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1CWQ
Asym. Unit
Info
Asym.Unit (98 KB)
Biol.Unit 1 (257 KB)
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(1)
Title
:
M INTERMEDIATE STRUCTURE OF THE WILD TYPE BACTERIORHODOPSIN IN COMBINATION WITH THE GROUND STATE STRUCTURE
Authors
:
H. J. Sass, J. Berendzen, D. Neff, R. Gessenich, P. Ormos, G. Bueldt
Date
:
26 Aug 99 (Deposition) - 20 Oct 99 (Release) - 10 Apr 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.25
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (3x)
Keywords
:
Photo Cycle Intermediate, 7-Helical Membrane Protein, Proton Transport, Retinal Protein, Ion Transport
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. J. Sass, G. Buldt, R. Gessenich, D. Hehn, D. Neff, R. Schlesinger, J. Berendzen, P. Ormos
Structural Alterations For Proton Translocation In The M State Of Wild-Type Bacteriorhodopsin.
Nature V. 406 649 2000
[
close entry info
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Hetero Components
(5, 44)
Info
All Hetero Components
1a: HEXANE (HEXa)
1b: HEXANE (HEXb)
1c: HEXANE (HEXc)
1d: HEXANE (HEXd)
1e: HEXANE (HEXe)
1f: HEXANE (HEXf)
1g: HEXANE (HEXg)
1h: HEXANE (HEXh)
1i: HEXANE (HEXi)
1j: HEXANE (HEXj)
1k: HEXANE (HEXk)
1l: HEXANE (HEXl)
2a: N-OCTANE (OCTa)
2b: N-OCTANE (OCTb)
2c: N-OCTANE (OCTc)
2d: N-OCTANE (OCTd)
2e: N-OCTANE (OCTe)
2f: N-OCTANE (OCTf)
2g: N-OCTANE (OCTg)
2h: N-OCTANE (OCTh)
2i: N-OCTANE (OCTi)
2j: N-OCTANE (OCTj)
2k: N-OCTANE (OCTk)
2l: N-OCTANE (OCTl)
2m: N-OCTANE (OCTm)
2n: N-OCTANE (OCTn)
2o: N-OCTANE (OCTo)
2p: N-OCTANE (OCTp)
3a: RETINAL (RETa)
3b: RETINAL (RETb)
4a: TRIDECANE (TRDa)
4b: TRIDECANE (TRDb)
4c: TRIDECANE (TRDc)
4d: TRIDECANE (TRDd)
4e: TRIDECANE (TRDe)
4f: TRIDECANE (TRDf)
5a: UNDECANE (UNDa)
5b: UNDECANE (UNDb)
5c: UNDECANE (UNDc)
5d: UNDECANE (UNDd)
5e: UNDECANE (UNDe)
5f: UNDECANE (UNDf)
5g: UNDECANE (UNDg)
5h: UNDECANE (UNDh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
HEX
12
Ligand/Ion
HEXANE
2
OCT
16
Ligand/Ion
N-OCTANE
3
RET
2
Ligand/Ion
RETINAL
4
TRD
6
Ligand/Ion
TRIDECANE
5
UND
8
Ligand/Ion
UNDECANE
[
close Hetero Component info
]
Sites
(44, 44)
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)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TRP A:86 , THR A:90 , LEU A:93 , MET A:118 , TRP A:138 , SER A:141 , THR A:142 , TRP A:182 , TYR A:185 , PRO A:186 , TRP A:189 , ASP A:212 , LYS A:216 , TYR B:83 , TRP B:86 , THR B:89 , SER B:141 , THR B:142 , TRP B:182 , TYR B:185 , PRO B:186 , ASP B:212 , ALA B:215 , LYS B:216 , RET B:601
BINDING SITE FOR RESIDUE RET A 601
02
AC2
SOFTWARE
TRP A:86 , THR A:89 , THR A:90 , LEU A:93 , MET A:118 , TRP A:138 , SER A:141 , THR A:142 , TRP A:182 , PRO A:186 , TRP A:189 , LYS A:216 , RET A:601 , TYR B:83 , TRP B:86 , THR B:89 , MET B:118 , ILE B:119 , TRP B:138 , SER B:141 , THR B:142 , TRP B:182 , TYR B:185 , PRO B:186 , ALA B:215 , LYS B:216
BINDING SITE FOR RESIDUE RET B 601
03
AC3
SOFTWARE
LEU A:146 , TYR A:147 , PHE A:154 , VAL A:173 , ILE A:222 , UND A:1604 , LEU B:146 , TYR B:147 , TYR B:150 , PHE B:154
BINDING SITE FOR RESIDUE UND A 604
04
AC4
SOFTWARE
PHE A:135 , ALA A:139 , HEX A:606 , OCT A:623 , OCT A:1605 , HEX A:1606 , PHE B:135 , VAL B:136 , ALA B:139
BINDING SITE FOR RESIDUE OCT A 605
05
AC5
SOFTWARE
LEU A:15 , VAL A:210 , OCT A:605 , UND A:624 , HEX A:1606 , UND A:1624
BINDING SITE FOR RESIDUE HEX A 606
06
AC6
SOFTWARE
ILE A:52 , PHE A:88 , GLY A:116 , ILE B:52 , PHE B:88 , GLY B:113 , ILE B:117 , OCT B:1607
BINDING SITE FOR RESIDUE OCT B 607
07
AC7
SOFTWARE
VAL A:217 , HEX A:1608 , VAL B:217 , UND B:1614
BINDING SITE FOR RESIDUE HEX A 608
08
AC8
SOFTWARE
ARG B:175 , ASN B:176 , OCT B:1609
BINDING SITE FOR RESIDUE OCT B 609
09
AC9
SOFTWARE
LEU A:87 , VAL A:112 , HEX A:1610 , VAL B:112
BINDING SITE FOR RESIDUE HEX A 610
10
BC1
SOFTWARE
GLY A:21 , THR A:47 , LEU A:48 , PHE A:54 , ALA A:110 , TYR A:147 , HOH A:871 , GLY B:21 , THR B:24 , ALA B:44 , LEU B:48 , PHE B:54 , ALA B:110 , ILE B:140 , ALA B:144 , TYR B:147 , TRD B:1611
BINDING SITE FOR RESIDUE TRD B 611
11
BC2
SOFTWARE
LEU A:28 , OCT A:623 , TRD A:1612
BINDING SITE FOR RESIDUE TRD A 612
12
BC3
SOFTWARE
LEU A:22 , LEU B:22 , UND B:614 , OCT B:1613
BINDING SITE FOR RESIDUE OCT B 613
13
BC4
SOFTWARE
LEU A:25 , VAL A:29 , LEU B:25 , VAL B:29 , OCT B:613 , OCT B:1613 , UND B:1614
BINDING SITE FOR RESIDUE UND B 614
14
BC5
SOFTWARE
LYS A:41 , LEU A:95 , LEU A:99 , HEX A:1610 , TRD A:1615 , PRO B:91 , GLN B:105
BINDING SITE FOR RESIDUE TRD B 615
15
BC6
SOFTWARE
ILE A:198 , ILE B:198 , UND B:1616
BINDING SITE FOR RESIDUE UND B 616
16
BC7
SOFTWARE
UND A:1604 , OCT A:1617
BINDING SITE FOR RESIDUE OCT A 617
17
BC8
SOFTWARE
TRP A:138 , LEU A:190 , HEX A:620 , OCT A:1617 , TRP B:138 , LEU B:190 , UND B:1616 , OCT B:1618 , HEX B:1620
BINDING SITE FOR RESIDUE OCT B 618
18
BC9
SOFTWARE
TYR A:26 , VAL A:29 , VAL B:29 , HEX B:1619
BINDING SITE FOR RESIDUE HEX B 619
19
CC1
SOFTWARE
LEU A:146 , SER A:183 , VAL A:187 , OCT A:1617 , MET B:145 , SER B:183 , VAL B:187 , OCT B:618 , HEX B:1620
BINDING SITE FOR RESIDUE HEX A 620
20
CC2
SOFTWARE
OCT A:1621
BINDING SITE FOR RESIDUE OCT B 621
21
CC3
SOFTWARE
TRP A:80 , HEX A:1622 , TRP B:80 , HOH B:821
BINDING SITE FOR RESIDUE HEX B 622
22
CC4
SOFTWARE
PHE A:135 , TRP A:138 , LEU A:206 , OCT A:605 , TRD A:612 , OCT A:1605 , OCT A:1623 , PHE B:135 , TRP B:138 , ILE B:203 , HOH B:803 , HOH B:1803
BINDING SITE FOR RESIDUE OCT A 623
23
CC5
SOFTWARE
HEX A:606 , HEX A:1606 , UND A:1624
BINDING SITE FOR RESIDUE UND A 624
24
CC6
SOFTWARE
VAL A:173 , VAL A:177 , ILE A:222 , UND A:604 , OCT A:617 , TRD A:1612 , OCT A:1617 , LEU B:146 , TYR B:147 , VAL B:173 , ILE B:222
BINDING SITE FOR RESIDUE UND A 1604
25
CC7
SOFTWARE
TRP A:12 , SER A:132 , LEU A:206 , OCT A:605 , OCT A:623 , HOH A:854 , TRP B:12 , SER B:132 , PHE B:135
BINDING SITE FOR RESIDUE OCT A 1605
26
CC8
SOFTWARE
TRP A:12 , LEU A:15 , OCT A:605 , HEX A:606 , UND A:624 , TRP B:12
BINDING SITE FOR RESIDUE HEX A 1606
27
CC9
SOFTWARE
ILE A:52 , GLY A:113 , GLY A:116 , ILE A:117 , ILE B:52 , PHE B:88 , GLY B:113 , GLY B:116 , ILE B:117 , OCT B:607
BINDING SITE FOR RESIDUE OCT B 1607
28
DC1
SOFTWARE
LEU A:19 , GLY A:23 , HEX A:608 , LEU B:19 , GLY B:23 , TYR B:26
BINDING SITE FOR RESIDUE HEX A 1608
29
DC2
SOFTWARE
OCT B:609
BINDING SITE FOR RESIDUE OCT B 1609
30
DC3
SOFTWARE
LEU A:87 , VAL A:112 , HEX A:610 , TRD A:1615 , VAL B:112 , TRD B:615
BINDING SITE FOR RESIDUE HEX A 1610
31
DC4
SOFTWARE
THR A:47 , TYR A:147 , HOH A:871 , HOH A:1872 , LEU B:48 , PHE B:54 , TYR B:147 , TRD B:611
BINDING SITE FOR RESIDUE TRD B 1611
32
DC5
SOFTWARE
LEU A:28 , MET A:32 , LEU A:146 , TRD A:612 , UND A:1604 , LEU B:146
BINDING SITE FOR RESIDUE TRD A 1612
33
DC6
SOFTWARE
LEU A:22 , LEU B:22 , OCT B:613 , UND B:614
BINDING SITE FOR RESIDUE OCT B 1613
34
DC7
SOFTWARE
LEU A:19 , HEX A:608 , LEU B:19 , LEU B:25 , VAL B:29 , UND B:614
BINDING SITE FOR RESIDUE UND B 1614
35
DC8
SOFTWARE
LEU A:99 , GLN A:105 , ILE A:108 , HEX A:1610 , PRO B:91 , LEU B:92 , GLN B:105 , ILE B:108 , TRD B:615
BINDING SITE FOR RESIDUE TRD A 1615
36
DC9
SOFTWARE
ILE B:198 , UND B:616 , OCT B:618
BINDING SITE FOR RESIDUE UND B 1616
37
EC1
SOFTWARE
ASN A:176 , OCT A:617 , HEX A:620 , UND A:1604 , OCT B:618
BINDING SITE FOR RESIDUE OCT A 1617
38
EC2
SOFTWARE
OCT A:1623 , TRP B:138 , LEU B:190 , OCT B:618
BINDING SITE FOR RESIDUE OCT B 1618
39
EC3
SOFTWARE
TYR A:26 , TYR B:26 , VAL B:29 , HEX B:619
BINDING SITE FOR RESIDUE HEX B 1619
40
EC4
SOFTWARE
THR A:142 , SER A:183 , HEX A:620 , THR B:142 , MET B:145 , SER B:183 , OCT B:618
BINDING SITE FOR RESIDUE HEX B 1620
41
EC5
SOFTWARE
OCT B:621
BINDING SITE FOR RESIDUE OCT A 1621
42
EC6
SOFTWARE
LEU A:123 , LEU B:123 , HEX B:622
BINDING SITE FOR RESIDUE HEX A 1622
43
EC7
SOFTWARE
ILE A:203 , LEU A:207 , OCT A:623 , PHE B:135 , ILE B:203 , LEU B:206 , LEU B:207 , HOH B:803 , OCT B:1618 , HOH B:1803
BINDING SITE FOR RESIDUE OCT A 1623
44
EC8
SOFTWARE
VAL A:136 , HEX A:606 , UND A:624
BINDING SITE FOR RESIDUE UND A 1624
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: BACTERIAL_OPSIN_1 (A:82-94,B:82-94)
2: BACTERIAL_OPSIN_RET (A:208-219,B:208-219)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
BACTERIAL_OPSIN_1
PS00950
Bacterial rhodopsins signature 1.
BACR_HALSA
95-107
2
A:82-94
B:82-94
2
BACTERIAL_OPSIN_RET
PS00327
Bacterial rhodopsins retinal binding site.
BACR_HALSA
221-232
2
A:208-219
B:208-219
[
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]
Exons
(0, 0)
Info
All Exons
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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, 2)
Info
All SCOP Domains
1a: SCOP_d1cwqa_ (A:)
1b: SCOP_d1cwqb_ (B:)
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(
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(
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Membrane and cell surface proteins and peptides
(2046)
Fold
:
Family A G protein-coupled receptor-like
(138)
Superfamily
:
Family A G protein-coupled receptor-like
(138)
Family
:
Bacteriorhodopsin-like
(107)
Protein domain
:
Bacteriorhodopsin
(61)
Halobacterium salinarum [TaxId: 2242]
(58)
1a
d1cwqa_
A:
1b
d1cwqb_
B:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1cwqA00 (A:2-239)
1b: CATH_1cwqB00 (B:2-239)
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(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Rhopdopsin 7-helix transmembrane proteins
(128)
Homologous Superfamily
:
Rhopdopsin 7-helix transmembrane proteins
(128)
Halobacterium salinarum. Organism_taxid: 2242.
(19)
1a
1cwqA00
A:2-239
1b
1cwqB00
B:2-239
[
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]
Pfam Domains
(0, 0)
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all PFAM domains
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