Structure of PDB 5cd1 Chain E Binding Site BS01

Receptor Information
>5cd1 Chain E (length=367) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
HRIRDGDFVVLKREDVFKAVQVQRRKKVTFEKQWFYLDNVIGHSYGTAFE
VTSGGSLQPKKKEAGTDNRNIVDDGKSQKLTQDDIKALKDKGIKGEEIVQ
QLIENSTTFRDKTEFAQDKYIKKKKKKYEAIITVVKPSTRILSIMYYARE
PGKINHMRYDTLAQMLTLGNIRAGNKMIVMETCAGLVLGAMMERMGGFGS
IIQLYPGGGPVRAATACFGFPKSFLSGLYEFPLNKVDSLLHGTFSYIQEK
QRRQEEQRKRHLEAAALLSERNADGLIVASRFHPTPLLLSLLDFVAPSRP
FVVYCQYKEPLLECYTKLRERGGVINLRLSETWLRNYQVLPDRSHPKLLM
SGGGGYLLSGFTVAMDN
Ligand information
>5cd1 Chain M (length=74) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
ggcccggauagcucagucgguagagcaucagacuuaaucugaggguccag
gguucaagucccuguucgggcgcc
.<<<<<<...<<<<........>>>>.<<<<<.....>>>>>.....<<<
<<.......>>>>>.>>>>>>...
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB5cd1 Crystal Structure of the Human tRNA m(1)A58 Methyltransferase-tRNA3(Lys) Complex: Refolding of Substrate tRNA Allows Access to the Methylation Target.
Resolution3.6 Å
Binding residue
(original residue number in PDB)		V33 N94 D99 S103 Q104 Q108 T134 K138 F141 K145 Y146 K149 K150 K153 Y154 R175 E176 K179 H182 A239 R377 H441
Binding residue
(residue number reindexed from 1)		V16 N68 D73 S77 Q78 Q82 T108 K112 F115 K119 Y120 K123 K124 K127 Y128 R149 E150 K153 H156 A213 R281 H345
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0005515 protein binding
Biological Process
GO:0006397 mRNA processing
GO:0008033 tRNA processing
GO:0030488 tRNA methylation
Cellular Component
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0031515 tRNA (m1A) methyltransferase complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5cd1, PDBe:5cd1, PDBj:5cd1
PDBsum5cd1
PubMed26470919
UniProtQ9UJA5|TRM6_HUMAN tRNA (adenine(58)-N(1))-methyltransferase non-catalytic subunit TRM6 (Gene Name=TRMT6)

[Back to BioLiP]