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Getting 'Biological Unit' information from database.
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Getting 'Hetero Component' information from database.
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Getting 'Exon' information from database.
2OZB
Asym. Unit
Info
Asym.Unit (156 KB)
Biol.Unit 1 (77 KB)
Biol.Unit 2 (75 KB)
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(1)
Title
:
STRUCTURE OF A HUMAN PRP31-15.5K-U4 SNRNA COMPLEX
Authors
:
S. Liu, R. Luehrmann, M. C. Wahl
Date
:
26 Feb 07 (Deposition) - 20 Mar 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: D,E,F (1x)
Keywords
:
Rna-Protein Complex, Ribonucleoprotein Particle (Rnp), Pre-Mrna Splicing, U4/U6 Di-Snrna, U4/U6 Di-Snrnp, Hierarchical Assembly, Nop Domain, Rnp-Binding Domain, Rna Binding Protein-Rna Complex
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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)
Reference
:
S. Liu, P. Li, O. Dybkov, S. Nottrott, K. Hartmuth, R. Luhrmann, T. Carlomagno, M. C. Wahl
Binding Of The Human Prp31 Nop Domain To A Composite Rna-Protein Platform In U4 Snrnp.
Science V. 316 115 2007
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Hetero Components
(1, 3)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
3
Ligand/Ion
CALCIUM ION
[
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN A:77 , GLU A:124 , HOH A:518 , HOH A:519
BINDING SITE FOR RESIDUE CA A 503
2
AC2
SOFTWARE
HOH B:559 , HOH B:560 , HOH B:562 , HOH B:563 , HOH B:564
BINDING SITE FOR RESIDUE CA B 502
3
AC3
SOFTWARE
HOH B:503 , ASP E:322 , HOH E:502 , HOH E:503 , HOH E:504 , HOH E:505 , HOH E:506
BINDING SITE FOR RESIDUE CA E 501
[
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SAPs(SNPs)/Variants
(3, 6)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_034155 (T19N, chain A/D, )
2: VAR_025630 (A194E, chain B/E, )
3: VAR_025631 (A216P, chain B/E, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_034155
T
19
N
NH2L1_HUMAN
Polymorphism
1802521
A/D
T
19
N
2
UniProt
VAR_025630
A
194
E
PRP31_HUMAN
Disease (RP11)
---
B/E
A
194
E
3
UniProt
VAR_025631
A
216
P
PRP31_HUMAN
Disease (RP11)
---
B/E
A
216
P
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: RIBOSOMAL_L7AE (A:73-90,D:73-90)
2: NOP (B:215-333,E:215-333)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RIBOSOMAL_L7AE
PS01082
Ribosomal protein L7Ae signature.
NH2L1_HUMAN
73-90
2
A:73-90
D:73-90
2
NOP
PS51358
Nop domain profile.
PRP31_HUMAN
215-333
2
B:215-333
E:215-333
[
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]
Exons
(9, 18)
Info
All Exons
Exon 1.5 (B:85-108 | E:85-108)
Exon 1.6 (B:108-140 | E:108-140)
Exon 1.7 (B:141-176 | E:141-176)
Exon 1.8 (B:176-233 | E:176-233)
Exon 1.9d (B:233-285 (gaps) | E:233-285 (gaps...)
Exon 1.10b (B:286-315 | E:286-315)
Exon 1.11c (B:316-333 | E:316-333)
Exon 2.6b (A:3-42 | D:4-42)
Exon 2.7e (A:42-128 | D:42-128)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.4a/1.5
02: Boundary 1.5/1.6
03: Boundary 1.6/1.7
04: Boundary 1.7/1.8
05: Boundary 1.8/1.9d
06: Boundary 1.9d/1.10b
07: Boundary 1.10b/1.11c
08: Boundary 1.11c/1.11f
09: Boundary 2.2a/2.6b
10: Boundary 2.6b/2.7e
11: Boundary 2.7e/-
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
ENST00000321030
1a
ENSE00001357861
chr19:
54618837-54619177
341
PRP31_HUMAN
-
0
0
-
-
1.3c
ENST00000321030
3c
ENSE00000856128
chr19:
54621651-54621835
185
PRP31_HUMAN
1-59
59
0
-
-
1.4a
ENST00000321030
4a
ENSE00000725537
chr19:
54621953-54622013
61
PRP31_HUMAN
60-80
21
0
-
-
1.5
ENST00000321030
5
ENSE00001122691
chr19:
54625239-54625322
84
PRP31_HUMAN
80-108
29
2
B:85-108
E:85-108
24
24
1.6
ENST00000321030
6
ENSE00000725528
chr19:
54625876-54625973
98
PRP31_HUMAN
108-140
33
2
B:108-140
E:108-140
33
33
1.7
ENST00000321030
7
ENSE00000725522
chr19:
54626833-54626939
107
PRP31_HUMAN
141-176
36
2
B:141-176
E:141-176
36
36
1.8
ENST00000321030
8
ENSE00000954003
chr19:
54627128-54627297
170
PRP31_HUMAN
176-233
58
2
B:176-233
E:176-233
58
58
1.9d
ENST00000321030
9d
ENSE00000954004
chr19:
54627878-54628035
158
PRP31_HUMAN
233-285
53
2
B:233-285 (gaps)
E:233-285 (gaps)
53
53
1.10b
ENST00000321030
10b
ENSE00000725505
chr19:
54629903-54629992
90
PRP31_HUMAN
286-315
30
2
B:286-315
E:286-315
30
30
1.11c
ENST00000321030
11c
ENSE00001281426
chr19:
54631448-54631575
128
PRP31_HUMAN
316-358
43
2
B:316-333
E:316-333
18
18
1.11f
ENST00000321030
11f
ENSE00000954006
chr19:
54631680-54631752
73
PRP31_HUMAN
358-382
25
0
-
-
1.12b
ENST00000321030
12b
ENSE00001281305
chr19:
54632432-54632560
129
PRP31_HUMAN
383-425
43
0
-
-
1.12e
ENST00000321030
12e
ENSE00001675411
chr19:
54632647-54632745
99
PRP31_HUMAN
426-458
33
0
-
-
1.13a
ENST00000321030
13a
ENSE00001629454
chr19:
54634738-54635140
403
PRP31_HUMAN
459-499
41
0
-
-
2.2a
ENST00000355257
2a
ENSE00001488410
chr22:
42084913-42084798
116
NH2L1_HUMAN
1-1
1
0
-
-
2.6b
ENST00000355257
6b
ENSE00000656116
chr22:
42076368-42076248
121
NH2L1_HUMAN
2-42
41
2
A:3-42
D:4-42
40
39
2.7e
ENST00000355257
7e
ENSE00001948112
chr22:
42071199-42069934
1266
NH2L1_HUMAN
42-128
87
2
A:42-128
D:42-128
87
87
[
close EXON info
]
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d2ozbb1 (B:85-333)
1b: SCOP_d2ozbe_ (E:)
2a: SCOP_d2ozba1 (A:4-128)
2b: SCOP_d2ozbd1 (D:4-128)
View:
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Classes
(
)
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Folds
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Superfamilies
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)
(
)
Families
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Nop domain
(3)
Superfamily
:
Nop domain
(3)
Family
:
Nop domain
(2)
Protein domain
:
U4/U6 small nuclear ribonucleoprotein Prp31
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
1a
d2ozbb1
B:85-333
1b
d2ozbe_
E:
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Bacillus chorismate mutase-like
(324)
Superfamily
:
L30e-like
(93)
Family
:
L30e/L7ae ribosomal proteins
(84)
Protein domain
:
Spliceosomal 15.5kd protein
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
2a
d2ozba1
A:4-128
2b
d2ozbd1
D:4-128
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2ozbD00 (D:4-128)
1b: CATH_2ozbA00 (A:3-128)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
60s Ribosomal Protein L30; Chain: A;
(235)
Homologous Superfamily
:
[code=3.30.1330.30, no name defined]
(102)
[unclassified]
(5)
1a
2ozbD00
D:4-128
1b
2ozbA00
A:3-128
[
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]
Pfam Domains
(3, 6)
Info
all PFAM domains
1a: PFAM_Ribosomal_L7Ae_2ozbD01 (D:20-114)
1b: PFAM_Ribosomal_L7Ae_2ozbD02 (D:20-114)
2a: PFAM_NOSIC_2ozbE01 (E:92-144)
2b: PFAM_NOSIC_2ozbE02 (E:92-144)
3a: PFAM_Nop_2ozbE03 (E:186-333)
3b: PFAM_Nop_2ozbE04 (E:186-333)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
RNA_ribose_bind
(78)
Family
:
Ribosomal_L7Ae
(69)
Homo sapiens (Human)
(4)
1a
Ribosomal_L7Ae-2ozbD01
D:20-114
1b
Ribosomal_L7Ae-2ozbD02
D:20-114
Clan
:
no clan defined [family: NOSIC]
(4)
Family
:
NOSIC
(4)
Homo sapiens (Human)
(1)
2a
NOSIC-2ozbE01
E:92-144
2b
NOSIC-2ozbE02
E:92-144
Clan
:
no clan defined [family: Nop]
(5)
Family
:
Nop
(5)
Homo sapiens (Human)
(1)
3a
Nop-2ozbE03
E:186-333
3b
Nop-2ozbE04
E:186-333
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Nucleic
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Hetero
Ligand
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