eF-site ID 1vps-D
PDB Code 1vps
Chain D

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Title POLYOMAVIRUS VP1 PENTAMER COMPLEXED WITH A DISIALYLATED HEXASACCHARIDE
Classification VIRAL PROTEIN
Compound POLYOMAVIRUS VP1 PENTAMER
Source Murine polyomavirus (strain P16 small-plaque) (MPyV) (COA1_POVMP)
Sequence D:  GGMEVLDLVTGPDSVTEIEAFLNPRMGQPPTPESLTEGGQ
YYGWSRGINLATSDTEDSPGNNTLPTWSMAKLQLPMLNED
LTCDTLQMWEAVSVKTEVVGSGSLLDVHGFNKPTDTVNTK
GISTPVEGSQYHVFAVGGEPLDLQGLVTDARTKYKEEGVV
TIKTITKKDMVNKDQVLNPISKAKLDKDGMYPVEIWHPDP
AKNENTRYFGNYTGGTTTPPVLQFTNTLTTVLLDENGVGP
LCKGEGLYLSCVDIMGWRVTRNYDVHHWRGLPRYFKITLR
KRWVK
Description (1)  POLYOMAVIRUS VP1 PENTAMER


Functional site

1) chain D
residue 85
type
ligand
sequence D
description BINDING SITE FOR RESIDUE SIA C 1
source : AC9

2) chain D
residue 72
type
ligand
sequence Y
description BINDING SITE FOR RESIDUE SIA D 1
source : BC4

3) chain D
residue 77
type
ligand
sequence R
description BINDING SITE FOR RESIDUE SIA D 1
source : BC4

4) chain D
residue 78
type
ligand
sequence G
description BINDING SITE FOR RESIDUE SIA D 1
source : BC4

5) chain D
residue 291
type
ligand
sequence T
description BINDING SITE FOR RESIDUE SIA D 1
source : BC4

6) chain D
residue 293
type
ligand
sequence N
description BINDING SITE FOR RESIDUE SIA D 1
source : BC4

7) chain D
residue 298
type
ligand
sequence H
description BINDING SITE FOR RESIDUE SIA D 1
source : BC4

8) chain D
residue 78
type
ligand
sequence G
description BINDING SITE FOR RESIDUE GAL D 2
source : BC5

9) chain D
residue 93
type
ligand
sequence N
description BINDING SITE FOR RESIDUE GAL D 2
source : BC5

10) chain D
residue 94
type
ligand
sequence T
description BINDING SITE FOR RESIDUE GAL D 2
source : BC5

11) chain D
residue 80
type
ligand
sequence N
description BINDING SITE FOR RESIDUE SIA D 4
source : BC7

12) chain D
residue 81
type
ligand
sequence L
description BINDING SITE FOR RESIDUE SIA D 4
source : BC7

13) chain D
residue 83
type
ligand
sequence T
description BINDING SITE FOR RESIDUE SIA D 4
source : BC7

14) chain D
residue 89
type
ligand
sequence S
description BINDING SITE FOR RESIDUE SIA D 4
source : BC7

15) chain D
residue 186
type
ligand
sequence K
description BINDING SITE FOR RESIDUE SIA D 4
source : BC7

16) chain D
residue 85
type binding
ligand SIA: O-SIALIC ACID
sequence D
description O-SIALIC ACID binding site
source pdb_hetatom : SIA_1vps_C_1

17) chain D
residue 72
type binding
ligand SIA: O-SIALIC ACID
sequence Y
description O-SIALIC ACID binding site
source pdb_hetatom : SIA_1vps_D_1

18) chain D
residue 77-78
type binding
ligand SIA: O-SIALIC ACID
sequence RG
description O-SIALIC ACID binding site
source pdb_hetatom : SIA_1vps_D_1

19) chain D
residue 289
type binding
ligand SIA: O-SIALIC ACID
sequence R
description O-SIALIC ACID binding site
source pdb_hetatom : SIA_1vps_D_1

20) chain D
residue 291
type binding
ligand SIA: O-SIALIC ACID
sequence T
description O-SIALIC ACID binding site
source pdb_hetatom : SIA_1vps_D_1

21) chain D
residue 293
type binding
ligand SIA: O-SIALIC ACID
sequence N
description O-SIALIC ACID binding site
source pdb_hetatom : SIA_1vps_D_1

22) chain D
residue 296
type binding
ligand SIA: O-SIALIC ACID
sequence V
description O-SIALIC ACID binding site
source pdb_hetatom : SIA_1vps_D_1

23) chain D
residue 298
type binding
ligand SIA: O-SIALIC ACID
sequence H
description O-SIALIC ACID binding site
source pdb_hetatom : SIA_1vps_D_1

24) chain D
residue 77-80
type binding
ligand GAL: BETA-D-GALACTOSE
sequence RGIN
description BETA-D-GALACTOSE binding site
source pdb_hetatom : GAL_1vps_D_2

25) chain D
residue 91
type binding
ligand GAL: BETA-D-GALACTOSE
sequence G
description BETA-D-GALACTOSE binding site
source pdb_hetatom : GAL_1vps_D_2

26) chain D
residue 93-94
type binding
ligand GAL: BETA-D-GALACTOSE
sequence NT
description BETA-D-GALACTOSE binding site
source pdb_hetatom : GAL_1vps_D_2

27) chain D
residue 80-83
type binding
ligand SIA: O-SIALIC ACID
sequence NLAT
description O-SIALIC ACID binding site
source pdb_hetatom : SIA_1vps_D_4

28) chain D
residue 87
type binding
ligand SIA: O-SIALIC ACID
sequence E
description O-SIALIC ACID binding site
source pdb_hetatom : SIA_1vps_D_4

29) chain D
residue 89
type binding
ligand SIA: O-SIALIC ACID
sequence S
description O-SIALIC ACID binding site
source pdb_hetatom : SIA_1vps_D_4

30) chain D
residue 186
type binding
ligand SIA: O-SIALIC ACID
sequence K
description O-SIALIC ACID binding site
source pdb_hetatom : SIA_1vps_D_4


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