PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
1TWH
Asym. Unit
Info
Asym.Unit (581 KB)
Biol.Unit 1 (563 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
RNA POLYMERASE II COMPLEXED WITH 2'DATP
Authors
:
K. D. Westover, D. A. Bushnell, R. D. Kornberg
Date
:
30 Jun 04 (Deposition) - 16 Nov 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.40
Chains
:
Asym. Unit : A,B,C,E,F,H,I,J,K,L
Biol. Unit 1: A,B,C,E,F,H,I,J,K,L (1x)
Keywords
:
Transcription, Mrna, Multiprotein Complex, Molecular Machine, Zinc Motifs
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. D. Westover, D. A. Bushnell, R. D. Kornberg
Structural Basis Of Transcription: Nucleotide Selection By Rotation In The Rna Polymerase Ii Active Center.
Cell(Cambridge, Mass. ) V. 119 481 2004
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 11)
Info
All Hetero Components
1a: ADENOSINE-5'-TRIPHOSPHATE (ATPa)
2a: MANGANESE (II) ION (MNa)
2b: MANGANESE (II) ION (MNb)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
3e: ZINC ION (ZNe)
3f: ZINC ION (ZNf)
3g: ZINC ION (ZNg)
3h: ZINC ION (ZNh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ATP
1
Ligand/Ion
ADENOSINE-5'-TRIPHOSPHATE
2
MN
2
Ligand/Ion
MANGANESE (II) ION
3
ZN
8
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(11, 11)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:481 , ASP A:483 , ASP A:485 , MN A:3010 , ATP A:3011
BINDING SITE FOR RESIDUE MN A 3009
02
AC2
SOFTWARE
ASP A:481 , ASP A:483 , MN A:3009 , ATP A:3011 , ASP B:837
BINDING SITE FOR RESIDUE MN A 3010
03
AC3
SOFTWARE
CYS J:7 , CYS J:10 , CYS J:45 , CYS J:46
BINDING SITE FOR RESIDUE ZN J 3001
04
AC4
SOFTWARE
CYS C:86 , CYS C:88 , CYS C:92 , CYS C:95
BINDING SITE FOR RESIDUE ZN C 3002
05
AC5
SOFTWARE
CYS I:7 , CYS I:10 , CYS I:29 , CYS I:32
BINDING SITE FOR RESIDUE ZN I 3003
06
AC6
SOFTWARE
CYS I:75 , CYS I:78 , CYS I:103 , CYS I:106
BINDING SITE FOR RESIDUE ZN I 3004
07
AC7
SOFTWARE
CYS L:31 , CYS L:34 , SER L:36 , CYS L:48 , CYS L:51
BINDING SITE FOR RESIDUE ZN L 3005
08
AC8
SOFTWARE
CYS A:107 , CYS A:110 , CYS A:148 , GLY A:166 , CYS A:167
BINDING SITE FOR RESIDUE ZN A 3006
09
AC9
SOFTWARE
CYS B:1163 , CYS B:1166 , CYS B:1182 , CYS B:1185
BINDING SITE FOR RESIDUE ZN B 3007
10
BC1
SOFTWARE
CYS A:67 , CYS A:70 , CYS A:77 , HIS A:80
BINDING SITE FOR RESIDUE ZN A 3008
11
BC2
SOFTWARE
ASP A:481 , ASP A:483 , ASP A:485 , MN A:3009 , MN A:3010 , ARG B:766 , GLN B:986 , LYS B:987 , ARG B:1020
BINDING SITE FOR RESIDUE ATP A 3011
[
close Site info
]
SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_RPB3_YEAST_001 (A30D, chain C, )
View:
Select:
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)
[
close SNP/Variant info
]
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:
Select:
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
[
close PROSITE info
]
Exons
(7, 7)
Info
All Exons
Exon 1.1 (E:1-215)
Exon 2.1 (A:3-1450 (gaps))
Exon 3.1 (L:25-70)
Exon 4.1 (C:3-268)
Exon 5.1 (B:18-1224 (gaps))
Exon 6.1 (J:1-64)
Exon 7.2 (F:72-154)
View:
Select:
Label:
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 7.1/7.2
14: Boundary 7.2/-
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
1.1
YBR154C
1
YBR154C.1
II:549003-548356
648
RPAB1_YEAST
1-215
215
1
E:1-215
215
2.1
YDL140C
1
YDL140C.1
IV:210562-205361
5202
RPB1_YEAST
1-1733
1733
1
A:3-1450 (gaps)
1448
3.1
YHR143W-A
1
YHR143W-A.1
VIII:387236-387448
213
RPAB4_YEAST
1-70
70
1
L:25-70
46
4.1
YIL021W
1
YIL021W.1
IX:312903-313859
957
RPB3_YEAST
1-318
318
1
C:3-268
266
5.1
YOR151C
1
YOR151C.1
XV:616672-612998
3675
RPB2_YEAST
1-1224
1224
1
B:18-1224 (gaps)
1207
6.1
YOR210W
1
YOR210W.1
XV:738321-738533
213
RPAB5_YEAST
1-70
70
1
J:1-64
64
7.1
YPR187W
1
YPR187W.1
XVI:911253-911272
20
RPAB2_YEAST
1-7
7
0
-
-
7.2
YPR187W
2
YPR187W.2
XVI:911349-911796
448
RPAB2_YEAST
7-155
149
1
F:72-154
83
[
close EXON info
]
SCOP Domains
(12, 13)
Info
All SCOP Domains
01a: SCOP_d1twhj_ (J:)
02a: SCOP_d1twhf_ (F:)
03a: SCOP_d1twhh_ (H:)
04a: SCOP_d1twhk_ (K:)
05a: SCOP_d1twhc1 (C:3-41,C:173-268)
06a: SCOP_d1twhc2 (C:42-172)
07a: SCOP_d1twhe2 (E:144-215)
08a: SCOP_d1twhe1 (E:1-143)
09a: SCOP_d1twhb_ (B:)
10a: SCOP_d1twha_ (A:)
11a: SCOP_d1twhl_ (L:)
12a: SCOP_d1twhi1 (I:1-49)
12b: SCOP_d1twhi2 (I:50-121)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
DNA/RNA-binding 3-helical bundle
(1299)
Superfamily
:
RNA polymerase subunit RPB10
(37)
Family
:
RNA polymerase subunit RPB10
(37)
Protein domain
:
RNA polymerase subunit RPB10
(30)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(28)
01a
d1twhj_
J:
Fold
:
RPB6/omega subunit-like
(56)
Superfamily
:
RPB6/omega subunit-like
(56)
Family
:
RPB6
(37)
Protein domain
:
RPB6
(32)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(30)
02a
d1twhf_
F:
Class
:
All beta proteins
(24004)
Fold
:
OB-fold
(1179)
Superfamily
:
Nucleic acid-binding proteins
(590)
Family
:
RNA polymerase subunit RBP8
(37)
Protein domain
:
RNA polymerase subunit RBP8
(37)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(35)
03a
d1twhh_
H:
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
DCoH-like
(107)
Superfamily
:
RBP11-like subunits of RNA polymerase
(76)
Family
:
RBP11/RpoL
(31)
Protein domain
:
RPB11
(24)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(23)
04a
d1twhk_
K:
Family
:
RNA polymerase alpha subunit dimerisation domain
(43)
Protein domain
:
RPB3
(25)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(24)
05a
d1twhc1
C:3-41,C:173-268
Fold
:
Insert subdomain of RNA polymerase alpha subunit
(43)
Superfamily
:
Insert subdomain of RNA polymerase alpha subunit
(43)
Family
:
Insert subdomain of RNA polymerase alpha subunit
(43)
Protein domain
:
RPB3
(25)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(24)
06a
d1twhc2
C:42-172
Fold
:
RPB5-like RNA polymerase subunit
(34)
Superfamily
:
RPB5-like RNA polymerase subunit
(34)
Family
:
RPB5
(29)
Protein domain
:
Eukaryotic RPB5 C-terminal domain
(27)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(26)
07a
d1twhe2
E:144-215
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Restriction endonuclease-like
(209)
Superfamily
:
Eukaryotic RPB5 N-terminal domain
(32)
Family
:
Eukaryotic RPB5 N-terminal domain
(32)
Protein domain
:
Eukaryotic RPB5 N-terminal domain
(27)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(26)
08a
d1twhe1
E:1-143
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
beta and beta-prime subunits of DNA dependent RNA-polymerase
(103)
Superfamily
:
beta and beta-prime subunits of DNA dependent RNA-polymerase
(103)
Family
:
RNA-polymerase beta
(54)
Protein domain
:
RBP2
(28)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(27)
09a
d1twhb_
B:
Family
:
RNA-polymerase beta-prime
(49)
Protein domain
:
RBP1
(25)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(24)
10a
d1twha_
A:
Class
:
Small proteins
(3458)
Fold
:
Rubredoxin-like
(572)
Superfamily
:
RNA polymerase subunits
(39)
Family
:
RBP12 subunit of RNA polymerase II
(36)
Protein domain
:
RBP12 subunit of RNA polymerase II
(31)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(30)
11a
d1twhl_
L:
Superfamily
:
Zinc beta-ribbon
(41)
Family
:
Transcriptional factor domain
(36)
Protein domain
:
RBP9 subunit of RNA polymerase II
(26)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(24)
12a
d1twhi1
I:1-49
12b
d1twhi2
I:50-121
[
close SCOP info
]
CATH Domains
(11, 13)
Info
all CATH domains
01a: CATH_1twhK00 (K:1-114)
01b: CATH_1twhC01 (C:3-42,C:169-268)
02a: CATH_1twhE01 (E:1-142)
03a: CATH_1twhB04 (B:221-397)
04a: CATH_1twhF00 (F:72-154)
05a: CATH_1twhE02 (E:143-215)
06a: CATH_1twhJ00 (J:1-64)
07a: CATH_1twhB07 (B:783-798,B:853-973)
08a: CATH_1twhH00 (H:2-146)
09a: CATH_1twhC02 (C:43-168)
10a: CATH_1twhI01 (I:1-46)
10b: CATH_1twhI02 (I:47-121)
11a: CATH_1twhL00 (L:25-70)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Gyrase A; domain 2
(166)
Homologous Superfamily
:
[code=3.30.1360.10, no name defined]
(72)
Baker's yeast (Saccharomyces cerevisiae)
(19)
01a
1twhK00
K:1-114
01b
1twhC01
C:3-42,C:169-268
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Dna-directed Rna Polymerases I, Ii, And Iii 27 Kd Polypeptide; Chain: A; domain 1
(53)
Homologous Superfamily
:
[code=3.40.1340.10, no name defined]
(53)
Baker's yeast (Saccharomyces cerevisiae)
(19)
02a
1twhE01
E:1-142
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; domain 3
(48)
Homologous Superfamily
:
[code=3.90.1110.10, no name defined]
(48)
Baker's yeast (Saccharomyces cerevisiae)
(11)
03a
1twhB04
B:221-397
Topology
:
Eukaryotic RPB6 RNA polymerase subunit
(77)
Homologous Superfamily
:
[code=3.90.940.10, no name defined]
(71)
Baker's yeast (Saccharomyces cerevisiae)
(19)
04a
1twhF00
F:72-154
Homologous Superfamily
:
[code=3.90.940.20, no name defined]
(58)
Baker's yeast (Saccharomyces cerevisiae)
(19)
05a
1twhE02
E:143-215
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Arc Repressor Mutant, subunit A
(1030)
Homologous Superfamily
:
Homeodomain-like
(288)
Baker's yeast (Saccharomyces cerevisiae)
(21)
06a
1twhJ00
J:1-64
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
OB fold (Dihydrolipoamide Acetyltransferase, E2P)
(1040)
Homologous Superfamily
:
[code=2.40.50.150, no name defined]
(48)
Baker's yeast (Saccharomyces cerevisiae)
(11)
07a
1twhB07
B:783-798,B:853-973
Homologous Superfamily
:
Nucleic acid-binding proteins
(483)
Baker's yeast (Saccharomyces cerevisiae)
(28)
08a
1twhH00
H:2-146
Architecture
:
Beta Complex
(381)
Topology
:
RNA Polymerase Alpha Subunit; Chain A, domain 2
(118)
Homologous Superfamily
:
RNA Polymerase Alpha Subunit; Chain A, domain 2
(71)
Baker's yeast (Saccharomyces cerevisiae)
(19)
09a
1twhC02
C:43-168
Architecture
:
Single Sheet
(341)
Topology
:
N-terminal domain of TfIIb
(166)
Homologous Superfamily
:
[code=2.20.25.10, no name defined]
(79)
Baker's yeast (Saccharomyces cerevisiae)
(19)
10a
1twhI01
I:1-46
10b
1twhI02
I:47-121
Topology
:
Rubrerythrin, domain 2
(145)
Homologous Superfamily
:
RNA polymerase ii, chain L
(52)
Baker's yeast (Saccharomyces cerevisiae)
(19)
11a
1twhL00
L:25-70
[
close CATH info
]
Pfam Domains
(25, 25)
Info
all PFAM domains
01a: PFAM_RNA_pol_Rpb2_6_1twhB01 (B:750-1110)
02a: PFAM_RNA_pol_Rpb8_1twhH01 (H:7-146)
03a: PFAM_RNA_pol_L_1twhC01 (C:18-256)
04a: PFAM_RNA_pol_L_2_1twhK01 (K:29-105)
05a: PFAM_DNA_RNApol_7kD_1twhL01 (L:29-60)
06a: PFAM_RNA_POL_M_15KD_1twhI01 (I:4-41)
07a: PFAM_TFIIS_C_1twhI02 (I:73-111)
08a: PFAM_RNA_pol_A_bac_1twhC02 (C:49-171)
09a: PFAM_RNA_pol_N_1twhJ01 (J:1-61)
10a: PFAM_RNA_pol_Rpb1_1_1twhA01 (A:11-327)
11a: PFAM_RNA_pol_Rpb1_2_1twhA02 (A:346-507)
12a: PFAM_RNA_pol_Rpb1_3_1twhA03 (A:510-669)
13a: PFAM_RNA_pol_Rpb1_4_1twhA04 (A:693-800)
14a: PFAM_RNA_pol_Rpb1_5_1twhA05 (A:807-1385)
15a: PFAM_RNA_pol_Rpb1_6_1twhA06 (A:873-1056)
16a: PFAM_RNA_pol_Rpb1_7_1twhA07 (A:1141-1274)
17a: PFAM_RNA_pol_Rpb2_1_1twhB02 (B:42-464)
18a: PFAM_RNA_pol_Rpb2_2_1twhB03 (B:219-407)
19a: PFAM_RNA_pol_Rpb2_3_1twhB04 (B:481-546)
20a: PFAM_RNA_pol_Rpb2_4_1twhB05 (B:580-642)
21a: PFAM_RNA_pol_Rpb2_5_1twhB06 (B:681-745)
22a: PFAM_RNA_pol_Rpb2_7_1twhB07 (B:1127-1219)
23a: PFAM_RNA_pol_Rpb5_C_1twhE01 (E:142-215)
24a: PFAM_RNA_pol_Rpb5_N_1twhE02 (E:1-101)
25a: PFAM_RNA_pol_Rpb6_1twhF01 (F:78-134)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
LEF-8-like
(36)
Family
:
RNA_pol_Rpb2_6
(36)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
01a
RNA_pol_Rpb2_6-1twhB01
B:750-1110
Clan
:
OB
(224)
Family
:
RNA_pol_Rpb8
(26)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
02a
RNA_pol_Rpb8-1twhH01
H:7-146
Clan
:
RBP11-like
(36)
Family
:
RNA_pol_L
(36)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
03a
RNA_pol_L-1twhC01
C:18-256
Family
:
RNA_pol_L_2
(27)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
04a
RNA_pol_L_2-1twhK01
K:29-105
Clan
:
Zn_Beta_Ribbon
(109)
Family
:
DNA_RNApol_7kD
(28)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
05a
DNA_RNApol_7kD-1twhL01
L:29-60
Family
:
RNA_POL_M_15KD
(26)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
06a
RNA_POL_M_15KD-1twhI01
I:4-41
Family
:
TFIIS_C
(26)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(25)
07a
TFIIS_C-1twhI02
I:73-111
Clan
:
no clan defined [family: RNA_pol_A_bac]
(36)
Family
:
RNA_pol_A_bac
(36)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
08a
RNA_pol_A_bac-1twhC02
C:49-171
Clan
:
no clan defined [family: RNA_pol_N]
(28)
Family
:
RNA_pol_N
(28)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
09a
RNA_pol_N-1twhJ01
J:1-61
Clan
:
no clan defined [family: RNA_pol_Rpb1_1]
(37)
Family
:
RNA_pol_Rpb1_1
(37)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
10a
RNA_pol_Rpb1_1-1twhA01
A:11-327
Clan
:
no clan defined [family: RNA_pol_Rpb1_2]
(36)
Family
:
RNA_pol_Rpb1_2
(36)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
11a
RNA_pol_Rpb1_2-1twhA02
A:346-507
Clan
:
no clan defined [family: RNA_pol_Rpb1_3]
(36)
Family
:
RNA_pol_Rpb1_3
(36)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
12a
RNA_pol_Rpb1_3-1twhA03
A:510-669
Clan
:
no clan defined [family: RNA_pol_Rpb1_4]
(36)
Family
:
RNA_pol_Rpb1_4
(36)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
13a
RNA_pol_Rpb1_4-1twhA04
A:693-800
Clan
:
no clan defined [family: RNA_pol_Rpb1_5]
(36)
Family
:
RNA_pol_Rpb1_5
(36)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
14a
RNA_pol_Rpb1_5-1twhA05
A:807-1385
Clan
:
no clan defined [family: RNA_pol_Rpb1_6]
(26)
Family
:
RNA_pol_Rpb1_6
(26)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
15a
RNA_pol_Rpb1_6-1twhA06
A:873-1056
Clan
:
no clan defined [family: RNA_pol_Rpb1_7]
(26)
Family
:
RNA_pol_Rpb1_7
(26)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
16a
RNA_pol_Rpb1_7-1twhA07
A:1141-1274
Clan
:
no clan defined [family: RNA_pol_Rpb2_1]
(37)
Family
:
RNA_pol_Rpb2_1
(37)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
17a
RNA_pol_Rpb2_1-1twhB02
B:42-464
Clan
:
no clan defined [family: RNA_pol_Rpb2_2]
(36)
Family
:
RNA_pol_Rpb2_2
(36)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
18a
RNA_pol_Rpb2_2-1twhB03
B:219-407
Clan
:
no clan defined [family: RNA_pol_Rpb2_3]
(35)
Family
:
RNA_pol_Rpb2_3
(35)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
19a
RNA_pol_Rpb2_3-1twhB04
B:481-546
Clan
:
no clan defined [family: RNA_pol_Rpb2_4]
(28)
Family
:
RNA_pol_Rpb2_4
(28)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
20a
RNA_pol_Rpb2_4-1twhB05
B:580-642
Clan
:
no clan defined [family: RNA_pol_Rpb2_5]
(28)
Family
:
RNA_pol_Rpb2_5
(28)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
21a
RNA_pol_Rpb2_5-1twhB06
B:681-745
Clan
:
no clan defined [family: RNA_pol_Rpb2_7]
(36)
Family
:
RNA_pol_Rpb2_7
(36)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
22a
RNA_pol_Rpb2_7-1twhB07
B:1127-1219
Clan
:
no clan defined [family: RNA_pol_Rpb5_C]
(28)
Family
:
RNA_pol_Rpb5_C
(28)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
23a
RNA_pol_Rpb5_C-1twhE01
E:142-215
Clan
:
no clan defined [family: RNA_pol_Rpb5_N]
(26)
Family
:
RNA_pol_Rpb5_N
(26)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
24a
RNA_pol_Rpb5_N-1twhE02
E:1-101
Clan
:
no clan defined [family: RNA_pol_Rpb6]
(37)
Family
:
RNA_pol_Rpb6
(37)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(26)
25a
RNA_pol_Rpb6-1twhF01
F:78-134
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Chain E
Chain F
Chain H
Chain I
Chain J
Chain K
Chain L
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (581 KB)
Header - Asym.Unit
Biol.Unit 1 (563 KB)
Header - Biol.Unit 1
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
1TWH
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
