Structure of PDB 3t88 Chain D

Receptor sequence
>3t88D (length=281) Species: 562 (Escherichia coli) [Search protein sequence]
DEAMLYAPVEWHDCSEGFEDIRYEKSTDGIAKITINRPQVRNAFRPLTVK
EMIQALADARYDDNIGVIILTGAGDKAFCSGGDQKVRGDYGGYKDDSGVH
HLNVLDFQRQIRTCPKPVVAMVAGYSIGGGHVLHMMCDLTIAADNAIFGQ
TGPKVGSFDGGWGASYMARIVGQKKAREIWFLCRQYDAKQALDMGLVNTV
VPLADLEKETVRWCREMLQNSPMALRCLKAALNADCDGQAGLQELAGNAT
MLFYMTEEGQEGRNAFNQKRQPDFSKFKRNP
3D structure
PDB3t88 Mechanism of the Intramolecular Claisen Condensation Reaction Catalyzed by MenB, a Crotonase Superfamily Member.
ChainD
Resolution1.998 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) G86 R91 Y97 H105 L109 G133 V136 G156 S161 D163 G164 A250 Y258
Catalytic site (residue number reindexed from 1) G82 R87 Y93 H101 L105 G129 V132 G152 S157 D159 G160 A246 Y254
Enzyme Commision number 4.1.3.36: 1,4-dihydroxy-2-naphthoyl-CoA 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 S0N D Y258 F270 K273 Y254 F266 K269
BS02 S0N D Q43 V44 R45 A47 S84 G85 G86 D87 Q88 K89 Y97 V108 L109 Y129 G133 T155 F162 D163 Q39 V40 R41 A43 S80 G81 G82 D83 Q84 K85 Y93 V104 L105 Y125 G129 T151 F158 D159
Gene Ontology
Molecular Function
GO:0003824 catalytic activity
GO:0005515 protein binding
GO:0008935 1,4-dihydroxy-2-naphthoyl-CoA synthase activity
GO:0016829 lyase activity
GO:0071890 bicarbonate binding
Biological Process
GO:0009234 menaquinone biosynthetic process
Cellular Component
GO:0005829 cytosol

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Cellular Component
External links
PDB RCSB:3t88, PDBe:3t88, PDBj:3t88
PDBsum3t88
PubMed21830810
UniProtP0ABU0|MENB_ECOLI 1,4-dihydroxy-2-naphthoyl-CoA synthase (Gene Name=menB)

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