Structure of PDB 5req Chain C

Receptor sequence

>5reqC (length=725) Species: 1752 (Propionibacterium freudenreichii subsp. shermanii)

LPRFDSVDLGNAPVPADAARRFEELAAKAGTGEAWETAEQIPVGTLFNED
VYKDMDWLDTYAGIPPFVHGPYATMYAFRPWTIRQFAGFSTAKESNAFYR
RNLAAGQKGLSVAFDLPTHRGYDSDNPRVAGDVGMAGVAIDSIYDMRELF
AGIPLDQMSVSMTMNGAVLPILALYVVTAEEQGVKPEQLAGTIQNDILKE
FMVRNTYIYPPQPSMRIISEIFAYTSANMPKWNSISISGYHMQEAGATAD
IEMAYTLADGVDYIRAGESVGLNVDQFAPRLSFFWGIGMNFFMEVAKLRA
ARMLWAKLVHQFGPKNPKSMSLRTHSQTSGWSLTAQDVYNNVVRTCIEAM
AATQGHTQSLHTNSLDEAIALPTDFSARIARNTQLFLQQESGTTRVIDPW
SGSAYVEELTWDLARKAWGHIQEVEKVGGMAKAIEKGIPKMRIEEAAART
QARIDSGRQPLIGVNKYRLEHEPPLDVLKVDNSTVLAEQKAKLVKLRAER
DPEKVKAALDKITWAAGNPDDKDPDRNLLKLCIDAGRAMATVGEMSDALE
KVFGRYTAQIRTISGVYSKEVKNTPEVEEARELVEEFEQAEGRRPRILLA
KMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQAVEADVHVVG
VSSLAGGHLTLVPALRKELDKLGRPDILITVGGVIPEQDFDELRKDGAVE
IYTPGTVIPESAISLVKKLRASLDA

3D structure

• PDB: 5req Stabilization of radical intermediates by an active-site tyrosine residue in methylmalonyl-CoA mutase.
• Chain: C
• Resolution: 2.2 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): F89 Y243 H244 K604 D608 H610
• Catalytic site (residue number reindexed from 1): F86 Y240 H241 K601 D605 H607
• Enzyme Commision number: 5.4.99.2: methylmalonyl-CoA mutase.

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	SCD	C	Y75 T77 M78 F81 R82 T85 R87 F89 S164 T166 T195 R207 N236 Y243 H244 R283 S285 F287 H328 Q330 Q361 S362	Y72 T74 M75 F78 R79 T82 R84 F86 S161 T163 T192 R204 N233 Y240 H241 R280 S282 F284 H325 Q327 Q358 S359
BS02	MCD	C	Y75 T77 M78 F81 R82 T85 R87 F89 S114 S164 T166 T195 Q197 R207 N236 H244 R283 S285 F287 H328 Q361 S362	Y72 T74 M75 F78 R79 T82 R84 F86 S111 S161 T163 T192 Q194 R204 N233 H241 R280 S282 F284 H325 Q358 S359
BS03	B12	C	L119 A139 R207 H244 E247 G333 W334 E370 A371 A373 G609 H610 D611 R612 G613 I617 S655 L657 G685 G686 V687 Y705 T706 T709	L116 A136 R204 H241 E244 G330 W331 E367 A368 A370 G606 H607 D608 R609 G610 I614 S652 L654 G682 G683 V684 Y702 T703 T706

Gene Ontology

Molecular Function

• GO:0003824 catalytic activity
• GO:0004494 methylmalonyl-CoA mutase activity
• GO:0005515 protein binding
• GO:0016853 isomerase activity
• GO:0016866 intramolecular transferase activity
• GO:0031419 cobalamin binding
• GO:0046872 metal ion binding

Biological Process

• GO:0019678 propionate metabolic process, methylmalonyl pathway

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:5req, PDBe:5req, PDBj:5req
• PDBsum: 5req
• PubMed: 9772164
• UniProt: P11653|MUTB_PROFR Methylmalonyl-CoA mutase large subunit (Gene Name=mutB)