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3LM1
Asym. Unit
Info
Asym.Unit (215 KB)
Biol.Unit 1 (107 KB)
Biol.Unit 2 (106 KB)
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(1)
Title
:
CRYSTAL STRUCTURE ANALYSIS OF MACLURA POMIFERA AGGLUTININ COMPLEX WITH P-NITROPHENYL-GALNAC
Authors
:
J. Huang, Z. Xu, D. Wang, C. Ogato, T. Hirama, K. Palczewski, S. L. Hazen, N. M. Young
Date
:
29 Jan 10 (Deposition) - 22 Sep 10 (Release) - 22 Dec 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P
Biol. Unit 1: A,B,E,F,I,J,M,N (1x)
Biol. Unit 2: C,D,G,H,K,L,O,P (1x)
Keywords
:
Maclura Pomifera Agglutinin, Mpa, Mpa Complex, (P)-Nitrophenyl- Galnac, Lectin, Sugar Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Huang, Z. Xu, D. Wang, C. M. Ogata, K. Palczewski, X. Lee, N. M. Young
Characterization Of The Secondary Binding Sites Of Maclura Pomifera Agglutinin By Glycan Array And Crystallographic Analyses.
Glycobiology V. 20 1643 2010
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Hetero Components
(1, 7)
Info
All Hetero Components
1a: N-[(2S,3R,4R,5S,6R)-4,5-DIHYDROXY-... (LECa)
1b: N-[(2S,3R,4R,5S,6R)-4,5-DIHYDROXY-... (LECb)
1c: N-[(2S,3R,4R,5S,6R)-4,5-DIHYDROXY-... (LECc)
1d: N-[(2S,3R,4R,5S,6R)-4,5-DIHYDROXY-... (LECd)
1e: N-[(2S,3R,4R,5S,6R)-4,5-DIHYDROXY-... (LECe)
1f: N-[(2S,3R,4R,5S,6R)-4,5-DIHYDROXY-... (LECf)
1g: N-[(2S,3R,4R,5S,6R)-4,5-DIHYDROXY-... (LECg)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
LEC
7
Ligand/Ion
N-[(2S,3R,4R,5S,6R)-4,5-DIHYDROXY-6-(HYDROXYMETHYL)-2-(4-NITROPHENOXY)OXAN-3-YL]ETHANAMIDE
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLY A:1 , PHE A:47 , GLU A:76 , TYR A:78 , GLY A:121 , TYR A:122 , TRP A:123 , ASP A:125 , HOH A:289 , HOH A:499 , HOH A:705 , ARG C:13 , PHE C:60 , PRO C:61
BINDING SITE FOR RESIDUE LEC A 134
2
AC2
SOFTWARE
GLY C:1 , PHE C:47 , GLU C:76 , TYR C:78 , GLY C:121 , TYR C:122 , TRP C:123 , ASP C:125 , HOH C:159 , HOH C:257 , HOH C:402 , ARG G:13 , LEU G:58 , PHE G:60
BINDING SITE FOR RESIDUE LEC C 134
3
AC3
SOFTWARE
ARG A:13 , GLU A:14 , THR A:31 , PRO A:38 , SER A:57 , GLY E:1 , PHE E:47 , TYR E:78 , GLY E:121 , TYR E:122 , TRP E:123 , ASP E:125 , HOH E:173
BINDING SITE FOR RESIDUE LEC E 134
4
AC4
SOFTWARE
ARG E:13 , PHE E:60 , PRO E:61 , GLY G:1 , PHE G:47 , GLU G:76 , TYR G:78 , GLY G:121 , TYR G:122 , TRP G:123 , ASP G:125 , HOH G:413
BINDING SITE FOR RESIDUE LEC G 134
5
AC5
SOFTWARE
GLY I:1 , PHE I:47 , GLU I:76 , TYR I:78 , GLY I:121 , TYR I:122 , TRP I:123 , ASP I:125 , HOH I:394 , HOH K:789 , GLU O:76 , TYR O:78 , TYR O:122
BINDING SITE FOR RESIDUE LEC I 134
6
AC6
SOFTWARE
GLY K:1 , PHE K:47 , GLU K:76 , TYR K:78 , GLY K:121 , TYR K:122 , TRP K:123 , ASP K:125
BINDING SITE FOR RESIDUE LEC K 134
7
AC7
SOFTWARE
TYR I:78 , GLY M:1 , PHE M:47 , GLU M:76 , TYR M:78 , GLY M:121 , TYR M:122 , TRP M:123 , ASP M:125 , TYR O:122
BINDING SITE FOR RESIDUE LEC M 134
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SAPs(SNPs)/Variants
(7, 56)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_LECA_MACPO_001 (T31V, chain A/C/E/G/I/K/M/O, )
2: VAR_LECA_MACPO_002 (K52T, chain A/C/E/G/I/K/M/O, )
3: VAR_LECA_MACPO_003 (E59D, chain A/C/E/G/I/K/M/O, )
4: VAR_LECA_MACPO_004 (V72I, chain A/C/E/G/I/K/M/O, )
5: VAR_LECA_MACPO_005 (I81V, chain A/C/E/G/I/K/M/O, )
6: VAR_LECA_MACPO_006 (N110Q, chain A/C/E/G/I/K/M/O, )
7: VAR_LECA_MACPO_007 (L112G, chain A/C/E/G/I/K/M/O, )
View:
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_LECA_MACPO_001
*
T
31
V
LECA_MACPO
---
---
A/C/E/G/I/K/M/O
T
31
V
2
UniProt
VAR_LECA_MACPO_002
*
K
52
T
LECA_MACPO
---
---
A/C/E/G/I/K/M/O
K
52
T
3
UniProt
VAR_LECA_MACPO_003
*
E
59
D
LECA_MACPO
---
---
A/C/E/G/I/K/M/O
E
59
D
4
UniProt
VAR_LECA_MACPO_004
*
V
72
I
LECA_MACPO
---
---
A/C/E/G/I/K/M/O
V
72
I
5
UniProt
VAR_LECA_MACPO_005
*
I
81
V
LECA_MACPO
---
---
A/C/E/G/I/K/M/O
I
81
V
6
UniProt
VAR_LECA_MACPO_006
*
N
110
Q
LECA_MACPO
---
---
A/C/E/G/I/K/M/O
N
110
Q
7
UniProt
VAR_LECA_MACPO_007
*
L
112
G
LECA_MACPO
---
---
A/C/E/G/I/K/M/O
L
112
G
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 8)
Info
All PROSITE Patterns/Profiles
1: JACALIN_LECTIN (A:1-133,C:1-133,E:1-133,G:1-133,I:...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
JACALIN_LECTIN
PS51752
Jacalin-type lectin domain profile.
LECA_MACPO
1-133
8
A:1-133
C:1-133
E:1-133
G:1-133
I:1-133
K:1-133
M:1-133
O:1-133
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
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CATH Domains
(0, 0)
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all CATH domains
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Sorry, no Info available
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Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_Jacalin_3lm1O01 (O:1-133)
1b: PFAM_Jacalin_3lm1O02 (O:1-133)
1c: PFAM_Jacalin_3lm1O03 (O:1-133)
1d: PFAM_Jacalin_3lm1O04 (O:1-133)
1e: PFAM_Jacalin_3lm1O05 (O:1-133)
1f: PFAM_Jacalin_3lm1O06 (O:1-133)
1g: PFAM_Jacalin_3lm1O07 (O:1-133)
1h: PFAM_Jacalin_3lm1O08 (O:1-133)
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)
(
)
Clan
:
no clan defined [family: Jacalin]
(35)
Family
:
Jacalin
(35)
Maclura pomifera (Osage orange) (Ioxylon pomiferum)
(4)
1a
Jacalin-3lm1O01
O:1-133
1b
Jacalin-3lm1O02
O:1-133
1c
Jacalin-3lm1O03
O:1-133
1d
Jacalin-3lm1O04
O:1-133
1e
Jacalin-3lm1O05
O:1-133
1f
Jacalin-3lm1O06
O:1-133
1g
Jacalin-3lm1O07
O:1-133
1h
Jacalin-3lm1O08
O:1-133
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