Structure of PDB 2zux Chain B

Receptor sequence

>2zuxB (length=582) Species: 1423 (Bacillus subtilis)

ARQMEALNRGLVAVKTDGGIFVSWRFLGTENASVLFNVYRDGQKLNAAPV
KTTNYVDKNGSAGSTYTVRAVVNGTEQPASEKASVWAQPYHSVPLDKPAG
GTTPKGESYTYSANDASVGDVDGDGQYELILKWDPSNSKDNSQDGYTGDV
LIDAYKLDGTKLWRINLGKNIRAGAHYTQFMVYDLDGDGKAEVAMKTADG
TKDGTGKVIGNANADYRNEQGRVLSGPEYLTVFQGSTGKELVTANFEPAR
GNVSDWGDSYGNRVDRFLAGIAYLDGQRPSLIMTRGYYAKTMLVAYNFRD
GKLSKLWTLDSSKSGNEAFAGQGNHNLSIADVDGDGKDEIIFGSMAVDHD
GKGMYSTGLGHGDALHTGDLDPGRPGLEVFQVHEDKNAKYGLSFRDAATG
KILWGVYAGKDVGRGMAADIDPRYPGQEVWANGSLYSAKGVKIGSGVPSS
TNFGIWWDGDLLREQLDSNRIDKWDYQNGVSKNMLTASGAAANNGTKATP
TLQADLLGDWREEVVWRTEDSSALRIYTTTIPTEHRLYTLMHDPVYRLGI
AWQNIAYNQPPHTSFFLGDGMAEQPKPNMYTP

3D structure

• PDB: 2zux Structural determinants responsible for substrate recognition and mode of action in family 11 polysaccharide lyases
• Chain: B
• Resolution: 1.32 Å

Enzymatic activity

• Enzyme Commision number: 4.2.2.23: rhamnogalacturonan endolyase.

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	CA	B	H363 H399 D401 E422	H325 H361 D363 E384
BS02	CA	B	D153 N592 A594 N596	D115 N554 A556 N558
BS03	CA	B	D457 D459 Y462 G464 E466	D419 D421 Y424 G426 E428
BS04	CA	B	D407 D409 R412 G414 E416	D369 D371 R374 G376 E378
BS05	CA	B	D496 D498 L500 E502	D458 D460 L462 E464
BS06	CA	B	D543 L545 D547 R549 E551	D505 L507 D509 R511 E513
BS07	CA	B	D158 D160 D162 Q164 E166	D120 D122 D124 Q126 E128
BS08	CA	B	D222 D224 D226 K228 E230	D184 D186 D188 K190 E192
BS09	CA	B	D369 D371 D373 K375 E377	D331 D333 D335 K337 E339
BS10	CA	B	D371 D373 E377 D386 H387	D333 D335 E339 D348 H349
BS11	RAM	B	N532 G533 T534 K535 Y595	N494 G495 T496 K497 Y557
BS12	RAM	B	D172 N531 N532 G533	D134 N493 N494 G495
BS13	RAM	B	P142 D187 R255	P104 D149 R217

Gene Ontology

Molecular Function

• GO:0016829 lyase activity
• GO:0046872 metal ion binding
• GO:0102210 rhamnogalacturonan endolyase activity

Biological Process

• GO:0071555 cell wall organization

Cellular Component

• GO:0005576 extracellular region

External links

• PDB: RCSB:2zux, PDBe:2zux, PDBj:2zux
• PDBsum: 2zux
• PubMed: 19193638
• UniProt: O31526|YESW_BACSU Rhamnogalacturonan endolyase YesW (Gene Name=yesW)