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5oob

COMPLEX OF HUMAN NUCLEAR CAP-BINDING COMPLEX WITH M7GTP AND NELF-E C-TERMINAL PEPTIDE

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

Nuclear cap-binding protein subunit 1

Homo sapiens

UniProt Q09161

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 3 Nuclear cap-binding protein subunit 2 × 1 （P52298） Negative elongation factor E × 1 （P18615） 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 3 Nuclear cap-binding protein subunit 2 × 1 （P52298） Negative elongation factor E × 1 （P18615） 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 2 Nuclear cap-binding protein subunit 2 × 1 （P52298） 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE × 1 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 3 Nuclear cap-binding protein subunit 2 × 1 （P52298） Negative elongation factor E × 1 （P18615） 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE × 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
1h2t 1h2u 1h2u 1h2v 1h6k 1h6k 1h6k 1n52 1n54 3fex 3fex 3fey

32 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name NCBP1_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 2–772； UniProt 20–790 Author chain C； PDBConstruct 2–772； UniProt 20–790 Author chain F； PDBConstruct 2–772； UniProt 20–790 Author chain I； PDBConstruct 2–772； UniProt 20–790

Nuclear cap-binding protein subunit 2

Homo sapiens

UniProt P52298

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 3 Nuclear cap-binding protein subunit 1 × 1 （Q09161） Negative elongation factor E × 1 （P18615） 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 3 Nuclear cap-binding protein subunit 1 × 1 （Q09161） Negative elongation factor E × 1 （P18615） 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 2 Nuclear cap-binding protein subunit 1 × 1 （Q09161） 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE × 1 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 3 Nuclear cap-binding protein subunit 1 × 1 （Q09161） Negative elongation factor E × 1 （P18615） 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE × 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
1h2t 1h2u 1h2u 1h2v 1h6k 1h6k 1h6k 1n52 1n54 3fex 3fex 3fey

32 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name NCBP2_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 3–158； UniProt 1–156 Author chain D； PDBConstruct 3–158； UniProt 1–156 Author chain G； PDBConstruct 3–158； UniProt 1–156 Author chain J； PDBConstruct 3–158； UniProt 1–156

Negative elongation factor E

OrganismNot specified

UniProt P18615

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 3 Nuclear cap-binding protein subunit 1 × 1 （Q09161） Nuclear cap-binding protein subunit 2 × 1 （P52298） 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 3 Nuclear cap-binding protein subunit 1 × 1 （Q09161） Nuclear cap-binding protein subunit 2 × 1 （P52298） 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE × 1 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 3 Nuclear cap-binding protein subunit 1 × 1 （Q09161） Nuclear cap-binding protein subunit 2 × 1 （P52298） 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1x5p 2bz2 2jx2

3 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
5oob 5oob 5oob 6gml 7ycx 8uha 8uhd 8uhg 8ui0 8w8e 9j0n 9j0o

13 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name NELFE_HUMAN
Isoform —
PDB entities 3
Chains and sequence ranges Author chain E； PDBConstruct 1–21； UniProt 360–380 Author chain K； PDBConstruct 1–21； UniProt 360–380 Author chain Z； PDBConstruct 1–21； UniProt 360–380

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_id5oob
Deposition date deposition_date2017-08-07
Structure title titleCOMPLEX OF HUMAN NUCLEAR CAP-BINDING COMPLEX WITH M7GTP AND NELF-E C-TERMINAL PEPTIDE
Keywords keywordsComplex nuclear cap-binding complex m7GTP C-terminal peptide from ARS2, nuclear protein; NUCLEAR PROTEIN
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.

5oob__assembly_1__model_1

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

Download this curve (.dat)

5oob__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

5oob__assembly_1__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）31.62 Å
Rg (electron density)30.60 Å
Total Rg31.32 Å
Atom count7431
Residues905
Excluded volume132620 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 5oob__assembly_1__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 5oob__assembly_2__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 5oob__assembly_3__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 5oob__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 (4)

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6. Fold Classification (SCOP + CATH) 16 domains

CATH v4.4 (16 domains)

Domain ID domain_id5oobA01
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
Homologous superfamily homologous superfamily180 —
Domain ID domain_id5oobA02
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
Homologous superfamily homologous superfamily180 —
Domain ID domain_id5oobA03
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
Homologous superfamily homologous superfamily180 —
Domain ID domain_id5oobB00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily330 — RRM (RNA recognition motif) domain
Domain ID domain_id5oobC01
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
Homologous superfamily homologous superfamily180 —
Domain ID domain_id5oobC02
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
Homologous superfamily homologous superfamily180 —
Domain ID domain_id5oobC03
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
Homologous superfamily homologous superfamily180 —
Domain ID domain_id5oobD00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily330 — RRM (RNA recognition motif) domain
Domain ID domain_id5oobF01
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
Homologous superfamily homologous superfamily180 —
Domain ID domain_id5oobF02
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
Homologous superfamily homologous superfamily180 —
Domain ID domain_id5oobF03
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
Homologous superfamily homologous superfamily180 —
Domain ID domain_id5oobG00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily330 — RRM (RNA recognition motif) domain
Domain ID domain_id5oobI01
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
Homologous superfamily homologous superfamily180 —
Domain ID domain_id5oobI02
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
Homologous superfamily homologous superfamily180 —
Domain ID domain_id5oobI03
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
Homologous superfamily homologous superfamily180 —
Domain ID domain_id5oobJ00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily330 — RRM (RNA recognition motif) domain
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7. Citations (1)