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1H8U
Asym. Unit
Info
Asym.Unit (48 KB)
Biol.Unit 1 (24 KB)
Biol.Unit 2 (23 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE EOSINOPHIL MAJOR BASIC PROTEIN AT 1.8A: AN ATYPICAL LECTIN WITH A PARADIGM SHIFT IN SPECIFICITY
Authors
:
G. J. Swaminathan, A. J. Weaver, D. A. Loegering, J. L. Checkel, D. D. Leonidas, G. J. Gleich, K. R. Acharya
Date
:
15 Feb 01 (Deposition) - 17 Jul 01 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Lectin, Eosinophil Granule Protein, Embp
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. J. Swaminathan, A. J. Weaver, D. A. Loegering, J. L. Checkel, D. D. Leonidas, G. J. Gleich, K. R. Acharya
Crystal Structure Of The Eosinophil Major Basic Protein At 1. 8A. An Atypical Lectin With A Paradigm Shift In Specificity
J. Biol. Chem. V. 276 26197 2001
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Hetero Components
(2, 10)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
2
Ligand/Ion
GLYCEROL
2
SO4
8
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(10, 10)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:90 , HIS A:91 , HIS A:106 , CYS A:107 , HOH A:2039 , HOH A:2071 , HOH A:2078 , HOH A:2082
BINDING SITE FOR RESIDUE SO4 A1118
02
AC2
SOFTWARE
ARG A:3 , ARG A:65 , ARG A:88 , HIS A:91 , ARG A:104 , HOH A:2076 , HOH A:2079 , HOH A:2080
BINDING SITE FOR RESIDUE SO4 A1119
03
AC3
SOFTWARE
ARG A:103 , ALA A:105 , HIS A:106 , ARG A:109 , HOH A:2063 , HOH A:2081 , HOH A:2082
BINDING SITE FOR RESIDUE SO4 A1120
04
AC4
SOFTWARE
ILE A:36 , ARG A:63 , HOH A:2084
BINDING SITE FOR RESIDUE SO4 A1121
05
AC5
SOFTWARE
LEU A:10 , THR A:12 , GLN A:15 , ARG A:110 , HOH A:2070 , HOH A:2085
BINDING SITE FOR RESIDUE SO4 A1122
06
AC6
SOFTWARE
GLY B:90 , HIS B:91 , HIS B:106 , CYS B:107
BINDING SITE FOR RESIDUE SO4 B1118
07
AC7
SOFTWARE
ARG B:65 , SER B:87 , ARG B:88 , HIS B:91 , ARG B:104 , HOH B:2058
BINDING SITE FOR RESIDUE SO4 B1119
08
AC8
SOFTWARE
GLY B:60 , SER B:61 , HOH B:2039
BINDING SITE FOR RESIDUE SO4 B1120
09
AC9
SOFTWARE
ARG A:22 , PHE A:77 , ALA A:78 , HOH A:2086 , HOH A:2087 , PHE B:34
BINDING SITE FOR RESIDUE GOL A1123
10
BC1
SOFTWARE
SER A:14 , GLN A:15 , HOH A:2011 , ARG B:39 , ARG B:63 , HOH B:2026
BINDING SITE FOR RESIDUE GOL A1124
[
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]
SAPs(SNPs)/Variants
(3, 6)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_036401 (R74C, chain A/B, )
2: VAR_PRG2_HUMAN_CCDS7955_1_01 (R74C, chain A/B, )
3: VAR_060729 (Y101Y, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_036401
R
179
C
PRG2_HUMAN
Unclassified
---
A/B
R
74
C
2
CancerSNP
VAR_PRG2_HUMAN_CCDS7955_1_01
*
R
179
C
PRG2_HUMAN
Disease (Colorectal cancer)
---
A/B
R
74
C
3
UniProt
VAR_060729
H
206
Y
PRG2_HUMAN
Polymorphism
536455
A/B
Y
101
Y
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: C_TYPE_LECTIN_2 (A:4-116,B:4-116)
2: C_TYPE_LECTIN_1 (A:92-115,B:92-115)
;
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.
PRG2_HUMAN
109-221
2
A:4-116
B:4-116
2
C_TYPE_LECTIN_1
PS00615
C-type lectin domain signature.
PRG2_HUMAN
197-220
2
A:92-115
B:92-115
[
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]
Exons
(4, 8)
Info
All Exons
Exon 1.3b (A:3-17 | B:2-17)
Exon 1.3d (A:18-61 | B:18-61)
Exon 1.4 (A:62-99 | B:62-99)
Exon 1.5d (A:99-117 | B:99-117)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.2/1.3b
2: Boundary 1.3b/1.3d
3: Boundary 1.3d/1.4
4: Boundary 1.4/1.5d
5: Boundary 1.5d/-
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
1.1a
ENST00000311862
1a
ENSE00002185412
chr11:
57158130-57158069
62
PRG2_HUMAN
-
0
0
-
-
1.2
ENST00000311862
2
ENSE00002191966
chr11:
57157429-57157360
70
PRG2_HUMAN
1-20
20
0
-
-
1.3b
ENST00000311862
3b
ENSE00002165885
chr11:
57156790-57156483
308
PRG2_HUMAN
20-122
103
2
A:3-17
B:2-17
15
16
1.3d
ENST00000311862
3d
ENSE00001027254
chr11:
57156181-57156050
132
PRG2_HUMAN
123-166
44
2
A:18-61
B:18-61
44
44
1.4
ENST00000311862
4
ENSE00001174512
chr11:
57155338-57155227
112
PRG2_HUMAN
167-204
38
2
A:62-99
B:62-99
38
38
1.5d
ENST00000311862
5d
ENSE00001309153
chr11:
57155006-57154267
740
PRG2_HUMAN
204-222
19
2
A:99-117
B:99-117
19
19
[
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]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1h8ua_ (A:)
1b: SCOP_d1h8ub_ (B:)
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Classes
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(
)
Folds
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(
)
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(
)
(
)
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(
)
(
)
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
:
Eosinophil major basic protein
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d1h8ua_
A:
1b
d1h8ub_
B:
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1h8uB00 (B:2-117)
1b: CATH_1h8uA00 (A:3-117)
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Classes
(
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(
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(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
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)
Human (Homo sapiens)
(80)
1a
1h8uB00
B:2-117
1b
1h8uA00
A:3-117
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
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Nucleic
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Protein & NOT Site
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Asymmetric Unit 1
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