NACHT, LRR and PYD domains-containing protein 1
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 monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count | Chain A; UniProt 791–990 | Fragment:LRR domain (UNP Residues 791-990) Non-standard monomer:Yes (specific site not provided by mmCIF) | GOL GLYCEROL × 1 | X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8;293 K;0.1 M Tris pH 8.0, 0.02 M MgCl2, 25 % (w/v) PAA 5100, VAPOR DIFFUSION, HANGING DROP, temperature 293K | Resolution 1.65 Å R-free 0.183 |
| 2 | Protein homooligomer Homooligomer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count | Chain A; UniProt 791–990 | Fragment:LRR domain (UNP Residues 791-990) Non-standard monomer:Yes (specific site not provided by mmCIF) | GOL GLYCEROL × 2 | X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8;293 K;0.1 M Tris pH 8.0, 0.02 M MgCl2, 25 % (w/v) PAA 5100, VAPOR DIFFUSION, HANGING DROP, temperature 293K | Resolution 1.65 Å R-free 0.183 |
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 4IM6 | Assembly / Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Non-polymers | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|---|
| 1PN5 NMR structure of the NALP1 Pyrin domain (PYD) Deposited 2003-06-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Monomer;Protein × 1 PDB declaration: monomeric |
Chain A
1–93(93 aa)
Fragment:Pyrin domain (PYD)
|
Not recorded | No recorded non-water small molecule |
SOLUTION NMR
NMR measurement conditions
pH 6.5;293 K;Pressure 1
NMR sample composition
1mM NALP1 PYD U-15N,13C; 50mM Na / PO4 - Buffer; 50mM NaCl; 1mM CHAPS; 20mM DTT (D10); 0.02% NaN3; 0.1mM EDTA; protease inhibitor cocktail (Complete, Roche); 95% H2O, 5% D2O | 95% H2O/5% D2O
|
Resolution not provided |
| 3KAT Crystal Structure of the CARD domain of the human NLRP1 protein, Northeast Structural Genomics Consortium Target HR3486E Deposited 2009-10-19 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric |
Chain A
1371–1467(97 aa)
Fragment:CARD domain
|
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 7.5;291 K;Protein solution: 100mM NaCl, 5mM DTT, 0.02% NaN3, 10mM Tris-HCl (pH 7.5) . Reservoir solution: 18% PEG3350 and 150 mM sodium formate., VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.10 Å R-free 0.260 |
| 3KAT Crystal Structure of the CARD domain of the human NLRP1 protein, Northeast Structural Genomics Consortium Target HR3486E Deposited 2009-10-19 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein homooligomer Homooligomer;Protein × 2 PDB declaration: dimeric |
Chain A
1371–1467(97 aa)
Fragment:CARD domain
|
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 7.5;291 K;Protein solution: 100mM NaCl, 5mM DTT, 0.02% NaN3, 10mM Tris-HCl (pH 7.5) . Reservoir solution: 18% PEG3350 and 150 mM sodium formate., VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.10 Å R-free 0.260 |
| 4IFP X-ray Crystal Structure of Human NLRP1 CARD Domain Deposited 2012-12-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Monomer;Protein × 1 PDB declaration: monomeric |
Chain A
1335–1418(84 aa)
Fragment:NLRP1-CARD
|
Not recorded | MLI MALONATE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 7.4;298 K;1.4 M Malonate, 100 mM HEPES 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
|
Resolution 1.99 Å R-free 0.208 |
| 4IFP X-ray Crystal Structure of Human NLRP1 CARD Domain Deposited 2012-12-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Insufficient information Monomer;Protein × 1 PDB declaration: monomeric |
Chain B
1335–1418(84 aa)
Fragment:NLRP1-CARD
|
Not recorded | MLI MALONATE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 7.4;298 K;1.4 M Malonate, 100 mM HEPES 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
|
Resolution 1.99 Å R-free 0.208 |
| 4IFP X-ray Crystal Structure of Human NLRP1 CARD Domain Deposited 2012-12-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 3 Insufficient information Monomer;Protein × 1 PDB declaration: monomeric |
Chain C
1335–1418(84 aa)
Fragment:NLRP1-CARD
|
Not recorded | MLI MALONATE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 7.4;298 K;1.4 M Malonate, 100 mM HEPES 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
|
Resolution 1.99 Å R-free 0.208 |
| 5Y3S Crystal structure of human NLRP1 leucine rich repeat domain Deposited 2017-07-30 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric |
Chain A
790–990(201 aa)
Fragment:UNP residues 790-990
|
Not recorded | PO4 PHOSPHATE ION × 1 NA SODIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 6.4;298 K;1.6M Sodium Potassium Phosphate, 100mM HEPES, pH 6.4
|
Resolution 2.45 Å R-free 0.259 |
| 5Y3S Crystal structure of human NLRP1 leucine rich repeat domain Deposited 2017-07-30 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric |
Chain B
790–990(201 aa)
Fragment:UNP residues 790-990
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 6.4;298 K;1.6M Sodium Potassium Phosphate, 100mM HEPES, pH 6.4
|
Resolution 2.45 Å R-free 0.259 |
| 5Y3S Crystal structure of human NLRP1 leucine rich repeat domain Deposited 2017-07-30 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 3 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric |
Chain C
790–990(201 aa)
Fragment:UNP residues 790-990
|
Not recorded | PO4 PHOSPHATE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 6.4;298 K;1.6M Sodium Potassium Phosphate, 100mM HEPES, pH 6.4
|
Resolution 2.45 Å R-free 0.259 |
| 5Y3S Crystal structure of human NLRP1 leucine rich repeat domain Deposited 2017-07-30 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 4 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric |
Chain D
790–990(201 aa)
Fragment:UNP residues 790-990
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 6.4;298 K;1.6M Sodium Potassium Phosphate, 100mM HEPES, pH 6.4
|
Resolution 2.45 Å R-free 0.259 |
| 6K7V Structure of NLRP1 CARD filament Deposited 2019-06-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 12 PDB declaration: dodecameric |
Chain A
1379–1466(88 aa)
Chain B
1379–1466(88 aa)
Chain C
1379–1466(88 aa)
Chain D
1379–1466(88 aa)
Chain E
1379–1466(88 aa)
Chain F
1379–1466(88 aa)
Chain G
1379–1466(88 aa)
Chain H
1379–1466(88 aa)
Chain I
1379–1466(88 aa)
Chain J
1379–1466(88 aa)
Chain K
1379–1466(88 aa)
Chain L
1379–1466(88 aa)
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å R-free 0.285 |
| 6X6A Cryo-EM structure of NLRP1-DPP9 complex Deposited 2020-05-27 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer;Protein × 8 PDB declaration: octameric |
Chain B
1–1212(1212 aa)
Chain C
1213–1473(261 aa)
Chain E
1–1212(1212 aa)
Chain F
1213–1473(261 aa)
Chain G
1213–1473(261 aa)
Chain I
1213–1473(261 aa)
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5;25 mM Tris pH 7.5, 150 mM NaCl, 1 mM TCEP
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 6X6C Cryo-EM structure of NLRP1-DPP9-VbP complex Deposited 2020-05-27 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer;Protein × 4 PDB declaration: tetrameric |
Chain E
1–1473(1473 aa)
Chain F
1–1473(1473 aa)
|
Not recorded | GK2 [(2~{R})-1-[(2~{R})-2-azanyl-3-methyl-butanoyl]pyrrolidin-2-yl]boronic acid × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5;25 mM Tris pH 7.5, 150 mM NaCl, 1 mM TCEP
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 6XKK Cryo-EM structure of the NLRP1-CARD filament Deposited 2020-06-26 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 44 PDB declaration: 44-meric |
Chain A
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain B
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain C
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain D
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain E
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain F
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain G
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain H
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain I
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain J
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain K
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain L
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain M
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain N
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain O
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain P
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain Q
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain R
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain S
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain T
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain U
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain V
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain a
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain b
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain c
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain d
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain e
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain f
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain g
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain h
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain i
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain j
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain k
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain l
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain m
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain n
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain o
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain p
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain q
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain r
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain s
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain t
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain u
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
Chain v
1305–1399(95 aa)
Fragment:CARD domain (UNP residues 1305-1399)
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.72 Å |
| 7WGE Human NLRP1 complexed with thioredoxin Deposited 2021-12-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric |
Chain A
95–994(900 aa)
|
Not recorded | AGS PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 8ZGD The Crystal Structure of the NLRP1_LRR domain from Biortus. Deposited 2024-05-09 | Different construct Different mutation/modification Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric |
Chain A
791–990(200 aa)
|
Not recorded | GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;293 K;20mM MgCl2, 0.1M Tris pH 8.0, 19% polyacrylic acid 5100
|
Resolution 2.05 Å R-free 0.221 |
| 9BJ9 Human CRL-2 ZYG11B binding to human NLRP1 Gly/N degron Deposited 2024-04-25 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer;Protein × 6 PDB declaration: hexameric |
Chain P
131–139(9 aa)
Fragment:residues 131-139 (Uniprot numbering)
|
Not recorded | ZN ZINC ION × 3 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.2
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.20 Å |
11 other PDB entries and 17 assemblies. Open the comparison page and filter oligomeric states
View Construct and Data Evidence
| UniProt name | NALP1_HUMAN |
| Isoform | — |
| PDB entities | 1 |
| Chains and sequence ranges | Author chain A; PDBConstruct 7–206; UniProt 791–990 |