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1JL5
Asym. Unit
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Asym.Unit (70 KB)
Biol.Unit 1 (250 KB)
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(1)
Title
:
NOVEL MOLECULAR ARCHITECTURE OF YOPM-A LEUCINE-RICH EFFECTOR PROTEIN FROM YERSINIA PESTIS
Authors
:
A. G. Evdokimov, D. E. Anderson, K. M. Routzahn, D. S. Waugh
Date
:
15 Jul 01 (Deposition) - 10 Oct 01 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A
Biol. Unit 1: A (4x)
Keywords
:
Leucine-Rich Repeat, Molecular Pathogenesis, Effector Protein, Virulence Factor, Toxin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. G. Evdokimov, D. E. Anderson, K. M. Routzahn, D. S. Waugh
Unusual Molecular Architecture Of The Yersinia Pestis Cytotoxin Yopm: A Leucine-Rich Repeat Protein With The Shortest Repeating Unit.
J. Mol. Biol. V. 312 807 2001
(for further references see the
PDB file header
)
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Hetero Components
(1, 5)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
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No.
Name
Count
Type
Full Name
1
CA
5
Ligand/Ion
CALCIUM ION
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Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HOH A:5 , HOH A:9 , HOH A:28 , ASN A:1246 , ASP A:1266 , ASN A:1326
BINDING SITE FOR RESIDUE CA A 2001
2
AC2
SOFTWARE
HOH A:1 , HOH A:2 , HOH A:8 , HOH A:18 , ASP A:1266 , ASN A:1307 , GLU A:1308
BINDING SITE FOR RESIDUE CA A 2002
3
AC3
SOFTWARE
HOH A:27 , HOH A:189 , HOH A:292 , HOH A:316 , ASN A:1162 , ASN A:1182
BINDING SITE FOR RESIDUE CA A 2003
4
AC4
SOFTWARE
HOH A:232 , HOH A:392 , GLU A:1274 , GLU A:1294
BINDING SITE FOR RESIDUE CA A 2004
5
AC5
SOFTWARE
HOH A:76 , GLU A:1059
BINDING SITE FOR RESIDUE CA A 2005
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(1, 11)
Info
All PROSITE Patterns/Profiles
1: LRR (A:1132-1153|A:1092-1113|A:1174-119...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
LRR
PS51450
Leucine-rich repeat profile.
YOPM_YERPE
132-153
92-113
174-195
154-173
216-237
196-215
258-279
238-257
318-339
298-317
358-379
11
A:1132-1153
A:1092-1113
A:1174-1195
A:1154-1173
A:1216-1237
A:1196-1215
A:1258-1279
A:1238-1257
A:1318-1339
A:1298-1317
A:1358-1379
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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
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1jl5a_ (A:)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
(112)
Superfamily
:
L domain-like
(93)
Family
:
Leucine rich effector protein YopM
(2)
Protein domain
:
Leucine rich effector protein YopM
(2)
Yersinia pestis [TaxId: 632]
(2)
1a
d1jl5a_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1jl5A00 (A:1034-1386)
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)
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)
Organisms
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)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Horseshoe
(92)
Topology
:
Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
(73)
Homologous Superfamily
:
Ribonuclease Inhibitor
(73)
Yersinia pestis. Organism_taxid: 632.
(2)
1a
1jl5A00
A:1034-1386
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Pfam Domains
(3, 5)
Info
all PFAM domains
1a: PFAM_LRR_1_1jl5A01 (A:1132-1152)
2a: PFAM_LRR_7_1jl5A02 (A:1317-1333)
2b: PFAM_LRR_7_1jl5A03 (A:1317-1333)
2c: PFAM_LRR_7_1jl5A04 (A:1317-1333)
3a: PFAM_TTSSLRR_1jl5A05 (A:1034-1063)
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Clans
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Families
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(
)
Organisms
(
)
(
)
Clan
:
LRR
(77)
Family
:
LRR_1
(20)
Yersinia pestis
(1)
1a
LRR_1-1jl5A01
A:1132-1152
Family
:
LRR_7
(15)
Yersinia pestis
(1)
2a
LRR_7-1jl5A02
A:1317-1333
2b
LRR_7-1jl5A03
A:1317-1333
2c
LRR_7-1jl5A04
A:1317-1333
Clan
:
no clan defined [family: TTSSLRR]
(1)
Family
:
TTSSLRR
(1)
Yersinia pestis
(1)
3a
TTSSLRR-1jl5A05
A:1034-1063
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