Nucleoporin p54
Homo sapiens
State in the Current Structure
| Assembly | Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Associated Components | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|
| 1 | Protein heterocomplex Heteromer Protein × 3 PDB declaration: trimeric(3) Consistent with protein copy count | Chain A; UniProt 453–491 Chain C; UniProt 453–491 | Fragment:UNP residues 453-491 | Nucleoporin p58/p45 × 1 (Q9BVL2) | X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION;pH 3.8;294 K;0.1 M sodium citrate, pH 3.8, 0.07 M calcium chloride, VAPOR DIFFUSION, temperature 294.0K | Resolution 2.50 Å R-free 0.294 |
Other States of the Same Protein in the Database
Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.
| Other PDB | Difference from Current Entry 4JO9 | Assembly / Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Non-polymers | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|---|
| 4JNU Crystal structure of the human Nup57CCS3* coiled-coil segment, space group P21 Deposited 2013-03-15 | Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 4 PDB declaration: tetrameric |
Chain A
453–491(39 aa)
Fragment:UNP residues 453-491
Chain B
453–491(39 aa)
Fragment:UNP residues 453-491
Chain C
453–491(39 aa)
Fragment:UNP residues 453-491
Chain D
453–491(39 aa)
Fragment:UNP residues 453-491
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 5.3;294 K;0.1 M sodium acetate, pH 5.3, 1.9 M sodium formate, VAPOR DIFFUSION, HANGING DROP, temperature 294K
|
Resolution 1.45 Å R-free 0.218 |
| 4JNV Crystal structure of the human Nup57CCS3* coiled-coil segment, space group C2 Deposited 2013-03-15 | Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 4 PDB declaration: tetrameric |
Chain A
453–491(39 aa)
Fragment:UNP residues 453-491
Chain B
453–491(39 aa)
Fragment:UNP residues 453-491
Chain C
453–491(39 aa)
Fragment:UNP residues 453-491
Chain D
453–491(39 aa)
Fragment:UNP residues 453-491
|
Non-standard monomer:Yes (specific site not provided by mmCIF) Non-standard monomer:Yes (specific site not provided by mmCIF) Non-standard monomer:Yes (specific site not provided by mmCIF) Non-standard monomer:Yes (specific site not provided by mmCIF) | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 5.3;294 K;0.1 M sodium acetate, pH 5.3, 1.9 M sodium formate, VAPOR DIFFUSION, HANGING DROP, temperature 294K
|
Resolution 1.85 Å R-free 0.277 |
| 4JO7 Crystal structure of the human Nup49CCS2+3* Nup57CCS3* complex with 2:2 stoichiometry Deposited 2013-03-17 | Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer;Protein × 4 PDB declaration: tetrameric |
Chain B
453–491(39 aa)
Fragment:UNP residues 453-491
Chain D
453–491(39 aa)
Fragment:UNP residues 453-491
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 6.5;294 K;0.1 M MES, pH 6.5, 6.7% PEG20000, VAPOR DIFFUSION, HANGING DROP, temperature 294.0K
|
Resolution 1.75 Å R-free 0.214 |
| 4JO7 Crystal structure of the human Nup49CCS2+3* Nup57CCS3* complex with 2:2 stoichiometry Deposited 2013-03-17 | Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer;Protein × 4 PDB declaration: tetrameric |
Chain F
453–491(39 aa)
Fragment:UNP residues 453-491
Chain H
453–491(39 aa)
Fragment:UNP residues 453-491
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 6.5;294 K;0.1 M MES, pH 6.5, 6.7% PEG20000, VAPOR DIFFUSION, HANGING DROP, temperature 294.0K
|
Resolution 1.75 Å R-free 0.214 |
| 5IJN Composite structure of the inner ring of the human nuclear pore complex (32 copies of Nup205) Deposited 2016-03-02 | Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer;Protein × 208 PDB declaration: 208-meric |
Chain F
1–507(507 aa)
Chain L
1–507(507 aa)
Chain R
1–507(507 aa)
Chain X
1–507(507 aa)
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 21.40 Å |
| 5IJO Alternative composite structure of the inner ring of the human nuclear pore complex (16 copies of Nup188, 16 copies of Nup205) Deposited 2016-03-02 | Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer;Protein × 208 PDB declaration: 208-meric |
Chain F
1–507(507 aa)
Chain L
1–507(507 aa)
Chain R
1–507(507 aa)
Chain X
1–507(507 aa)
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 21.40 Å |
| 7PER Model of the inner ring of the human nuclear pore complex Deposited 2021-08-11 | Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer;Protein × 192 PDB declaration: 192-meric |
Chain F
1–507(507 aa)
Chain L
1–507(507 aa)
Chain R
1–507(507 aa)
Chain X
1–507(507 aa)
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE;Cells were grown on holey carbon, Au-mesh supports. Grids were rinsed briefly with PBS and manually blotted before plunging into liquid ethane.
|
Resolution 35.00 Å |
| 7R5J Human nuclear pore complex (dilated) Deposited 2022-02-10 | Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer;Protein × 808 PDB declaration: 808-meric |
Chain H0
1–507(507 aa)
Chain H1
1–507(507 aa)
Chain H2
1–507(507 aa)
Chain H3
1–507(507 aa)
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 50.00 Å |
| 7R5K Human nuclear pore complex (constricted) Deposited 2022-02-10 | Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer;Protein × 808 PDB declaration: 808-meric |
Chain H0
1–507(507 aa)
Chain H1
1–507(507 aa)
Chain H2
1–507(507 aa)
Chain H3
1–507(507 aa)
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 12.00 Å |
8 other PDB entries and 9 assemblies. Open the comparison page and filter oligomeric states
View Construct and Data Evidence
| UniProt name | NUP54_HUMAN |
| Isoform | — |
| PDB entities | 1 |
| Chains and sequence ranges | Author chain A; PDBConstruct 2–40; UniProt 453–491 Author chain C; PDBConstruct 2–40; UniProt 453–491 |