MolNFT v1 · #181619 · protein + DNA
Post-catalytic nicked complex of DNA polymerase lambda with bound 1-nt gapped ssb substrate and incoming dumpnpp
7M08: “Post-catalytic nicked complex of DNA polymerase lambda with bound 1-nt gapped ssb substrate and incoming…”. X-ray diffraction, 3 ligands (NA, MG, CL). MolNFT v1 #181619 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7M08
- Type
- protein + DNA
- Length
- 347 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- Q9UGP5
- Ligands
- NA, MG, CL
Structure
x-ray diffraction · 4 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 325 | — | Q9UGP5 |
| T | — | dna | 11 | — | — |
| P | — | dna | 7 | — | — |
| D | — | dna | 4 | — | — |
Ligands and binding sites
- NA · Sodium ion · metal · 3 copies · chains A, P, D
- MG · Magnesium ion · metal · chains A, P
- CL · Chloride ion · ion · 2 copies · chains A, T
- EDO · 1,2-ethanediol · additive · chains A
- ACT · Acetate ion · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 7M08 · Post-catalytic nicked complex of DNA Polymerase Lambda with bound 1-nt gapped SSB… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9UGP5 · AlphaFold monomer V2.0 prediction for DNA polymerase lambda (Q9UGP5) · a predicted model of the same protein · chain A against A, TM-score 0.98
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q9UGP5
- Elsewhere: RCSB PDB 7M08 · PDBe 7M08 · UniProt Q9UGP5
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