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1d3i

CRYO-EM STRUCTURE OF HUMAN RHINOVIRUS 14 (HRV14) COMPLEXED WITH A TWO-DOMAIN FRAGMENT OF ITS CELLULAR RECEPTOR, INTERCELLULAR ADHESION MOLECULE-1 (D1D2-ICAM-1). IMPLICATIONS FOR VIRUS-RECEPTOR INTERACTIONS. ALPHA CARBONS ONLY

Method: ELECTRON MICROSCOPY
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1. Protein Identity and Related Structures Protein Identity & Related Structures

PROTEIN (INTERCELLULAR ADHESION MOLECULE-1)

OrganismNot specified

UniProt P05362

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 300 PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP1) × 60 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP2) × 60 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP3) × 60 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP4) × 60 （P03303） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 5 PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP1) × 1 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP2) × 1 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP3) × 1 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP4) × 1 （P03303） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 25 PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP1) × 5 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP2) × 5 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP3) × 5 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP4) × 5 （P03303） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 30 PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP1) × 6 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP2) × 6 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP3) × 6 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP4) × 6 （P03303） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 5 PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP1) × 1 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP2) × 1 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP3) × 1 （P03303） PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP4) × 1 （P03303） Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1d3l 1p53 1p53

3 assemblies

Homodimer
1iam

1 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1d3e 1d3e 1d3e 1d3e 1d3e 1d3i 1d3i 1d3i 1d3i 1d3i 1ic1 1ic1

37 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name ICAM1_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain I； PDBConstruct 1–185； UniProt 28–212

PROTEIN (RHINOVIRUS 14 COAT PROTEIN VP1)

OrganismNot specified

UniProt P03303

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 300 PROTEIN (INTERCELLULAR ADHESION MOLECULE-1) × 60 （P05362） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 5 PROTEIN (INTERCELLULAR ADHESION MOLECULE-1) × 1 （P05362） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 25 PROTEIN (INTERCELLULAR ADHESION MOLECULE-1) × 5 （P05362） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 30 PROTEIN (INTERCELLULAR ADHESION MOLECULE-1) × 6 （P05362） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 5 PROTEIN (INTERCELLULAR ADHESION MOLECULE-1) × 1 （P05362） Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1xr5 2in2 9lgp 9lgp 9lgp 9lgp

6 assemblies

Homodimer

None

Homotetramer
1hri 1hri 1hrv 1hrv 1na1 1na1 1ncq 1ncq 1r08 1r08 1r09 1r09

56 assemblies; showing the first 12

Other homooligomers
1hri 1hri 1hri 1hri 1hrv 1hrv 1hrv 1hrv 1na1 1na1 1na1 1na1

116 assemblies; showing the first 12

Heteromeric or nucleic-acid complex
1d3i 1d3i 1d3i 1d3i 1d3i 1k5m 1k5m 1k5m 1k5m 1k5m 1k5m 1rvf

63 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name POLG_HRV14
Isoform —
PDB entities 2, 3, 4, 5
Chains and sequence ranges Author chain 1； PDBConstruct 1–289； UniProt 567–855 Author chain 2； PDBConstruct 1–262； UniProt 69–330 Author chain 3； PDBConstruct 1–236； UniProt 331–566 Author chain 4； PDBConstruct 1–68； UniProt 1–68

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_id1d3i
Deposition date deposition_date1999-09-29
Structure title titleCRYO-EM STRUCTURE OF HUMAN RHINOVIRUS 14 (HRV14) COMPLEXED WITH A TWO-DOMAIN FRAGMENT OF ITS CELLULAR RECEPTOR, INTERCELLULAR ADHESION MOLECULE-1 (D1D2-ICAM-1). IMPLICATIONS FOR VIRUS-RECEPTOR INTERACTIONS. ALPHA CARBONS ONLY
Keywords keywords;HUMAN RHINOVIRUS, HRV14, ICAM-1, FITTING OF X-RAY STRUCTURES INTO CRYO-EM RECONSTRUCTIONS, COMMON COLD, VIRUS UNCOATING, VIRUS/ VIRAL PROTEIN, RHINOVIRUS-RECEPTOR COMPLEX, Icosahedral virus, Virus-Receptor COMPLEX ;; Virus/Receptor
Experimental Method methodELECTRON 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.

1d3i__assembly_1__model_1

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

Download this curve (.dat)

1d3i__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 1010 1011 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

1d3i__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）0.00 Å
Rg (electron density)142.70 Å
Total Rg142.70 Å
Atom count0
Residues0
Excluded volume8019300 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1d3i__assembly_1__model_1 300-MERIC （300） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1d3i__assembly_2__model_1 pentameric （5） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
3 1 1d3i__assembly_3__model_1 25-meric （25） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
4 1 1d3i__assembly_4__model_1 30-meric （30） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
5 1 1d3i__assembly_5__model_1 pentameric （5） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
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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) 5 domains

SCOP 2.08 (5 domains)

Domain ID domain_idd1d3i1_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1d3i2_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1d3i3_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1d3i4_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1d3ii_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
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7. Citations (6)