Research workbench
Sirohaem decarboxylase AHBA/B - an enzyme with structural homology to the LRP/ASNC transcription factor family that is part of the alternative haem biosynthesis pathway.
Analyse Sirohaem decarboxylase AHBA/B - an enzyme with structural homology to the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4CZD
- Type
- protein
- Length
- 600 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative transcriptional regulator, asnc family
- UniProt
- B8J364, B8J3A4
- Pockets
- 5 · best druggability 0.78
Structure
x-ray diffraction · 4 distinct chains · 40% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative transcriptional regulator, asnc family | protein | 145 | 43% helix, 25% strand | B8J364 |
| B | Putative transcriptional regulator, asnc family | protein | 159 | 35% helix, 22% strand | B8J3A4 |
| C | Putative transcriptional regulator, asnc family | protein | 139 | 47% helix, 24% strand | B8J364 |
| D | Putative transcriptional regulator, asnc family | protein | 157 | 36% helix, 24% strand | B8J3A4 |
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 989 | 0.78 | 0.80 | 105 | empty |
| 2 | 650 | 0.67 | 0.76 | 52 | empty |
| 3 | 304 | 0.53 | 0.74 | 37 | empty |
| 4 | 52 | 0.29 | 0.75 | 20 | empty |
| 5 | 54 | 0.25 | 0.73 | 12 | empty |
Interfaces
6 interfaces between chains.
- A–B · 3340 Ų buried · 54 hydrogen bonds · protein-protein
- C–D · 3079 Ų buried · 56 hydrogen bonds · protein-protein
- B–D · 221 Ų buried · 4 hydrogen bonds · protein-protein
- A–C · 139 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 134 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 4CZD · Sirohaem decarboxylase AhbA/B - an enzyme with structural homology to the Lrp/AsnC… · the same entry in another collection · chain D against D, TM-score 1.00
- B8J364 · AlphaFold monomer V2.0 prediction for siroheme decarboxylase alpha subunit (B8J364) · a predicted model of the same protein · chain A against A, TM-score 0.94
- B8J3A4 · AlphaFold monomer V2.0 prediction for siroheme decarboxylase beta subunit (B8J3A4) · a predicted model of the same protein · chain B against A, TM-score 0.79
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 B8J364
- Every structure of UniProt B8J3A4
- Elsewhere: RCSB PDB 4CZD · PDBe 4CZD · UniProt B8J364 · UniProt B8J3A4
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