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Asym. Unit
Info
Asym.Unit (93 KB)
Biol.Unit 1 (86 KB)
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(1)
Title
:
COMPLEX OF 3'-NEUAC-LEWIS-X WITH A SELECTIN-LIKE MUTANT OF MANNOSE-BINDING PROTEIN A
Authors
:
K. K. -S. Ng, W. I. Weis
Date
:
07 Nov 96 (Deposition) - 12 Feb 97 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : 1,2,3
Biol. Unit 1: 1,2,3 (1x)
Keywords
:
Lectin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. K. Ng, W. I. Weis
Structure Of A Selectin-Like Mutant Of Mannose-Binding Protein Complexed With Sialylated And Sulfated Lewis(X) Oligosaccharides.
Biochemistry V. 36 979 1997
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(7, 25)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
1i: CALCIUM ION (CAi)
1j: CALCIUM ION (CAj)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
3a: ALPHA-L-FUCOSE (FUCa)
3b: ALPHA-L-FUCOSE (FUCb)
3c: ALPHA-L-FUCOSE (FUCc)
4a: BETA-D-GALACTOSE (GALa)
4b: BETA-D-GALACTOSE (GALb)
4c: BETA-D-GALACTOSE (GALc)
5a: BETA-METHYL-N-ACETYL-D-GLUCOSAMINE (MAGa)
5b: BETA-METHYL-N-ACETYL-D-GLUCOSAMINE (MAGb)
6a: N-ACETYL-D-GLUCOSAMINE (NAGa)
7a: O-SIALIC ACID (SIAa)
7b: O-SIALIC ACID (SIAb)
7c: O-SIALIC ACID (SIAc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
10
Ligand/Ion
CALCIUM ION
2
CL
3
Ligand/Ion
CHLORIDE ION
3
FUC
3
Ligand/Ion
ALPHA-L-FUCOSE
4
GAL
3
Ligand/Ion
BETA-D-GALACTOSE
5
MAG
2
Ligand/Ion
BETA-METHYL-N-ACETYL-D-GLUCOSAMINE
6
NAG
1
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
7
SIA
3
Ligand/Ion
O-SIALIC ACID
[
close Hetero Component info
]
Sites
(34, 34)
Info
All Sites
01: 11 (UNKNOWN)
02: 11_01 (UNKNOWN)
03: 12 (UNKNOWN)
04: 12_02 (UNKNOWN)
05: 13 (UNKNOWN)
06: 13_03 (UNKNOWN)
07: 21 (UNKNOWN)
08: 21_04 (UNKNOWN)
09: 22 (UNKNOWN)
10: 22_05 (UNKNOWN)
11: 23 (UNKNOWN)
12: 23_06 (UNKNOWN)
13: 31 (UNKNOWN)
14: 31_07 (UNKNOWN)
15: 32 (UNKNOWN)
16: 32_08 (UNKNOWN)
17: 33 (UNKNOWN)
18: 33_09 (UNKNOWN)
19: AC1 (SOFTWARE)
20: AC5 (SOFTWARE)
21: AC6 (SOFTWARE)
22: AC7 (SOFTWARE)
23: AC8 (SOFTWARE)
24: AC9 (SOFTWARE)
25: BC1 (SOFTWARE)
26: BC2 (SOFTWARE)
27: BC6 (SOFTWARE)
28: BC7 (SOFTWARE)
29: BC8 (SOFTWARE)
30: BC9 (SOFTWARE)
31: CC1 (SOFTWARE)
32: CC2 (SOFTWARE)
33: CC3 (SOFTWARE)
34: CC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
11
UNKNOWN
CA 1:1 , ASP 1:161 , GLU 1:165 , ASP 1:188 , GLU 1:193 , ASP 1:194 , HOH 2:324
CA SITE 1, PROTOMER 1.
02
11_01
UNKNOWN
CA 1:1 , ASP 1:161 , GLU 1:165 , ASP 1:188 , GLU 1:193 , ASP 1:194 , HOH 2:324
CA SITE 1, PROTOMER 1.
03
12
UNKNOWN
CA 2:1 , ASP 2:161 , GLU 2:165 , ASP 2:188 , GLU 2:193 , ASP 2:194 , HOH 2:262
CA SITE 1, PROTOMER 2.
04
12_02
UNKNOWN
CA 2:1 , ASP 2:161 , GLU 2:165 , ASP 2:188 , GLU 2:193 , ASP 2:194 , HOH 2:262
CA SITE 1, PROTOMER 2.
05
13
UNKNOWN
CA 3:1 , ASP 3:161 , GLU 3:165 , ASP 3:188 , GLU 3:193 , ASP 3:194 , HOH 3:304
CA SITE 1, PROTOMER 3.
06
13_03
UNKNOWN
CA 3:1 , ASP 3:161 , GLU 3:165 , ASP 3:188 , GLU 3:193 , ASP 3:194 , HOH 3:304
CA SITE 1, PROTOMER 3.
07
21
UNKNOWN
CA 1:2 , GLU 1:185 , ASN 1:187 , GLU 1:193 , ASN 1:205 , ASP 1:206 , HOH 2:316
CA SITE 2, PROTOMER 1.
08
21_04
UNKNOWN
CA 1:2 , GLU 1:185 , ASN 1:187 , GLU 1:193 , ASN 1:205 , ASP 1:206 , HOH 2:316
CA SITE 2, PROTOMER 1.
09
22
UNKNOWN
CA 2:2 , GLU 2:185 , ASN 2:187 , GLU 2:193 , ASN 2:205 , ASP 2:206 , HOH 2:269
CA SITE 2, PROTOMER 2.
10
22_05
UNKNOWN
CA 2:2 , GLU 2:185 , ASN 2:187 , GLU 2:193 , ASN 2:205 , ASP 2:206 , HOH 2:269
CA SITE 2, PROTOMER 2.
11
23
UNKNOWN
CA 3:2 , GLU 3:185 , ASN 3:187 , GLU 3:193 , ASN 3:205 , ASP 3:206 , HOH 3:296 , HOH 3:297
CA SITE 2, PROTOMER 3.
12
23_06
UNKNOWN
CA 3:2 , GLU 3:185 , ASN 3:187 , GLU 3:193 , ASN 3:205 , ASP 3:206 , HOH 3:296 , HOH 3:297
CA SITE 2, PROTOMER 3.
13
31
UNKNOWN
CA 1:3 , GLU 1:165 , ASP 1:194 , HOH 2:325 , HOH 2:331 , HOH 2:332
CA SITE 3, PROTOMER 1.
14
31_07
UNKNOWN
CA 1:3 , GLU 1:165 , ASP 1:194 , HOH 2:325 , HOH 2:331 , HOH 2:332
CA SITE 3, PROTOMER 1.
15
32
UNKNOWN
CA 2:3 , GLU 2:165 , ASP 2:194 , HOH 2:263
CA SITE 3, PROTOMER 2.
16
32_08
UNKNOWN
CA 2:3 , GLU 2:165 , ASP 2:194 , HOH 2:263
CA SITE 3, PROTOMER 2.
17
33
UNKNOWN
CA 3:3 , GLU 3:165 , ASP 3:194 , HOH 1:404
CA SITE 3, PROTOMER 3.
18
33_09
UNKNOWN
CA 3:3 , GLU 3:165 , ASP 3:194 , HOH 1:404
CA SITE 3, PROTOMER 3.
19
AC1
SOFTWARE
GAL 1:223 , GLU 3:130 , ARG 3:132
BINDING SITE FOR RESIDUE SIA 1 222
20
AC5
SOFTWARE
GAL 2:223
BINDING SITE FOR RESIDUE SIA 2 222
21
AC6
SOFTWARE
LYS 2:211 , SIA 2:222 , MAG 2:224 , FUC 2:225
BINDING SITE FOR RESIDUE GAL 2 223
22
AC7
SOFTWARE
ASP 2:184 , ASN 2:187 , HIS 2:189 , GAL 2:223 , FUC 2:225
BINDING SITE FOR RESIDUE MAG 2 224
23
AC8
SOFTWARE
CA 2:2 , GLU 2:185 , ASN 2:187 , GLU 2:193 , ASN 2:205 , ASP 2:206 , GAL 2:223 , MAG 2:224
BINDING SITE FOR RESIDUE FUC 2 225
24
AC9
SOFTWARE
LYS 1:97 , GAL 3:223
BINDING SITE FOR RESIDUE SIA 3 222
25
BC1
SOFTWARE
HIS 3:189 , GLU 3:193 , LYS 3:211 , SIA 3:222 , NAG 3:224 , FUC 3:225 , HOH 3:308 , HOH 3:310
BINDING SITE FOR RESIDUE GAL 3 223
26
BC2
SOFTWARE
GLU 1:93 , ARG 1:132 , HOH 1:245 , HOH 1:278 , HOH 1:402 , ASN 3:187 , HIS 3:189 , GAL 3:223 , FUC 3:225 , HOH 3:342
BINDING SITE FOR RESIDUE NAG 3 224
27
BC6
SOFTWARE
GLU 1:84 , GLU 1:165 , ASP 1:194 , HOH 1:299 , HOH 1:318 , HOH 1:319
BINDING SITE FOR RESIDUE CA 1 3
28
BC7
SOFTWARE
HOH 1:311 , HOH 1:312 , HOH 1:313 , GLU 2:93 , HOH 2:303
BINDING SITE FOR RESIDUE CA 1 4
29
BC8
SOFTWARE
ASP 1:194 , SER 1:208 , CYS 1:209 , HOH 1:300
BINDING SITE FOR RESIDUE CL 1 5
30
BC9
SOFTWARE
ASP 2:161 , GLU 2:165 , ASP 2:188 , GLU 2:193 , ASP 2:194 , HOH 2:261
BINDING SITE FOR RESIDUE CA 2 1
31
CC1
SOFTWARE
GLU 2:185 , ASN 2:187 , GLU 2:193 , ASN 2:205 , ASP 2:206 , FUC 2:225
BINDING SITE FOR RESIDUE CA 2 2
32
CC2
SOFTWARE
GLU 2:165 , ASP 2:194 , HOH 2:230 , HOH 2:231 , HOH 2:232 , HOH 2:233
BINDING SITE FOR RESIDUE CA 2 3
33
CC3
SOFTWARE
ASP 2:194 , SER 2:208 , CYS 2:209
BINDING SITE FOR RESIDUE CL 2 4
34
CC7
SOFTWARE
ASP 3:194 , CYS 3:209
BINDING SITE FOR RESIDUE CL 3 4
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 6)
Info
All PROSITE Patterns/Profiles
1: C_TYPE_LECTIN_2 (1:106-218,2:106-218,3:106-218)
2: C_TYPE_LECTIN_1 (1:195-217,2:195-217,3:195-217)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
C_TYPE_LECTIN_2
PS50041
C-type lectin domain profile.
MBL1_RAT
123-235
3
1:106-218
2:106-218
3:106-218
2
C_TYPE_LECTIN_1
PS00615
C-type lectin domain signature.
MBL1_RAT
212-234
3
1:195-217
2:195-217
3:195-217
[
close PROSITE info
]
Exons
(3, 9)
Info
All Exons
Exon 1.3 (1:73-73 | 2:73-73 | 3:73-73)
Exon 1.4 (1:73-98 | 2:73-98 | 3:73-98)
Exon 1.5 (1:98-221 | 2:98-221 | 3:98-221)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.2/1.3
2: Boundary 1.3/1.4
3: Boundary 1.4/1.5
4: Boundary 1.5/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
ENSRNOT00000015723
1
ENSRNOE00000411163
chr16:
17591820-17591881
62
MBL1_RAT
-
0
0
-
-
1.2
ENSRNOT00000015723
2
ENSRNOE00000110617
chr16:
17593783-17593943
161
MBL1_RAT
1-51
51
0
-
-
1.3
ENSRNOT00000015723
3
ENSRNOE00000110943
chr16:
17594301-17594417
117
MBL1_RAT
51-90
40
3
1:73-73
2:73-73
3:73-73
1
1
1
1.4
ENSRNOT00000015723
4
ENSRNOE00000111237
chr16:
17596168-17596242
75
MBL1_RAT
90-115
26
3
1:73-98
2:73-98
3:73-98
26
26
26
1.5
ENSRNOT00000015723
5
ENSRNOE00000111555
chr16:
17597083-17597859
777
MBL1_RAT
115-238
124
3
1:98-221
2:98-221
3:98-221
124
124
124
[
close EXON info
]
SCOP Domains
(2, 6)
Info
All SCOP Domains
1a: SCOP_d2kmb11 (1:105-221)
1b: SCOP_d2kmb21 (2:105-221)
1c: SCOP_d2kmb31 (3:105-221)
2a: SCOP_d2kmb12 (1:73-104)
2b: SCOP_d2kmb22 (2:73-104)
2c: SCOP_d2kmb32 (3:73-104)
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)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
C-type lectin-like
(322)
Superfamily
:
C-type lectin-like
(322)
Family
:
C-type lectin domain
(182)
Protein domain
:
Mannose-binding protein A, C-lectin domain
(39)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(38)
1a
d2kmb11
1:105-221
1b
d2kmb21
2:105-221
1c
d2kmb31
3:105-221
Class
:
Coiled coil proteins
(689)
Fold
:
Parallel coiled-coil
(407)
Superfamily
:
Triple coiled coil domain of C-type lectins
(54)
Family
:
Triple coiled coil domain of C-type lectins
(54)
Protein domain
:
Mannose-binding protein A
(23)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(22)
2a
d2kmb12
1:73-104
2b
d2kmb22
2:73-104
2c
d2kmb32
3:73-104
[
close SCOP info
]
CATH Domains
(1, 3)
Info
all CATH domains
1a: CATH_2kmb100 (1:73-221)
1b: CATH_2kmb200 (2:73-221)
1c: CATH_2kmb300 (3:73-221)
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(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Roll
(3276)
Topology
:
Mannose-Binding Protein A; Chain A
(180)
Homologous Superfamily
:
Mannose-Binding Protein A, subunit A
(180)
Norway rat (Rattus norvegicus)
(32)
1a
2kmb100
1:73-221
1b
2kmb200
2:73-221
1c
2kmb300
3:73-221
[
close CATH info
]
Pfam Domains
(1, 3)
Info
all PFAM domains
1a: PFAM_Lectin_C_2kmb301 (3:117-219)
1b: PFAM_Lectin_C_2kmb302 (3:117-219)
1c: PFAM_Lectin_C_2kmb303 (3:117-219)
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Clans
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Organisms
(
)
(
)
Clan
:
C_Lectin
(98)
Family
:
Lectin_C
(85)
Rattus norvegicus (Rat)
(33)
1a
Lectin_C-2kmb301
3:117-219
1b
Lectin_C-2kmb302
3:117-219
1c
Lectin_C-2kmb303
3:117-219
[
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]
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