Structure of PDB 4q3d Chain B

Receptor sequence

>4q3dB (length=258) Species: 269797 (Methanosarcina barkeri str. Fusaro)

ALLTPDDLININMQLQKADSAVQEVTGLDIKGICKALYGTFSSSEKVGIV
PVTSGNGIIGNFSASLHAITQYFGFDSFVTDMPDVSGYYEAVQNGAEIIL
MADDRTFLAHNLKNGKMANNQPCTGIIYAEIASRYLKADSKDVLVVGLGK
VGFPGAEHLVQKDFRVYGYDADETLLERATSNLGIIPFDPANPKKFSIIF
EATPCANTIPEAVLSENCVLSTPGIPCAISEELRDKYEVQLIAEPLGIGT
ASMLYSVL

3D structure

• PDB: 4q3d The Formation of Pyrroline and Tetrahydropyridine Rings in Amino Acids Catalyzed by Pyrrolysine Synthase (PylD).
• Chain: B
• Resolution: 2.2 Å

Enzymatic activity

• Enzyme Commision number: 1.4.1.-

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	NAD	B	N121 T125 G150 K151 V152 Y170 D171 A172 A203 T204 P205 P224 P246	N120 T124 G149 K150 V151 Y169 D170 A171 A202 T203 P204 P223 P245
BS02	MG	B	Y129 E245 L247 I249	Y128 E244 L246 I248
BS03	2YH	B	L3 V53 G58 I59 I60 F63 A103 D104 D105 R106 Q122	L2 V52 G57 I58 I59 F62 A102 D103 D104 R105 Q121

Gene Ontology

Molecular Function

• GO:0016491 oxidoreductase activity

Biological Process

• GO:0008652 amino acid biosynthetic process

External links

• PDB: RCSB:4q3d, PDBe:4q3d, PDBj:4q3d
• PDBsum: 4q3d
• PubMed: 24916332
• UniProt: Q46E80|PYLD_METBF Pyrrolysine synthase (Gene Name=pylD)