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1J93

Crystal Structure and Substrate Binding Modeling of the Uroporphyrinogen-III Decarboxylase from Nicotiana tabacum: Implications for the Catalytic Mechanism

Functional Information from GO Data
ChainGOidnamespacecontents
A0004853molecular_functionuroporphyrinogen decarboxylase activity
A0005829cellular_componentcytosol
A0006778biological_processporphyrin-containing compound metabolic process
A0006779biological_processporphyrin-containing compound biosynthetic process
A0006782biological_processprotoporphyrinogen IX biosynthetic process
A0009507cellular_componentchloroplast
A0009536cellular_componentplastid
A0015995biological_processchlorophyll biosynthetic process
A0016829molecular_functionlyase activity
A0016831molecular_functioncarboxy-lyase activity
A0019353biological_processprotoporphyrinogen IX biosynthetic process from glutamate
Functional Information from PDB Data
site_idAC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE SO4 A 584
ChainResidue
APHE212
ASER214
ATRP215
ATYR251
ASER253
AHIS329

site_idAC2
Number of Residues3
DetailsBINDING SITE FOR RESIDUE SO4 A 585
ChainResidue
ALYS233
ALYS233
AHOH581

site_idAC3
Number of Residues5
DetailsBINDING SITE FOR RESIDUE SO4 A 586
ChainResidue
ASER166
ALYS167
AASN168
APHE169
AHOH538

site_idAC4
Number of Residues5
DetailsBINDING SITE FOR RESIDUE SO4 A 587
ChainResidue
AARG118
AARG118
AGLU119
AGLU119
ALYS189

site_idAC5
Number of Residues3
DetailsBINDING SITE FOR RESIDUE SO4 A 588
ChainResidue
AARG137
AHOH418
AHOH488

Functional Information from PROSITE/UniProt
site_idPS00906
Number of Residues10
DetailsUROD_1 Uroporphyrinogen decarboxylase signature 1. PVWLMRQAGR
ChainResidueDetails
APRO27-ARG36

site_idPS00907
Number of Residues17
DetailsUROD_2 Uroporphyrinogen decarboxylase signature 2. LGFVGaPFTLasYvv.EG
ChainResidueDetails
ALEU147-GLY163

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues7
DetailsBINDING: BINDING => ECO:0000250
ChainResidueDetails
AHIS329
AARG32
APHE51
ASER81
AASP82
ATYR159
ASER214

site_idSWS_FT_FI2
Number of Residues1
DetailsSITE: Transition state stabilizer => ECO:0000250
ChainResidueDetails
AASP82

218500

PDB entries from 2024-04-17

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