Structure of PDB 5tma Chain B

Receptor sequence
>5tmaB (length=561) Species: 542 (Zymomonas mobilis) [Search protein sequence]
MDYTVGTYLAERLVQIGLKHHFAVAGDYNLVLLDNLLDNKNMEQVYCCNE
LNCGFSAEGYARAKGAAAAVVTYSVGALSAFDAIGGAYAENLPVILISGA
PNNNDHAAAHVLHHALGKTDYHYQLEMAKNITAAAEAIYTPEEAPAKIDH
VIKTALREKKPVYLEIACNIASMPCAAPGPASALFNDEASDEASLNAAVE
ETLKFIENRDKVAVLVGSKLRAAAAEEAAVKFADALGGAVATMAAAKSFF
PEENPHYIGTSWGEVSYPGVEKTMKEADAVIALAPVFNDYSTTGWTDIPD
PKKLVLAEPRSVVVNGIRFPSVHLKDYLTRLAEKVSKKTGALDFFKSLNA
GELKKADPADPSAPLVNAEIARQIEDLLTPNTTVIAETGDSWFNAQRMKL
PNGARVEYEMQWGHIGWSVPAAFGYAVGAPERRNILMVGDGSFQLTAQEV
AQMVRLKLPVIIFLINNYGYTIEVMIHDGPYNNIKNWDYAALMEVFNGNS
GAGKGLKAKTAAELEEAIKVALDNTDGPTLIECFIAREDCTEELVKWGER
VAAANSRKPVN
3D structure
PDB5tma An iterative computational design approach to increase the thermal endurance of a mesophilic enzyme.
ChainB
Resolution1.67 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) D27 Y28 E50 Y73 H113 H114 L116 G117 C168 Y290 T388 G413 D440 N467 G469 I472 E473
Catalytic site (residue number reindexed from 1) D27 Y28 E50 Y73 H113 H114 L116 G117 C168 Y290 T388 G413 D440 N467 G469 I472 E473
Enzyme Commision number 4.1.1.1: pyruvate decarboxylase.
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 TPP B D390 G413 H414 I415 G439 G441 S442 N467 G469 Y470 T471 I472 E473 D390 G413 H414 I415 G439 G441 S442 N467 G469 Y470 T471 I472 E473
BS02 MG B D440 N467 G469 D440 N467 G469
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0003824 catalytic activity
GO:0004737 pyruvate decarboxylase activity
GO:0016831 carboxy-lyase activity
GO:0030976 thiamine pyrophosphate binding
GO:0046872 metal ion binding
Biological Process
GO:0000949 aromatic amino acid family catabolic process to alcohol via Ehrlich pathway
GO:0019752 carboxylic acid metabolic process
Cellular Component
GO:0005829 cytosol

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Molecular Function
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Cellular Component
External links
PDB RCSB:5tma, PDBe:5tma, PDBj:5tma
PDBsum5tma
PubMed30002729
UniProtP06672|PDC_ZYMMO Pyruvate decarboxylase (Gene Name=pdc)

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