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3zrc

pVHL54-213-EloB-EloC complex (4R)-4-HYDROXY-1-[(3-METHYLISOXAZOL-5-YL)ACETYL]-N-[4-(1,3-OXAZOL-5-YL)BENZYL]-L-PROLINAMIDE bound

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 2

HOMO SAPIENS

UniProt Q15370

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 3 TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 1 × 1 （Q15369） VON HIPPEL-LINDAU DISEASE TUMOR SUPPRESSOR × 1 （P40337） (4R)-4-HYDROXY-1-[(3-METHYLISOXAZOL-5-YL)ACETYL]-N-[4-(1,3-OXAZOL-5-YL)BENZYL]-L-PROLINAMIDE × 1 water × 2 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 3 TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 1 × 1 （Q15369） VON HIPPEL-LINDAU DISEASE TUMOR SUPPRESSOR × 1 （P40337） (4R)-4-HYDROXY-1-[(3-METHYLISOXAZOL-5-YL)ACETYL]-N-[4-(1,3-OXAZOL-5-YL)BENZYL]-L-PROLINAMIDE × 1 water × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 3 TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 1 × 1 （Q15369） VON HIPPEL-LINDAU DISEASE TUMOR SUPPRESSOR × 1 （P40337） (4R)-4-HYDROXY-1-[(3-METHYLISOXAZOL-5-YL)ACETYL]-N-[4-(1,3-OXAZOL-5-YL)BENZYL]-L-PROLINAMIDE × 1 water × 3 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 3 TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 1 × 1 （Q15369） VON HIPPEL-LINDAU DISEASE TUMOR SUPPRESSOR × 1 （P40337） (4R)-4-HYDROXY-1-[(3-METHYLISOXAZOL-5-YL)ACETYL]-N-[4-(1,3-OXAZOL-5-YL)BENZYL]-L-PROLINAMIDE × 1 water × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1lm8 1lqb 1lqb 1vcb 1vcb 1vcb 1vcb 2c9w 2izv 2jz3 2ma9 3dcg

479 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name ELOB_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–118； UniProt 1–118 Author chain D； PDBConstruct 1–118； UniProt 1–118 Author chain G； PDBConstruct 1–118； UniProt 1–118 Author chain J； PDBConstruct 1–118； UniProt 1–118

TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 1

HOMO SAPIENS

UniProt Q15369

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 3 TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 2 × 1 （Q15370） VON HIPPEL-LINDAU DISEASE TUMOR SUPPRESSOR × 1 （P40337） (4R)-4-HYDROXY-1-[(3-METHYLISOXAZOL-5-YL)ACETYL]-N-[4-(1,3-OXAZOL-5-YL)BENZYL]-L-PROLINAMIDE × 1 water × 2 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 3 TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 2 × 1 （Q15370） VON HIPPEL-LINDAU DISEASE TUMOR SUPPRESSOR × 1 （P40337） (4R)-4-HYDROXY-1-[(3-METHYLISOXAZOL-5-YL)ACETYL]-N-[4-(1,3-OXAZOL-5-YL)BENZYL]-L-PROLINAMIDE × 1 water × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 3 TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 2 × 1 （Q15370） VON HIPPEL-LINDAU DISEASE TUMOR SUPPRESSOR × 1 （P40337） (4R)-4-HYDROXY-1-[(3-METHYLISOXAZOL-5-YL)ACETYL]-N-[4-(1,3-OXAZOL-5-YL)BENZYL]-L-PROLINAMIDE × 1 water × 3 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 3 TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 2 × 1 （Q15370） VON HIPPEL-LINDAU DISEASE TUMOR SUPPRESSOR × 1 （P40337） (4R)-4-HYDROXY-1-[(3-METHYLISOXAZOL-5-YL)ACETYL]-N-[4-(1,3-OXAZOL-5-YL)BENZYL]-L-PROLINAMIDE × 1 water × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1lm8 1lqb 1lqb 1vcb 1vcb 1vcb 1vcb 2c9w 2izv 2ma9 3dcg 3dcg

468 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name ELOC_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 2–97； UniProt 17–112 Author chain E； PDBConstruct 2–97； UniProt 17–112 Author chain H； PDBConstruct 2–97； UniProt 17–112 Author chain K； PDBConstruct 2–97； UniProt 17–112

VON HIPPEL-LINDAU DISEASE TUMOR SUPPRESSOR

HOMO SAPIENS

UniProt P40337

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 3 TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 2 × 1 （Q15370） TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 1 × 1 （Q15369） (4R)-4-HYDROXY-1-[(3-METHYLISOXAZOL-5-YL)ACETYL]-N-[4-(1,3-OXAZOL-5-YL)BENZYL]-L-PROLINAMIDE × 1 water × 2 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 3 TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 2 × 1 （Q15370） TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 1 × 1 （Q15369） (4R)-4-HYDROXY-1-[(3-METHYLISOXAZOL-5-YL)ACETYL]-N-[4-(1,3-OXAZOL-5-YL)BENZYL]-L-PROLINAMIDE × 1 water × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 3 TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 2 × 1 （Q15370） TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 1 × 1 （Q15369） (4R)-4-HYDROXY-1-[(3-METHYLISOXAZOL-5-YL)ACETYL]-N-[4-(1,3-OXAZOL-5-YL)BENZYL]-L-PROLINAMIDE × 1 water × 3 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 3 TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 2 × 1 （Q15370） TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 1 × 1 （Q15369） (4R)-4-HYDROXY-1-[(3-METHYLISOXAZOL-5-YL)ACETYL]-N-[4-(1,3-OXAZOL-5-YL)BENZYL]-L-PROLINAMIDE × 1 water × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1lm8 1lqb 1lqb 1vcb 1vcb 1vcb 1vcb 3zrc 3zrc 3zrc 3zrc 3zrf

364 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name VHL_HUMAN
Isoform —
PDB entities 3
Chains and sequence ranges Author chain C； PDBConstruct 4–163； UniProt 54–213 Author chain F； PDBConstruct 4–163； UniProt 54–213 Author chain I； PDBConstruct 4–163； UniProt 54–213 Author chain L； PDBConstruct 4–163； UniProt 54–213

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_id3zrc
Deposition date deposition_date2011-06-15
Structure title titlepVHL54-213-EloB-EloC complex (4R)-4-HYDROXY-1-[(3-METHYLISOXAZOL-5-YL)ACETYL]-N-[4-(1,3-OXAZOL-5-YL)BENZYL]-L-PROLINAMIDE bound
Keywords keywordsTRANSCRIPTION, TUMOUR SUPRESSOR PROTEIN, CHRONIC ANEAMIA TRE E3 TREATMENT, E3 UBIQUITIN LIGASE; TRANSCRIPTION
Experimental Method methodX-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.

3zrc__assembly_3__model_1

Assembly 3 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

3zrc__assembly_3__model_1 | I(q)

10-2 10-1 105 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

3zrc__assembly_3__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）24.80 Å
Rg (electron density)23.91 Å
Total Rg24.53 Å
Atom count2664
Residues338
Excluded volume47532 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3zrc__assembly_1__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 3zrc__assembly_2__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 3zrc__assembly_3__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 3zrc__assembly_4__model_1 trimeric （3） 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 (5)

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6. Fold Classification (SCOP + CATH) 28 domains

SCOP 2.08 (12 domains)

Domain ID domain_idd3zrca_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.15 — beta-Grasp (ubiquitin-like)
Superfamily Superfamily superfamilyd.15.1 — Ubiquitin-like
Family Family familyd.15.1.1 — Ubiquitin-related
Domain ID domain_idd3zrcb_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.42 — POZ domain
Superfamily Superfamily superfamilyd.42.1 — POZ domain
Family Family familyd.42.1.1 — BTB/POZ domain
Domain ID domain_idd3zrcc_
Class classb — All beta proteins
Fold Fold foldb.3 — Prealbumin-like
Superfamily Superfamily superfamilyb.3.3 — VHL
Family Family familyb.3.3.1 — VHL
Domain ID domain_idd3zrcd_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.15 — beta-Grasp (ubiquitin-like)
Superfamily Superfamily superfamilyd.15.1 — Ubiquitin-like
Family Family familyd.15.1.1 — Ubiquitin-related
Domain ID domain_idd3zrce_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.42 — POZ domain
Superfamily Superfamily superfamilyd.42.1 — POZ domain
Family Family familyd.42.1.1 — BTB/POZ domain
Domain ID domain_idd3zrcf_
Class classb — All beta proteins
Fold Fold foldb.3 — Prealbumin-like
Superfamily Superfamily superfamilyb.3.3 — VHL
Family Family familyb.3.3.1 — VHL
Domain ID domain_idd3zrcg_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.15 — beta-Grasp (ubiquitin-like)
Superfamily Superfamily superfamilyd.15.1 — Ubiquitin-like
Family Family familyd.15.1.1 — Ubiquitin-related
Domain ID domain_idd3zrch_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.42 — POZ domain
Superfamily Superfamily superfamilyd.42.1 — POZ domain
Family Family familyd.42.1.1 — BTB/POZ domain
Domain ID domain_idd3zrci_
Class classb — All beta proteins
Fold Fold foldb.3 — Prealbumin-like
Superfamily Superfamily superfamilyb.3.3 — VHL
Family Family familyb.3.3.1 — VHL
Domain ID domain_idd3zrcj_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.15 — beta-Grasp (ubiquitin-like)
Superfamily Superfamily superfamilyd.15.1 — Ubiquitin-like
Family Family familyd.15.1.1 — Ubiquitin-related
Domain ID domain_idd3zrck_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.42 — POZ domain
Superfamily Superfamily superfamilyd.42.1 — POZ domain
Family Family familyd.42.1.1 — BTB/POZ domain
Domain ID domain_idd3zrcl_
Class classb — All beta proteins
Fold Fold foldb.3 — Prealbumin-like
Superfamily Superfamily superfamilyb.3.3 — VHL
Family Family familyb.3.3.1 — VHL

CATH v4.4 (16 domains)

Domain ID domain_id3zrcA00
Class class3 — Alpha Beta
Architecture architecture10 — Roll
Topology topology20 — Ubiquitin-like (UB roll)
Homologous superfamily homologous superfamily90 — Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
Domain ID domain_id3zrcB00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology710 — Potassium Channel Kv1.1; Chain A
Homologous superfamily homologous superfamily10 — Potassium Channel Kv1.1; Chain A
Domain ID domain_id3zrcC01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily780 — von Hippel-Lindau disease tumour suppressor, beta domain
Domain ID domain_id3zrcC02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology750 — Elongin C; Chain C, domain 1
Homologous superfamily homologous superfamily10 — von Hippel-Lindau disease tumour suppressor, alpha domain
Domain ID domain_id3zrcD00
Class class3 — Alpha Beta
Architecture architecture10 — Roll
Topology topology20 — Ubiquitin-like (UB roll)
Homologous superfamily homologous superfamily90 — Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
Domain ID domain_id3zrcE00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology710 — Potassium Channel Kv1.1; Chain A
Homologous superfamily homologous superfamily10 — Potassium Channel Kv1.1; Chain A
Domain ID domain_id3zrcF01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily780 — von Hippel-Lindau disease tumour suppressor, beta domain
Domain ID domain_id3zrcF02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology750 — Elongin C; Chain C, domain 1
Homologous superfamily homologous superfamily10 — von Hippel-Lindau disease tumour suppressor, alpha domain
Domain ID domain_id3zrcG00
Class class3 — Alpha Beta
Architecture architecture10 — Roll
Topology topology20 — Ubiquitin-like (UB roll)
Homologous superfamily homologous superfamily90 — Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
Domain ID domain_id3zrcH00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology710 — Potassium Channel Kv1.1; Chain A
Homologous superfamily homologous superfamily10 — Potassium Channel Kv1.1; Chain A
Domain ID domain_id3zrcI01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily780 — von Hippel-Lindau disease tumour suppressor, beta domain
Domain ID domain_id3zrcI02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology750 — Elongin C; Chain C, domain 1
Homologous superfamily homologous superfamily10 — von Hippel-Lindau disease tumour suppressor, alpha domain
Domain ID domain_id3zrcJ00
Class class3 — Alpha Beta
Architecture architecture10 — Roll
Topology topology20 — Ubiquitin-like (UB roll)
Homologous superfamily homologous superfamily90 — Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
Domain ID domain_id3zrcK00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology710 — Potassium Channel Kv1.1; Chain A
Homologous superfamily homologous superfamily10 — Potassium Channel Kv1.1; Chain A
Domain ID domain_id3zrcL01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily780 — von Hippel-Lindau disease tumour suppressor, beta domain
Domain ID domain_id3zrcL02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology750 — Elongin C; Chain C, domain 1
Homologous superfamily homologous superfamily10 — von Hippel-Lindau disease tumour suppressor, alpha domain
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7. Citations (1)