Structure of PDB 2i9k Chain A

Receptor sequence

>2i9kA (length=327) Species: 726 (Haemophilus haemolyticus)

MIEIKDKQLTGLRFIDLFAGLGGFRLALESCGAECVYSNEWDKYAQEVYE
MNFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTL
FFDIARIVREKKPKVVFMENVKNAASHDNGNTLEVVKNTMNELDYSFHAK
VLNALDYGIPQKRERIYMICFRNDLNIQNFQFPKPFELNTFVKDLLLPDS
EVEHLVIDRKDLVMTNQEIEQTTPKTVRLGIVGKGGQGERIYSTRGIAIT
LSAYGGGIFAKTGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYK
QFGNSVVINVLQYIAYNIGSSLNFKPY

3D structure

• PDB: 2i9k Engineered Extrahelical Base Destabilization Enhances Sequence Discrimination of DNA Methyltransferase M.HhaI
• Chain: A
• Resolution: 2.65 Å

Enzymatic activity

• Enzyme Commision number: 2.1.1.37: DNA (cytosine-5-)-methyltransferase.

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	dna	A	Y44 I86 Q90 N123 K234 G236 Q237 G256 G257 S294 Q297	Y44 I86 Q90 N123 K234 G236 Q237 G256 G257 S294 Q297	PDBbind-CN: Kd=0.3nM
BS02	dna	A	F79 C81 Q82 S85 I86 S87 G88 R97 E119 V121 K162 R165 R228 Q237 R240 Y242 I249 T250 S252 A253 Y254 G255 G256 N304	F79 C81 Q82 S85 I86 S87 G88 R97 E119 V121 K162 R165 R228 Q237 R240 Y242 I249 T250 S252 A253 Y254 G255 G256 N304	PDBbind-CN: Kd=0.3nM
BS03	SAH	A	F18 A19 G20 L21 G23 E40 W41 D60 G78 N304 S305	F18 A19 G20 L21 G23 E40 W41 D60 G78 N304 S305

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003886 DNA (cytosine-5-)-methyltransferase activity
• GO:0008168 methyltransferase activity

Biological Process

• GO:0009307 DNA restriction-modification system
• GO:0032259 methylation

External links

• PDB: RCSB:2i9k, PDBe:2i9k, PDBj:2i9k
• PDBsum: 2i9k
• PubMed: 16919299
• UniProt: P05102|MTH1_HAEPH Type II methyltransferase M.HhaI (Gene Name=hhaIM)