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1WDY
Asym. Unit
Info
Asym.Unit (54 KB)
Biol.Unit 1 (50 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF RIBONUCLEASE
Authors
:
N. Tanaka, M. Nakanishi, Y. Kusakabe, Y. Goto, Y. Kitade, K. T. Nakamura
Date
:
19 May 04 (Deposition) - 05 Oct 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Hydrolase, Nuclease, Rna-Binding
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Tanaka, M. Nakanishi, Y. Kusakabe, Y. Goto, Y. Kitade, K. T. Nakamura
Structural Basis For Recognition Of 2', 5'-Linked Oligoadenylates By Human Ribonuclease L
Embo J. V. 23 3929 2004
(for further references see the
PDB file header
)
[
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: 5'-O-MONOPHOSPHORYLADENYLYL(2'->5'... (25Aa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
25A
1
Ligand/Ion
5'-O-MONOPHOSPHORYLADENYLYL(2'->5')ADENYLYL(2'->5')ADENOSINE
[
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]
Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLU A:55 , GLY A:58 , TRP A:60 , ASN A:65 , GLN A:68 , LYS A:89 , ASP A:122 , TYR A:124 , PHE A:126 , GLU A:131 , TYR A:135 , ARG A:155 , HOH A:1004 , HOH A:1005 , HOH A:1017 , HOH A:1022 , HOH A:1036 , HOH A:1051 , HOH A:1059 , HOH A:1088 , HOH A:1098 , HOH A:1109 , HOH A:1115 , HOH A:1143 , HOH A:1159
BINDING SITE FOR RESIDUE 25A A 1001
[
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SAPs(SNPs)/Variants
(3, 3)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_013509 (G59S, chain A, )
2: VAR_042358 (L97L, chain A, )
3: VAR_042359 (A289T, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_013509
G
59
S
RN5A_HUMAN
Polymorphism
151296858
A
G
59
S
2
UniProt
VAR_042358
I
97
L
RN5A_HUMAN
Polymorphism
56250729
A
L
97
L
3
UniProt
VAR_042359
A
289
T
RN5A_HUMAN
Polymorphism
35553278
A
A
289
T
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(2, 7)
Info
All PROSITE Patterns/Profiles
1: ANK_REP_REGION (A:24-304)
2: ANK_REPEAT (A:24-56|A:58-90|A:91-123|A:124-156...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ANK_REP_REGION
PS50297
Ankyrin repeat region circular profile.
RN5A_HUMAN
24-304
1
A:24-304
2
ANK_REPEAT
PS50088
Ankyrin repeat profile.
RN5A_HUMAN
24-56
58-90
91-123
124-156
167-200
201-237
6
A:24-56
A:58-90
A:91-123
A:124-156
A:167-200
A:201-237
[
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]
Exons
(1, 1)
Info
All Exons
Exon 1.2b (A:21-305)
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All Exon Boundaries
1: Boundary 1.1/1.2b
2: Boundary 1.2b/1.3
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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
ENST00000367559
1
ENSE00001445029
chr1:
182558391-182558302
90
RN5A_HUMAN
-
0
0
-
-
1.2b
ENST00000367559
2b
ENSE00001445028
chr1:
182556105-182554462
1644
RN5A_HUMAN
1-494
494
1
A:21-305
285
1.3
ENST00000367559
3
ENSE00000922066
chr1:
182553301-182553216
86
RN5A_HUMAN
494-522
29
0
-
-
1.4
ENST00000367559
4
ENSE00000922067
chr1:
182551393-182551188
206
RN5A_HUMAN
523-591
69
0
-
-
1.5
ENST00000367559
5
ENSE00000922068
chr1:
182550492-182550360
133
RN5A_HUMAN
591-635
45
0
-
-
1.6
ENST00000367559
6
ENSE00000922069
chr1:
182545524-182545391
134
RN5A_HUMAN
636-680
45
0
-
-
1.7b
ENST00000367559
7b
ENSE00001818322
chr1:
182544713-182542769
1945
RN5A_HUMAN
680-741
62
0
-
-
[
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]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1wdya_ (A:)
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
beta-hairpin-alpha-hairpin repeat
(81)
Superfamily
:
Ankyrin repeat
(79)
Family
:
Ankyrin repeat
(60)
Protein domain
:
RNase L, 2-5a-dependent ribonuclease
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
1a
d1wdya_
A:
[
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1wdyA00 (A:21-305)
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(
)
(
)
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)
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)
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Alpha Horseshoe
(399)
Topology
:
Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
(320)
Homologous Superfamily
:
[code=1.25.40.20, no name defined]
(65)
Human (Homo sapiens)
(31)
1a
1wdyA00
A:21-305
[
close CATH info
]
Pfam Domains
(1, 5)
Info
all PFAM domains
1a: PFAM_Ank_1wdyA01 (A:272-304)
1b: PFAM_Ank_1wdyA02 (A:272-304)
1c: PFAM_Ank_1wdyA03 (A:272-304)
1d: PFAM_Ank_1wdyA04 (A:272-304)
1e: PFAM_Ank_1wdyA05 (A:272-304)
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)
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)
Clan
:
Ank
(35)
Family
:
Ank
(23)
Homo sapiens (Human)
(14)
1a
Ank-1wdyA01
A:272-304
1b
Ank-1wdyA02
A:272-304
1c
Ank-1wdyA03
A:272-304
1d
Ank-1wdyA04
A:272-304
1e
Ank-1wdyA05
A:272-304
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Asymmetric Unit 1
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