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Getting 'Exon' information from database.
1NT9
Asym. Unit
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Asym.Unit (85 KB)
Biol.Unit 1 (76 KB)
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(1)
Title
:
COMPLETE 12-SUBUNIT RNA POLYMERASE II
Authors
:
K. -J. Armache, H. Kettenberger, P. Cramer
Date
:
29 Jan 03 (Deposition) - 22 Apr 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
4.20
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L (1x)
Keywords
:
Dna-Dependent Rna Polymerase; Cellular Rna Polymerase; Multisubunit Complex; Transcription; Gene Expression; Mrna; Messenger Rna Synthesis, Transcription, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. -J. Armache, H. Kettenberger, P. Cramer
Architecture Of Initiation-Competent 12-Subunit Rna Polymerase Ii
Proc. Natl. Acad. Sci. Usa V. 100 6964 2003
(for further references see the
PDB file header
)
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Hetero Components
(0, 0)
Info
All Hetero Components
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Label:
Sorry, no Info available
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Sites
(0, 0)
Info
All Sites
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Label:
Sorry, no Info available
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]
SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_RPB3_YEAST_001 (A30D, chain C, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_RPB3_YEAST_001
*
A
30
D
RPB3_YEAST
---
---
C
A
30
D
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(9, 9)
Info
All PROSITE Patterns/Profiles
1: RNA_POL_N_8KD (J:2-11)
2: RNA_POL_M_15KD (I:6-32)
3: RNA_POL_D_30KD (C:31-71)
4: RNA_POL_L_13KD (K:35-66)
5: ZF_TFIIS_2 (I:71-111)
6: ZF_TFIIS_1 (I:75-110)
7: RNA_POL_K_14KD (F:86-100)
8: RNA_POL_H_23KD (E:147-160)
9: RNA_POL_BETA (B:977-989)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RNA_POL_N_8KD
PS01112
RNA polymerases N / 8 Kd subunits signature.
RPAB5_YEAST
2-11
1
J:2-11
2
RNA_POL_M_15KD
PS01030
RNA polymerases M / 15 Kd subunits signature.
RPB9_YEAST
6-32
1
I:6-32
3
RNA_POL_D_30KD
PS00446
RNA polymerases D / 30 to 40 Kd subunits signature.
RPB3_YEAST
31-71
1
C:31-71
4
RNA_POL_L_13KD
PS01154
RNA polymerases L / 13 to 16 Kd subunits signature.
RPB11_YEAST
35-66
1
K:35-66
5
ZF_TFIIS_2
PS51133
Zinc finger TFIIS-type profile.
RPB9_YEAST
71-111
1
I:71-111
6
ZF_TFIIS_1
PS00466
Zinc finger TFIIS-type signature.
RPB9_YEAST
75-110
1
I:75-110
7
RNA_POL_K_14KD
PS01111
RNA polymerases K / 14 to 18 Kd subunits signature.
RPAB2_YEAST
86-100
1
F:86-100
8
RNA_POL_H_23KD
PS01110
RNA polymerases H / 23 Kd subunits signature.
RPAB1_YEAST
147-160
1
E:147-160
9
RNA_POL_BETA
PS01166
RNA polymerases beta chain signature.
RPB2_YEAST
977-989
1
B:977-989
[
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Exons
(9, 9)
Info
All Exons
Exon 1.1 (E:2-215)
Exon 2.1 (A:2-1453 (gaps))
Exon 3.1 (G:1-169)
Exon 4.1 (L:25-70)
Exon 5.1 (C:3-268)
Exon 6.1 (D:10-221 (gaps))
Exon 7.1 (B:20-1224 (gaps))
Exon 8.1 (J:1-65)
Exon 9.2 (F:72-155)
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All Exon Boundaries
01: Boundary -/1.1
02: Boundary 1.1/-
03: Boundary -/2.1
04: Boundary 2.1/-
05: Boundary -/3.1
06: Boundary 3.1/-
07: Boundary -/4.1
08: Boundary 4.1/-
09: Boundary -/5.1
10: Boundary 5.1/-
11: Boundary -/6.1
12: Boundary 6.1/-
13: Boundary -/7.1
14: Boundary 7.1/-
15: Boundary -/8.1
16: Boundary 8.1/-
17: Boundary 9.1/9.2
18: Boundary 9.2/-
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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
YBR154C
1
YBR154C.1
II:549003-548356
648
RPAB1_YEAST
1-215
215
1
E:2-215
214
2.1
YDL140C
1
YDL140C.1
IV:210562-205361
5202
RPB1_YEAST
1-1733
1733
1
A:2-1453 (gaps)
1452
3.1
YDR404C
1
YDR404C.1
IV:1277162-1276647
516
RPB7_YEAST
1-171
171
1
G:1-169
169
4.1
YHR143W-A
1
YHR143W-A.1
VIII:387236-387448
213
RPAB4_YEAST
1-70
70
1
L:25-70
46
5.1
YIL021W
1
YIL021W.1
IX:312903-313859
957
RPB3_YEAST
1-318
318
1
C:3-268
266
6.1
YJL140W
1
YJL140W.1
X:150957-151622
666
RPB4_YEAST
1-221
221
1
D:10-221 (gaps)
212
7.1
YOR151C
1
YOR151C.1
XV:616672-612998
3675
RPB2_YEAST
1-1224
1224
1
B:20-1224 (gaps)
1205
8.1
YOR210W
1
YOR210W.1
XV:738321-738533
213
RPAB5_YEAST
1-70
70
1
J:1-65
65
9.1
YPR187W
1
YPR187W.1
XVI:911253-911272
20
RPAB2_YEAST
1-7
7
0
-
-
9.2
YPR187W
2
YPR187W.2
XVI:911349-911796
448
RPAB2_YEAST
7-155
149
1
F:72-155
84
[
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SCOP Domains
(1, 12)
Info
All SCOP Domains
1a: SCOP_d1nt9a_ (A:)
1b: SCOP_d1nt9b_ (B:)
1c: SCOP_d1nt9c_ (C:)
1d: SCOP_d1nt9d_ (D:)
1e: SCOP_d1nt9e_ (E:)
1f: SCOP_d1nt9f_ (F:)
1g: SCOP_d1nt9g_ (G:)
1h: SCOP_d1nt9h_ (H:)
1i: SCOP_d1nt9i_ (I:)
1j: SCOP_d1nt9j_ (J:)
1k: SCOP_d1nt9k_ (K:)
1l: SCOP_d1nt9l_ (L:)
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Protein Domains
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Organisms
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Class
:
Low resolution protein structures
(283)
Fold
:
RNA polymerase
(26)
Superfamily
:
RNA polymerase
(26)
Family
:
RNA polymerase
(26)
Protein domain
:
Complete 12-subunit RNA polymerase II complex
(23)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(23)
1a
d1nt9a_
A:
1b
d1nt9b_
B:
1c
d1nt9c_
C:
1d
d1nt9d_
D:
1e
d1nt9e_
E:
1f
d1nt9f_
F:
1g
d1nt9g_
G:
1h
d1nt9h_
H:
1i
d1nt9i_
I:
1j
d1nt9j_
J:
1k
d1nt9k_
K:
1l
d1nt9l_
L:
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CATH Domains
(0, 0)
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Pfam Domains
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