Structure of PDB 8pnd Chain B

Receptor sequence
>8pndB (length=326) Species: 9606 (Homo sapiens) [Search protein sequence]
MRVIRVGTRKSQLARIQTDSVVATLKASYPGLQFEIIAMSTEKSLFTKEL
EHALEKNEVDLVVHSLKDLPTVLPPGFTIGAICKRENPHDAVVFHPKFVG
KTLETLPEKSVVGTSSLRRAAQLQRKFPHLEFRSIQGNLNTRLRKLDEQQ
EFSAIILATAGLQRMGWHNRVGQILHPEECMYAVGQGALGVEVRAKDQDI
LDLVGVLHDPETLLRCIAERAFLRHLEGGCSVPVAVHTAMKDGQLYLTGG
VWSLDGSDSIQETMQATIHVPAQHEDGPEDDPQLVGITARNIPRGPQLAA
QNLGISLANLLLSKGAKNILDVARQL
3D structure
PDB8pnd One ring closer to a closure: the crystal structure of the ES 3 hydroxymethylbilane synthase intermediate.
ChainB
Resolution1.9 Å
3D
structure
[Spin on]
[Spin off]
[Reset orientation]

[High quality]
[Low quality]

[White background]
[Black background]

[Download]
[Download structure with residue number starting from 1]
Enzymatic activity
Enzyme Commision number 2.5.1.61: hydroxymethylbilane synthase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 ZWW B E73 K74 F77 S96 K98 D99 P101 T102 S146 S147 R149 R150 R173 L188 A189 V215 Q217 L254 G260 C261 S262 E42 K43 F46 S65 K67 D68 P70 T71 S115 S116 R118 R119 R142 L157 A158 V184 Q186 L223 G229 C230 S231
Gene Ontology
Molecular Function
GO:0004418 hydroxymethylbilane synthase activity
GO:0005515 protein binding
GO:0016740 transferase activity
Biological Process
GO:0006779 porphyrin-containing compound biosynthetic process
GO:0006782 protoporphyrinogen IX biosynthetic process
GO:0006783 heme biosynthetic process
GO:0006784 heme A biosynthetic process
GO:0006785 heme B biosynthetic process
GO:0018160 peptidyl-pyrromethane cofactor linkage
GO:0033014 tetrapyrrole biosynthetic process
GO:0048034 heme O biosynthetic process
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8pnd, PDBe:8pnd, PDBj:8pnd
PDBsum8pnd
PubMed37863644
UniProtP08397|HEM3_HUMAN Porphobilinogen deaminase (Gene Name=HMBS)

[Back to BioLiP]