7JHG
Cryo-EM structure of ATP-bound fully inactive AMPK in complex with Dorsomorphin (Compound C) and Fab-nanobody
Entity
Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
1 | A | 5'-AMP-activated protein kinase catalytic subunit alpha-1 | polymer | 484 | 56004.4 | 1 | UniProt (Q13131) Pfam (PF00069) Pfam (PF21147) Pfam (PF16579) In PDB | Homo sapiens (Human) | AMPK subunit alpha-1,Acetyl-CoA carboxylase kinase,ACACA kinase,Hydroxymethylglutaryl-CoA reductase kinase,HMGCR kinase,Tau-protein kinase PRKAA1 |
2 | B | 5'-AMP-activated protein kinase subunit beta-2 | polymer | 198 | 22384.7 | 1 | UniProt (O43741) Pfam (PF16561) Pfam (PF04739) In PDB | Homo sapiens (Human) | AMPK subunit beta-2 |
3 | G | 5'-AMP-activated protein kinase subunit gamma-1 | polymer | 306 | 34833.4 | 1 | UniProt (P54619) Pfam (PF00571) In PDB | Homo sapiens (Human) | AMPKg |
4 | M | Maltodextrin-binding protein | polymer | 373 | 40827.1 | 1 | UniProt (C3SHQ8) Pfam (PF01547) UniProt (by SIFTS) (P0AEX9) In PDB | Escherichia coli K-12 | |
5 | L | Fab light chain | polymer | 215 | 23212.7 | 1 | synthetic construct | ||
6 | H | Fab heavy chain | polymer | 237 | 25483.5 | 1 | synthetic construct | ||
7 | N | Nanobody | polymer | 159 | 17414.4 | 1 | synthetic construct | ||
8 | D | alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose | branched | 342.3 | 1 | In PDB BIRD (PRD_900001) GlyTouCan (G07411ON) | |||
9 | A | 6-[4-(2-piperidin-1-ylethoxy)phenyl]-3-pyridin-4-ylpyrazolo[1,5-a]pyrimidine | non-polymer | 399.5 | 1 | Chemie (TAK) | |||
10 | G | ADENOSINE-5'-TRIPHOSPHATE | non-polymer | 507.2 | 1 | Chemie (ATP) | |||
11 | G | ADENOSINE-5'-DIPHOSPHATE | non-polymer | 427.2 | 1 | Chemie (ADP) | |||
12 | G | ADENOSINE MONOPHOSPHATE | non-polymer | 347.2 | 1 | Chemie (AMP) |
Sequence modifications
A: 13 - 471 (UniProt: Q13131)
A: 472 - 550 (UniProt: Q13131)
B: 75 - 272 (UniProt: O43741)
G: 24 - 327 (UniProt: P54619)
M: 0 - 366 (UniProt: C3SHQ8)
A: 472 - 550 (UniProt: Q13131)
B: 75 - 272 (UniProt: O43741)
PDB | External Database | Details |
---|---|---|
Met 75 | Gln 75 | conflict |
Ala 199 | Glu 199 | conflict |
Ala 200 | Glu 200 | conflict |
PDB | External Database | Details |
---|---|---|
Met 22 | - | expression tag |
Gly 23 | - | expression tag |
PDB | External Database | Details |
---|---|---|
Met -1 | - | initiating methionine |
Ala 82 | Asp 108 | conflict |
Ala 83 | Lys 109 | conflict |
Ala 239 | Lys 265 | conflict |
Asn 367 | - | expression tag |
Ala 368 | - | expression tag |
Ala 369 | - | expression tag |
Glu 370 | - | expression tag |
Phe 371 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 7 |
Total formula weight | 220160.1 | |
Branched | Number of molecules | 1 |
Total formula weight | 342.3 | |
Non-Polymers* | Number of molecules | 4 |
Total formula weight | 1681.1 | |
All* | Total formula weight | 222183.5 |