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1W8F
Asym. Unit
Info
Asym.Unit (189 KB)
Biol.Unit 1 (180 KB)
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(1)
Title
:
PSEUDOMONAS AERUGINOSA LECTIN II (PA-IIL) COMPLEXED WITH LACTO-N-NEO-FUCOPENTAOSE V(LNPFV)
Authors
:
S. Perret, C. Sabin, C. Dumon, M. Budova, C. Gautier, O. Galanina, S. Ilia, N. Bovin, M. Nicaise, M. Desmadril, N. Gilboa-Garber, M. Wimmerova, E. P. Mitchell, A. Imberty
Date
:
21 Sep 04 (Deposition) - 31 Mar 05 (Release) - 30 Jan 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.05
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Sugar Binding Protein, Pentassacharide, Cystic Firosis Infection Of Lungs
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Perret, C. Sabin, C. Dumon, M. Pokorna, C. Gautier, O. Galanina, S. Ilia, N. Bovin, M. Nicaise, M. Desmadril, N. Gilboa-Garber, M. Wimmerova, E. P. Mitchell, A. Imberty
Structural Basis For The Interaction Between Human Milk Oligosaccharides And The Bacterial Lectin Pa-Iil Of Pseudomonas Aeruginosa.
Biochem. J. V. 389 325 2005
(for further references see the
PDB file header
)
[
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Hetero Components
(7, 31)
Info
All Hetero Components
1a: BETA-D-GLUCOSE (BGCa)
1b: BETA-D-GLUCOSE (BGCb)
1c: BETA-D-GLUCOSE (BGCc)
1d: BETA-D-GLUCOSE (BGCd)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
2e: CALCIUM ION (CAe)
2f: CALCIUM ION (CAf)
2g: CALCIUM ION (CAg)
2h: CALCIUM ION (CAh)
3a: ALPHA-L-FUCOSE (FUCa)
3b: ALPHA-L-FUCOSE (FUCb)
3c: ALPHA-L-FUCOSE (FUCc)
3d: ALPHA-L-FUCOSE (FUCd)
4a: BETA-D-GALACTOSE (GALa)
4b: BETA-D-GALACTOSE (GALb)
4c: BETA-D-GALACTOSE (GALc)
4d: BETA-D-GALACTOSE (GALd)
4e: BETA-D-GALACTOSE (GALe)
4f: BETA-D-GALACTOSE (GALf)
5a: GLYCEROL (GOLa)
5b: GLYCEROL (GOLb)
6a: N-ACETYL-D-GLUCOSAMINE (NAGa)
6b: N-ACETYL-D-GLUCOSAMINE (NAGb)
6c: N-ACETYL-D-GLUCOSAMINE (NAGc)
7a: SULFATE ION (SO4a)
7b: SULFATE ION (SO4b)
7c: SULFATE ION (SO4c)
7d: SULFATE ION (SO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BGC
4
Ligand/Ion
BETA-D-GLUCOSE
2
CA
8
Ligand/Ion
CALCIUM ION
3
FUC
4
Ligand/Ion
ALPHA-L-FUCOSE
4
GAL
6
Ligand/Ion
BETA-D-GALACTOSE
5
GOL
2
Ligand/Ion
GLYCEROL
6
NAG
3
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
7
SO4
4
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(31, 31)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (not defined)
29: DC2 (not defined)
30: DC3 (not defined)
31: DC4 (not defined)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:21 , SER A:22 , SER A:23 , GLU A:95 , ASP A:96 , ASP A:99 , ASP A:101 , ASP A:104 , CA A:1116 , CA A:1117 , BGC A:1119 , GAL A:1120 , HOH A:2157 , GLY C:114
BINDING SITE FOR RESIDUE SO4 A1115
02
AC2
SOFTWARE
SER A:23 , ASP A:96 , FUC A:1118 , GAL A:1120 , HOH A:2152 , HOH A:2154 , HOH A:2155 , HOH A:2156
BINDING SITE FOR RESIDUE CA A1116
03
AC3
SOFTWARE
ASP A:99 , FUC A:1118 , BGC A:1119 , NAG A:1121 , HOH A:2157 , HOH A:2158 , HOH A:2159 , HOH A:2160 , HOH A:2161
BINDING SITE FOR RESIDUE CA A1117
04
AC4
SOFTWARE
GAL A:1120 , HOH A:2162 , HOH A:2163 , HOH A:2164 , HOH A:2166 , GLU D:35 , HOH D:2063
BINDING SITE FOR RESIDUE SO4 B1115
05
AC5
SOFTWARE
ASN B:21 , SER B:22 , SER B:23 , GLU B:95 , ASP B:96 , ASP B:99 , ASP B:101 , ASP B:104 , CA B:1116 , CA B:1117 , BGC B:1119 , GAL B:1120 , HOH B:2186 , GLY D:114
BINDING SITE FOR RESIDUE CA B1116
06
AC6
SOFTWARE
SER B:23 , ASP B:96 , FUC B:1118 , GAL B:1120 , HOH B:2177 , HOH B:2178 , HOH B:2179 , HOH B:2180 , HOH B:2181 , HOH B:2182 , HOH B:2183
BINDING SITE FOR RESIDUE CA B1117
07
AC7
SOFTWARE
THR B:98 , ASP B:99 , FUC B:1118 , BGC B:1119 , NAG B:1121 , GOL B:1123 , HOH B:2163 , HOH B:2184 , HOH B:2185 , HOH B:2186 , HOH B:2187
BINDING SITE FOR RESIDUE SO4 C1115
08
AC8
SOFTWARE
GAL B:1120 , GAL B:1122 , HOH B:2187 , HOH B:2188 , HOH B:2189 , HOH B:2191 , HOH B:2192 , HOH B:2195 , GAL D:1122
BINDING SITE FOR RESIDUE CA C1116
09
AC9
SOFTWARE
NAG B:1121 , HOH B:2031 , HOH B:2194 , HOH B:2195 , HOH B:2196 , HOH B:2197 , NAG D:1121 , GAL D:1122 , HOH D:2170
BINDING SITE FOR RESIDUE CA C1117
10
BC1
SOFTWARE
GLY A:114 , ASN C:21 , SER C:22 , SER C:23 , GLU C:95 , ASP C:96 , ASP C:99 , ASP C:101 , ASP C:104 , CA C:1116 , CA C:1117 , BGC C:1119 , GAL C:1120 , HOH C:2182
BINDING SITE FOR RESIDUE SO4 D1115
11
BC2
SOFTWARE
SER C:23 , ASP C:96 , FUC C:1118 , GAL C:1120 , HOH C:2177 , HOH C:2178
BINDING SITE FOR RESIDUE CA D1116
12
BC3
SOFTWARE
ASP C:99 , FUC C:1118 , BGC C:1119 , HOH C:2182 , HOH C:2183 , HOH C:2185 , HOH C:2187
BINDING SITE FOR RESIDUE CA D1117
13
BC4
SOFTWARE
GLY B:114 , ASN D:21 , SER D:22 , SER D:23 , GLU D:95 , ASP D:96 , ASP D:99 , ASP D:101 , ASP D:104 , CA D:1116 , CA D:1117 , BGC D:1119 , GAL D:1120 , HOH D:2157
BINDING SITE FOR RESIDUE GOL B1123
14
BC5
SOFTWARE
SER D:23 , ASP D:96 , FUC D:1118 , GAL D:1120 , HOH D:2149 , HOH D:2150 , HOH D:2151 , HOH D:2153 , HOH D:2154
BINDING SITE FOR RESIDUE GOL D1123
15
BC6
SOFTWARE
THR D:98 , ASP D:99 , FUC D:1118 , BGC D:1119 , NAG D:1121 , GOL D:1123 , HOH D:2155 , HOH D:2156 , HOH D:2157 , HOH D:2158 , HOH D:2161
BINDING SITE FOR RESIDUES FUC A1118 AND BGC A1119
16
BC7
SOFTWARE
GAL B:1122 , GAL D:1120 , GAL D:1122 , HOH D:2159 , HOH D:2160 , HOH D:2161 , HOH D:2162 , HOH D:2163 , HOH D:2166
BINDING SITE FOR RESIDUES BGC A1119 AND GAL A1120
17
BC8
SOFTWARE
NAG B:1121 , GAL B:1122 , HOH B:2198 , NAG D:1121 , HOH D:2023 , HOH D:2144 , HOH D:2165 , HOH D:2166 , HOH D:2167
BINDING SITE FOR RESIDUES GAL A1120 AND NAG A1121
18
BC9
SOFTWARE
SER A:44 , THR A:45 , ASN A:46 , HOH A:2076 , HOH A:2150 , HOH A:2151 , SER D:44 , ASN D:46 , ALA D:48 , HOH D:2146
BINDING SITE FOR RESIDUES FUC B1118 AND BGC B1119
19
CC1
SOFTWARE
GLU A:95 , ASP A:99 , ASP A:101 , ASP A:104 , FUC A:1118
BINDING SITE FOR RESIDUES BGC B1119 AND GAL B1120
20
CC2
SOFTWARE
ASN A:21 , ASP A:101 , ASN A:103 , ASP A:104 , FUC A:1118 , GLY C:114
BINDING SITE FOR RESIDUES GAL B1120 AND NAG B1121
21
CC3
SOFTWARE
SER B:44 , THR B:45 , ASN B:46 , HOH B:2173 , HOH B:2175 , HOH B:2176
BINDING SITE FOR RESIDUES NAG B1121 AND GAL B1122
22
CC4
SOFTWARE
GLU B:95 , ASP B:99 , ASP B:101 , ASP B:104 , FUC B:1118
BINDING SITE FOR RESIDUES FUC C1118 AND BGC C1119
23
CC5
SOFTWARE
ASN B:21 , ASP B:101 , ASN B:103 , ASP B:104 , FUC B:1118 , GLY D:114
BINDING SITE FOR RESIDUES BGC C1119 AND GAL C1120
24
CC6
SOFTWARE
SER C:44 , THR C:45 , ASN C:46 , HOH C:2173 , HOH C:2174
BINDING SITE FOR RESIDUES FUC D1118 AND BGC D1119
25
CC7
SOFTWARE
GLU C:95 , ASP C:99 , ASP C:101 , ASP C:104 , FUC C:1118
BINDING SITE FOR RESIDUES BGC D1119 AND GAL D1120
26
CC8
SOFTWARE
GLY A:114 , ASN C:21 , ASP C:101 , ASN C:103 , ASP C:104 , FUC C:1118
BINDING SITE FOR RESIDUES GAL D1120 AND NAG D1121
27
CC9
SOFTWARE
HOH B:2196 , ARG C:13 , GLN D:43 , THR D:45 , HOH D:2145 , HOH D:2146 , HOH D:2147 , HOH D:2148
BINDING SITE FOR RESIDUES NAG D1121 AND GAL D1122
28
DC1
not defined
GLU D:95 , ASP D:99 , ASP D:101 , ASP D:104 , FUC D:1118
29
DC2
not defined
GLY B:114 , ASN D:21 , ASP D:101 , ASN D:103 , ASP D:104 , FUC D:1118
30
DC3
not defined
ASP B:99 , GAL B:1120 , HOH B:2167 , HOH B:2198 , HOH B:2200 , HOH B:2201 , HOH B:2202 , GLY D:114
31
DC4
not defined
GLY B:114 , ASP D:99 , GAL D:1120 , HOH D:2139 , HOH D:2169 , HOH D:2170 , HOH D:2171
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1w8fa_ (A:)
1b: SCOP_d1w8fb_ (B:)
1c: SCOP_d1w8fc_ (C:)
1d: SCOP_d1w8fd_ (D:)
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(
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)
(
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Calcium-mediated lectin
(32)
Superfamily
:
Calcium-mediated lectin
(32)
Family
:
Calcium-mediated lectin
(25)
Protein domain
:
automated matches
(14)
Pseudomonas aeruginosa [TaxId: 287]
(12)
1a
d1w8fa_
A:
1b
d1w8fb_
B:
1c
d1w8fc_
C:
1d
d1w8fd_
D:
[
close SCOP info
]
CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1w8fA00 (A:1-114)
1b: CATH_1w8fB00 (B:1-114)
1c: CATH_1w8fC00 (C:1-114)
1d: CATH_1w8fD00 (D:1-114)
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(
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(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
Calcium-mediated lectin
(24)
Pseudomonas aeruginosa. Organism_taxid: 287.
(9)
1a
1w8fA00
A:1-114
1b
1w8fB00
B:1-114
1c
1w8fC00
C:1-114
1d
1w8fD00
D:1-114
[
close CATH info
]
Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_PA_IIL_1w8fD01 (D:6-113)
1b: PFAM_PA_IIL_1w8fD02 (D:6-113)
1c: PFAM_PA_IIL_1w8fD03 (D:6-113)
1d: PFAM_PA_IIL_1w8fD04 (D:6-113)
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Clans
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(
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Families
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(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: PA-IIL]
(21)
Family
:
PA-IIL
(21)
Pseudomonas aeruginosa
(17)
1a
PA-IIL-1w8fD01
D:6-113
1b
PA-IIL-1w8fD02
D:6-113
1c
PA-IIL-1w8fD03
D:6-113
1d
PA-IIL-1w8fD04
D:6-113
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