Structure of PDB 2wwd Chain A

Receptor sequence

>2wwdA (length=432) Species: 171101 (Streptococcus pneumoniae R6)

NAAAYWDGDYYVKDDGSKAQSEWIFDNYYKAWFYINSDGRYSQNEWHGNY
YLKSGGYMAQNEWIYDSNYKSWFYLKSDGAYAHQEWQLIGNKWYYFKKWG
YMAKSQWQGSYFLNGQGAMIQNEWLYDPAYSAYFYLKSDGTYANQEWQKV
GGKWYYFKKWGYMARNEWQGNYYLTGSGAMATDEVIMDGARYIFAASGEL
KEKKDLNVGWVHRDGKRYFFNNREEQVGTEHAKKIIDISEHNGRINDWKK
VIDENEVDGVIVRLGYSGKEDKELAHNIKELNRLGIPYGVYLYTYAENET
DAENDAKQTIELIKKYNMNLSYPIYYDVENWEYVNKSKRAPSDTDTWVKI
INKYMDTMKQAGYQNVYVYSYRSLLQTRLKHPDILKHVNWVAAYTNALEW
ENPYYSGEKGWQYTSSEYMKGIQGRVDVSVWY

3D structure

• PDB: 2wwd Insights Into Pneumococcal Fratricide from the Crystal Structures of the Modular Killing Factor Lytc.
• Chain: A
• Resolution: 2.25 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): Y117
• Catalytic site (residue number reindexed from 1): Y81
• Enzyme Commision number: 3.2.1.17: lysozyme.

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	MUB	A	Y407 R408 S409 Y430	Y371 R372 S373 Y394
BS02	CHT	A	W42 Y65 G91 Y93	W6 Y29 G55 Y57
BS03	CHT	A	W59 W68 Y86 M94	W23 W32 Y50 M58
BS04	CHT	A	W82 G84 F109 Y117 W135	W46 G48 F73 Y81 W99
BS05	CHT	A	W99 W108 Y130 M138 Q152	W63 W72 Y94 M102 Q116
BS06	CHT	A	W122 W129 Y147	W86 W93 Y111
BS07	CHT	A	W143 G145 Y166 F170 Y178 W196	W107 G109 Y130 F134 Y142 W160
BS08	CHT	A	W160 Y169	W124 Y133

Gene Ontology

Molecular Function

• GO:0003796 lysozyme activity
• GO:0016798 hydrolase activity, acting on glycosyl bonds

Biological Process

• GO:0009253 peptidoglycan catabolic process
• GO:0016052 carbohydrate catabolic process
• GO:0016998 cell wall macromolecule catabolic process

External links

• PDB: RCSB:2wwd, PDBe:2wwd, PDBj:2wwd
• PDBsum: 2wwd
• PubMed: 20400948
• UniProt: Q8DP07