (3 domains)

7. Citations (1)

Structure of the glycosyltransferase EryCIII from the erythromycin biosynthetic pathway, in complex with its activating partner, EryCII

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

GLYCOSYLTRANSFERASE

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

DTDP-4-KETO-6-DEOXY-HEXOSE 3,4-ISOMERASE

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

2yjn__assembly_1__model_1

2yjn__assembly_1__model_1 | I(q)

2yjn__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Source Source

6. Fold Classification (SCOP + CATH) 3 domains

CATH v4.4 (3 domains)

7. Citations (1)