Structure of PDB 2z8r Chain A

Receptor sequence

>2z8rA (length=583) Species: 1423 (Bacillus subtilis) [Search protein sequence]

AARQMEALNRGLVAVKTDGGIFVSWRFLGTENASVLFNVYRDGQKLNAAP
VKTTNYVDKNGSAGSTYTVRAVVNGTEQPASEKASVWAQPYHSVPLDKPA
GGTTPKGESYTYSANDASVGDVDGDGQYELILKWDPSNSKDNSQDGYTGD
VLIDAYKLDGTKLWRINLGKNIRAGAHYTQFMVYDLDGDGKAEVAMKTAD
GTKDGTGKVIGNANADYRNEQGRVLSGPEYLTVFQGSTGKELVTANFEPA
RGNVSDWGDSYGNRVDRFLAGIAYLDGQRPSLIMTRGYYAKTMLVAYNFR
DGKLSKLWTLDSSKSGNEAFAGQGNHNLSIADVDGDGKDEIIFGSMAVDH
DGKGMYSTGLGHGDALHTGDLDPGRPGLEVFQVHEDKNAKYGLSFRDAAT
GKILWGVYAGKDVGRGMAADIDPRYPGQEVWANGSLYSAKGVKIGSGVPS
STNFGIWWDGDLLREQLDSNRIDKWDYQNGVSKNMLTASGAAANNGTKAT
PTLQADLLGDWREEVVWRTEDSSALRIYTTTIPTEHRLYTLMHDPVYRLG
IAWQNIAYNQPPHTSFFLGDGMAEQPKPNMYTP

3D structure

PDB

2z8r A Novel Structural Fold in Polysaccharide Lyases: BACILLUS SUBTILIS FAMILY 11 RHAMNOGALACTURONAN LYASE YesW WITH AN EIGHT-BLADED -PROPELLER

Chain

Resolution

1.4 Å

3D
structure

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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)
BS01	CA	A	D158 D160 D162 Q164 E166	D121 D123 D125 Q127 E129
BS02	CA	A	D543 L545 D547 R549 E551	D506 L508 D510 R512 E514
BS03	CA	A	H363 H399 D401 E422	H326 H362 D364 E385
BS04	CA	A	D457 D459 Y462 G464 E466	D420 D422 Y425 G427 E429
BS05	CA	A	D496 D498 L500 E502	D459 D461 L463 E465
BS06	CA	A	D407 D409 R412 G414 E416	D370 D372 R375 G377 E379
BS07	CA	A	D222 D224 D226 K228 E230	D185 D187 D189 K191 E193
BS08	CA	A	D153 N592 I593 A594 N596	D116 N555 I556 A557 N559
BS09	CA	A	D371 D373 E377 D386 H387	D334 D336 E340 D349 H350
BS10	CA	A	D369 D371 D373 K375 E377	D332 D334 D336 K338 E340

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

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:2z8r, PDBe:2z8r, PDBj:2z8r
PDBsum	2z8r
PubMed	17947240
UniProt	O31526\|YESW_BACSU Rhamnogalacturonan endolyase YesW (Gene Name=yesW)

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