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3RTJ
Asym. Unit
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Asym.Unit (91 KB)
Biol.Unit 1 (86 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF RICIN BOUND WITH DINUCLEOTIDE APG
Authors
:
A. F. Monzingo, J. D. Robertus
Date
:
03 May 11 (Deposition) - 31 Aug 11 (Release) - 31 Aug 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,D
Biol. Unit 1: A,B,D (1x)
Keywords
:
Enzyme-Substrate Complex, Glycosidase Ribosome-Inactivating Protein Lectin Glycoprotein, Lactose Binding, Glycosylation, Hydrolase, Hydrolase-Rna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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Reference
:
A. F. Monzingo, J. D. Robertus
X-Ray Analysis Of Substrate Analogs In The Ricin A-Chain Active Site.
J. Mol. Biol. V. 227 1136 1992
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Hetero Components
(3, 8)
Info
All Hetero Components
1a: BETA-D-GLUCOSE (BGCa)
1b: BETA-D-GLUCOSE (BGCb)
2a: BETA-D-GALACTOSE (GALa)
2b: BETA-D-GALACTOSE (GALb)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
3d: N-ACETYL-D-GLUCOSAMINE (NAGd)
View:
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Label:
No.
Name
Count
Type
Full Name
1
BGC
2
Ligand/Ion
BETA-D-GLUCOSE
2
GAL
2
Ligand/Ion
BETA-D-GALACTOSE
3
NAG
4
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP B:22 , ASP B:25 , GLN B:35 , TRP B:37 , LYS B:40 , ASN B:46 , BGC B:265
BINDING SITE FOR RESIDUE GAL B 264
2
AC2
SOFTWARE
ASP B:25 , GAL B:264
BINDING SITE FOR RESIDUE BGC B 265
3
AC3
SOFTWARE
GLU B:199 , ASP B:234 , ARG B:236 , ALA B:237 , TYR B:248 , HIS B:251 , ASN B:255 , BGC B:268
BINDING SITE FOR RESIDUE GAL B 267
4
AC4
SOFTWARE
ALA B:237 , GAL B:267
BINDING SITE FOR RESIDUE BGC B 268
5
AC5
SOFTWARE
ASN B:95 , TYR B:125 , LEU B:227 , NAG B:271
BINDING SITE FOR RESIDUE NAG B 270
6
AC6
SOFTWARE
GLN B:91 , TRP B:93 , NAG B:270
BINDING SITE FOR RESIDUE NAG B 271
7
AC7
SOFTWARE
ALA A:227 , PRO A:229 , TYR A:243 , ILE B:10 , ASN B:135 , NAG B:281
BINDING SITE FOR RESIDUE NAG B 280
8
AC8
SOFTWARE
THR B:43 , LEU B:48 , NAG B:280
BINDING SITE FOR RESIDUE NAG B 281
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(2, 3)
Info
All PROSITE Patterns/Profiles
1: SHIGA_RICIN (A:172-188)
2: RICIN_B_LECTIN (B:7-134|B:137-261)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SHIGA_RICIN
PS00275
Shiga/ricin ribosomal inactivating toxins active site signature.
RICI_RICCO
207-223
1
A:172-188
2
RICIN_B_LECTIN
PS50231
Lectin domain of ricin B chain profile.
RICI_RICCO
321-448
451-575
2
B:7-134
B:137-261
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 3)
Info
All SCOP Domains
1a: SCOP_d3rtjb1 (B:1-135)
1b: SCOP_d3rtjb2 (B:136-262)
2a: SCOP_d3rtja_ (A:)
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Protein Domains
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Organisms
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(
)
Class
:
All beta proteins
(24004)
Fold
:
beta-Trefoil
(385)
Superfamily
:
Ricin B-like lectins
(91)
Family
:
automated matches
(21)
Protein domain
:
automated matches
(21)
Castor bean (Ricinus communis) [TaxId: 3988]
(1)
1a
d3rtjb1
B:1-135
1b
d3rtjb2
B:136-262
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ribosome inactivating proteins (RIP)
(180)
Superfamily
:
Ribosome inactivating proteins (RIP)
(180)
Family
:
Plant cytotoxins
(166)
Protein domain
:
Ricin A-chain
(36)
Castor bean (Ricinus communis) [TaxId: 3988]
(36)
2a
d3rtja_
A:
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CATH Domains
(0, 0 ; only for superseded entry 1APG: 2,2)
Info
all CATH domains
1a: CATH_1apgA01 ()
2a: CATH_1apgA02 ()
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Pfam Domains
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Asymmetric Unit 1
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