Structure of PDB 6sh9 Chain B Binding Site BS01

Receptor Information
>6sh9 Chain B (length=1339) Species: 565042 (Bifidobacterium longum subsp. longum JCM 1217) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SMVACETLKTKKMEVQIKKNFPSVLQYTMTDGKVMYGQSKDVRTVEINGT
NIELGDDDVTFKKVSDTEATYTLKVKDEAKKIDAVITVQITVKANQLHLN
VTKIKNNLSEGIPEGNGVEENAIQTLSFPNQSLVSVRSSQENAQFTGARM
SSNTQKPGDTNFAVTEDTNVTDSDYTYGFISGAGLSAGLWSNSEHDGTYV
AAPVRGGSQNTRVYATTQQTGDATSLGLASAPWYYHRTVTDSKGKKYTVA
ETALPQMAVAIAGDENEDGAVNWQDGAIAYRDIMNNPYKSEEVPELVAWR
IAMNFGSQAQNPFLTTLDNVKKVALNTDGLGQSVLLKGYGNEGHDSGHPD
YGDIGQRLGGADDMNTMMEEGSKYGARFGVHVNASEMYPEAKAFSEDMVR
RNSAGGLSYGWNWLDQGVGIDGIYDLASGSRVSRFADLSKEVGDNMDFIY
LDVWGNLTSSGSEDSWETRKMSKMINDNGWRMTTEWGSGNEYDSTFQHWA
ADLTYGGYTSKGENSEVMRFLRNHQKDSWVGDYPQYGGAANAPLLGGYNM
KDFEGWQGRNDYAAYIKNLYTHDVSTKFIQHFKVTRWVNNPLLTADNGNA
AAVSDPNTNNGNEQITLKDSNGNVVVVSRGSNDTSSAAYRQRTITFNGVK
VASGVVSAGDGSATGDESYLLPWMWDSFTGKLVKDSEQKLYHWNTKGGTT
TWTLPDSWKNLSSVKVYQLTDQGKTNEQTVAVSGGKVTLTADAETPYVVY
KGEAKQIQVNWSEGMHVVDAGFNGGSNTLTDNWTVSGSGKAEVEGDNNAM
LRLTGKVDVSQRLTDLKAGQKYALYVGVDNRSTGDASVTVTSGGKVLATN
STGKSIAKNYIKAYGHNTNSNTENGSSYFQNMYVFFTAPENGDATVTLSH
KSTDGAHTYFDDVRIVENQYSGITYEKDGTLKSLTNGFENNAQGIWPFVV
SGSEGVEDNRIHLSELHAPFTRAGWDVKKMDDVLDGTWSVKVNGLTQKGT
LVYQTIPQNVKFEAGAKYKVSFDYQSGSDDIYAIAVGQGEYSAGSVKLTN
LKKALGETGKAEFELTGGVNGDSWFGIYSTATAPDLQGSTGNAQDFGGYK
DFVLDNLKIERIESQTRTKAEAQDKVKEIRGKYDSKRAELSDAAWQQYQD
TLVKARVLINKNGATAEDFTKAYDILVALDEYMKLKDLDRKLLEAARAGQ
DDEVRILLANGADVNTADETGFTPLHLAAWEGHLGIVEVLLKNGADVNAN
DERGHTPLHLAAYTGHLEIVEVLLKNGAGVNATDVIGTAPLHLAAMWGHL
EIVEVLLKNGADVNIQDCFGKTAFDISIDNGNEDLAEIL
Ligand information
>6sh9 Chain E (length=10) Species: 11676 (Human immunodeficiency virus 1) [Search peptide sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
IHIGPGRAFY
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6sh9 Structural analysis of biological targets by host:guest crystal lattice engineering.
Resolution2.4 Å
Binding residue
(original residue number in PDB)		F1559 W1567 R1590 H1592 Y1600 D1621 T1625 M1633
Binding residue
(residue number reindexed from 1)		F1222 W1230 R1253 H1255 Y1263 D1284 T1288 M1296
Enzymatic activity
Enzyme Commision number 3.2.1.97: endo-alpha-N-acetylgalactosaminidase.
Gene Ontology
Molecular Function
GO:0030246 carbohydrate binding
GO:0033926 endo-alpha-N-acetylgalactosaminidase activity

View graph for
Molecular Function
External links
PDB RCSB:6sh9, PDBe:6sh9, PDBj:6sh9
PDBsum6sh9
PubMed31645583
UniProtQ3T552

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