Structure of PDB 1byd Chain A Binding Site BS01

Receptor Information
>1byd Chain A (length=490) Species: 3847 (Glycine max) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SNMLLNYVPVYVMLPLGVVNVDNVFEDPDGLKEQLLQLRAAGVDGVMVDV
WWGIIELKGPKQYDWRAYRSLFQLVQECGLTLQAIMSFHQCGGNVGDIVN
IPIPQWVLDIGESNHDIFYTNRSGTRNKEYLTVGVDNEPIFHGRTAIEIY
SDYMKSFRENMSDFLESGLIIDIEVGLGPAGELRYPSYPQSQGWEFPRIG
EFQCYDKYLKADFKAAVARAGHPEWELPDDAGKYNDVPESTGFFKSNGTY
VTEKGKFFLTWYSNKLLNHGDQILDEANKAFLGCKVKLAIKVSGIHWWYK
VENHAAELTAGYYNLNDRDGYRPIARMLSRHHAILNFTCLEMRDSEQPSD
AKSGPQELVQQVLSGGWREDIRVAGENALPRYDATAYNQIILNAKPQGVN
NNGPPKLSMFGVTYLRLSDDLLQKSNFNIFKKFVLKMHADQDYCANPQKY
NHAITPLKPSAPKIPIEVLLEATKPTLPFPWLPETDMKVD
Ligand information
Ligand IDRR7
InChIInChI=1S/C6H12O5/c7-2-4-6(10)3(8)1-5(9)11-4/h3-10H,1-2H2/t3-,4-,5-,6+/m1/s1
InChIKeyPMMURAAUARKVCB-KAZBKCHUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6C1C(C(C(OC1O)CO)O)O
CACTVS 3.385OC[C@H]1O[C@@H](O)C[C@@H](O)[C@@H]1O
CACTVS 3.385OC[CH]1O[CH](O)C[CH](O)[CH]1O
OpenEye OEToolkits 1.7.6C1[C@H]([C@@H]([C@H](O[C@H]1O)CO)O)O
ACDLabs 12.01C1(CC(O)C(C(CO)O1)O)O
FormulaC6 H12 O5
Name2-deoxy-beta-D-arabino-hexopyranose;
2-deoxy-alpha-D-glucopyranose
ChEMBLCHEMBL2208394
DrugBank
ZINCZINC000003860329
PDB chain1byd Chain B Residue 1 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
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]
PDB1byd Crystal structures of soybean beta-amylase reacted with beta-maltose and maltal: active site components and their apparent roles in catalysis.
Resolution2.2 Å
Binding residue
(original residue number in PDB)		T342 E380 N381 A382 V493 D494
Binding residue
(residue number reindexed from 1)		T338 E376 N377 A378 V489 D490
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) D101 E186 T342 E380 L383
Catalytic site (residue number reindexed from 1) D97 E182 T338 E376 L379
Enzyme Commision number 3.2.1.2: beta-amylase.
Gene Ontology
Molecular Function
GO:0016161 beta-amylase activity
GO:0016798 hydrolase activity, acting on glycosyl bonds
Biological Process
GO:0000272 polysaccharide catabolic process

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:1byd, PDBe:1byd, PDBj:1byd
PDBsum1byd
PubMed8011643
UniProtP10538|AMYB_SOYBN Beta-amylase (Gene Name=BMY1)

[Back to BioLiP]