0.016434
0.009488
0.000000
0.000000
0.018976
0.000000
0.000000
0.000000
0.009225
0.00000
0.00000
0.00000
Luecke, H.
Richter, H.T.
Lanyi, J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
60.850
60.850
108.400
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C5 H7 N O3
129.114
n
PYROGLUTAMIC ACID
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C20 H28 O
284.436
RETINAL
non-polymer
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
US
Science
SCIEAS
0038
0036-8075
280
1934
1937
10.1126/science.280.5371.1934
9632391
Proton transfer pathways in bacteriorhodopsin at 2.3 angstrom resolution.
1998
10.2210/pdb1brx/pdb
pdb_00001brx
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
MIRRORS
IMAGE PLATE
1997-10
RIGAKU RAXIS IV
MIRROR
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU RUH3R
SCHIFF BASE LINKAGE BETWEEN LYS 126 (NZ) AND RET 301 (C15)
26797.381
BACTERIORHODOPSIN
1
man
polymer
284.436
RETINAL
1
syn
non-polymer
18.015
water
3
nat
water
no
yes
(PCA)AQITGRPEWIWLALGTALMGLGTLYFLVKGMGVSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTMVPFGGEQN
PIYWARYADWLFTTPLLLLDLALLVDADQGTILALVGADGIMIGTGLVGALTKVYSYRFVWWAISTAAMLYILYVLFFGF
TSKAESMRPEVASTFKVLRNVTVVLWSAYPVVWLIGSEGAGIVPLNIETLLFMVLDVSAKVGFGLILLRSRAIFGEAEAP
EPSAGDGAAATS
QAQITGRPEWIWLALGTALMGLGTLYFLVKGMGVSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTMVPFGGEQNPIYW
ARYADWLFTTPLLLLDLALLVDADQGTILALVGADGIMIGTGLVGALTKVYSYRFVWWAISTAAMLYILYVLFFGFTSKA
ESMRPEVASTFKVLRNVTVVLWSAYPVVWLIGSEGAGIVPLNIETLLFMVLDVSAKVGFGLILLRSRAIFGEAEAPEPSA
GDGAAATS
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Halobacterium
Halobacterium
sample
PLASMA MEMBRANE
2242
PLASMA
Halobacterium salinarum
CYTOPLASM
2242
Halobacterium salinarum
1
2.23
43.08
FLASH-COOLED IN LN2 STREAM
5.6
pH 5.6
database_2
entity_poly
pdbx_database_status
pdbx_initial_refinement_model
struct_conn
struct_site
repository
Initial release
Version format compliance
Derived calculations
Version format compliance
Database references
Derived calculations
Other
Polymer sequence
Refinement description
1
0
1999-01-27
1
1
2008-03-24
1
2
2011-07-13
2
0
2023-08-09
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_entity_poly.pdbx_seq_one_letter_code_can
_pdbx_database_status.process_site
_struct_conn.pdbx_leaving_atom_flag
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Y
BNL
1998-05-28
REL
RET
RETINAL
HOH
water
1AT9
1AT9 AND 2BRD
PDB
experimental model
2BRD
1AT9 AND 2BRD
PDB
experimental model
RET
301
2
RET
RET
301
A
HOH
401
3
HOH
HOH
401
A
HOH
402
3
HOH
HOH
402
A
HOH
403
3
HOH
HOH
403
A
n
1
1
A
n
2
2
A
n
3
3
A
n
4
4
A
n
5
5
A
GLY
6
n
6
GLY
6
A
ARG
7
n
7
ARG
7
A
PRO
8
n
8
PRO
8
A
GLU
9
n
9
GLU
9
A
TRP
10
n
10
TRP
10
A
ILE
11
n
11
ILE
11
A
TRP
12
n
12
TRP
12
A
LEU
13
n
13
LEU
13
A
ALA
14
n
14
ALA
14
A
LEU
15
n
15
LEU
15
A
GLY
16
n
16
GLY
16
A
THR
17
n
17
THR
17
A
ALA
18
n
18
ALA
18
A
LEU
19
n
19
LEU
19
A
MET
20
n
20
MET
20
A
GLY
21
n
21
GLY
21
A
LEU
22
n
22
LEU
22
A
GLY
23
n
23
GLY
23
A
THR
24
n
24
THR
24
A
LEU
25
n
25
LEU
25
A
TYR
26
n
26
TYR
26
A
PHE
27
n
27
PHE
27
A
LEU
28
n
28
LEU
28
A
VAL
29
n
29
VAL
29
A
LYS
30
n
30
LYS
30
A
GLY
31
n
31
GLY
31
A
MET
32
n
32
MET
32
A
GLY
33
n
33
GLY
33
A
VAL
34
n
34
VAL
34
A
SER
35
n
35
SER
35
A
ASP
36
n
36
ASP
36
A
PRO
37
n
37
PRO
37
A
ASP
38
n
38
ASP
38
A
ALA
39
n
39
ALA
39
A
LYS
40
n
40
LYS
40
A
LYS
41
n
41
LYS
41
A
PHE
42
n
42
PHE
42
A
TYR
43
n
43
TYR
43
A
ALA
44
n
44
ALA
44
A
ILE
45
n
45
ILE
45
A
THR
46
n
46
THR
46
A
THR
47
n
47
THR
47
A
LEU
48
n
48
LEU
48
A
VAL
49
n
49
VAL
49
A
PRO
50
n
50
PRO
50
A
ALA
51
n
51
ALA
51
A
ILE
52
n
52
ILE
52
A
ALA
53
n
53
ALA
53
A
PHE
54
n
54
PHE
54
A
THR
55
n
55
THR
55
A
MET
56
n
56
MET
56
A
TYR
57
n
57
TYR
57
A
LEU
58
n
58
LEU
58
A
SER
59
n
59
SER
59
A
MET
60
n
60
MET
60
A
LEU
61
n
61
LEU
61
A
LEU
62
n
62
LEU
62
A
GLY
63
n
63
GLY
63
A
TYR
64
n
64
TYR
64
A
GLY
65
n
65
GLY
65
A
LEU
66
n
66
LEU
66
A
THR
67
n
67
THR
67
A
MET
68
n
68
MET
68
A
VAL
69
n
69
VAL
69
A
PRO
70
n
70
PRO
70
A
PHE
71
n
71
PHE
71
A
GLY
72
n
72
GLY
72
A
GLY
73
n
73
GLY
73
A
GLU
74
n
74
GLU
74
A
GLN
75
n
75
GLN
75
A
ASN
76
n
76
ASN
76
A
PRO
77
n
77
PRO
77
A
ILE
78
n
78
ILE
78
A
TYR
79
n
79
TYR
79
A
TRP
80
n
80
TRP
80
A
ALA
81
n
81
ALA
81
A
ARG
82
n
82
ARG
82
A
TYR
83
n
83
TYR
83
A
ALA
84
n
84
ALA
84
A
ASP
85
n
85
ASP
85
A
TRP
86
n
86
TRP
86
A
LEU
87
n
87
LEU
87
A
PHE
88
n
88
PHE
88
A
THR
89
n
89
THR
89
A
THR
90
n
90
THR
90
A
PRO
91
n
91
PRO
91
A
LEU
92
n
92
LEU
92
A
LEU
93
n
93
LEU
93
A
LEU
94
n
94
LEU
94
A
LEU
95
n
95
LEU
95
A
ASP
96
n
96
ASP
96
A
LEU
97
n
97
LEU
97
A
ALA
98
n
98
ALA
98
A
LEU
99
n
99
LEU
99
A
LEU
100
n
100
LEU
100
A
VAL
101
n
101
VAL
101
A
ASP
102
n
102
ASP
102
A
ALA
103
n
103
ALA
103
A
ASP
104
n
104
ASP
104
A
GLN
105
n
105
GLN
105
A
GLY
106
n
106
GLY
106
A
THR
107
n
107
THR
107
A
ILE
108
n
108
ILE
108
A
LEU
109
n
109
LEU
109
A
ALA
110
n
110
ALA
110
A
LEU
111
n
111
LEU
111
A
VAL
112
n
112
VAL
112
A
GLY
113
n
113
GLY
113
A
ALA
114
n
114
ALA
114
A
ASP
115
n
115
ASP
115
A
GLY
116
n
116
GLY
116
A
ILE
117
n
117
ILE
117
A
MET
118
n
118
MET
118
A
ILE
119
n
119
ILE
119
A
GLY
120
n
120
GLY
120
A
THR
121
n
121
THR
121
A
GLY
122
n
122
GLY
122
A
LEU
123
n
123
LEU
123
A
VAL
124
n
124
VAL
124
A
GLY
125
n
125
GLY
125
A
ALA
126
n
126
ALA
126
A
LEU
127
n
127
LEU
127
A
THR
128
n
128
THR
128
A
LYS
129
n
129
LYS
129
A
VAL
130
n
130
VAL
130
A
TYR
131
n
131
TYR
131
A
SER
132
n
132
SER
132
A
TYR
133
n
133
TYR
133
A
ARG
134
n
134
ARG
134
A
PHE
135
n
135
PHE
135
A
VAL
136
n
136
VAL
136
A
TRP
137
n
137
TRP
137
A
TRP
138
n
138
TRP
138
A
ALA
139
n
139
ALA
139
A
ILE
140
n
140
ILE
140
A
SER
141
n
141
SER
141
A
THR
142
n
142
THR
142
A
ALA
143
n
143
ALA
143
A
ALA
144
n
144
ALA
144
A
MET
145
n
145
MET
145
A
LEU
146
n
146
LEU
146
A
TYR
147
n
147
TYR
147
A
ILE
148
n
148
ILE
148
A
LEU
149
n
149
LEU
149
A
TYR
150
n
150
TYR
150
A
VAL
151
n
151
VAL
151
A
LEU
152
n
152
LEU
152
A
n
153
153
A
n
154
154
A
n
155
155
A
n
156
156
A
n
157
157
A
n
158
158
A
n
159
159
A
n
160
160
A
n
161
161
A
n
162
162
A
n
163
163
A
n
164
164
A
n
165
165
A
n
166
166
A
VAL
167
n
167
VAL
167
A
ALA
168
n
168
ALA
168
A
SER
169
n
169
SER
169
A
THR
170
n
170
THR
170
A
PHE
171
n
171
PHE
171
A
LYS
172
n
172
LYS
172
A
VAL
173
n
173
VAL
173
A
LEU
174
n
174
LEU
174
A
ARG
175
n
175
ARG
175
A
ASN
176
n
176
ASN
176
A
VAL
177
n
177
VAL
177
A
THR
178
n
178
THR
178
A
VAL
179
n
179
VAL
179
A
VAL
180
n
180
VAL
180
A
LEU
181
n
181
LEU
181
A
TRP
182
n
182
TRP
182
A
SER
183
n
183
SER
183
A
ALA
184
n
184
ALA
184
A
TYR
185
n
185
TYR
185
A
PRO
186
n
186
PRO
186
A
VAL
187
n
187
VAL
187
A
VAL
188
n
188
VAL
188
A
TRP
189
n
189
TRP
189
A
LEU
190
n
190
LEU
190
A
ILE
191
n
191
ILE
191
A
GLY
192
n
192
GLY
192
A
SER
193
n
193
SER
193
A
GLU
194
n
194
GLU
194
A
GLY
195
n
195
GLY
195
A
ALA
196
n
196
ALA
196
A
GLY
197
n
197
GLY
197
A
ILE
198
n
198
ILE
198
A
VAL
199
n
199
VAL
199
A
PRO
200
n
200
PRO
200
A
LEU
201
n
201
LEU
201
A
ASN
202
n
202
ASN
202
A
ILE
203
n
203
ILE
203
A
GLU
204
n
204
GLU
204
A
THR
205
n
205
THR
205
A
LEU
206
n
206
LEU
206
A
LEU
207
n
207
LEU
207
A
PHE
208
n
208
PHE
208
A
MET
209
n
209
MET
209
A
VAL
210
n
210
VAL
210
A
LEU
211
n
211
LEU
211
A
ASP
212
n
212
ASP
212
A
VAL
213
n
213
VAL
213
A
SER
214
n
214
SER
214
A
ALA
215
n
215
ALA
215
A
LYS
216
n
216
LYS
216
A
VAL
217
n
217
VAL
217
A
GLY
218
n
218
GLY
218
A
PHE
219
n
219
PHE
219
A
GLY
220
n
220
GLY
220
A
LEU
221
n
221
LEU
221
A
ILE
222
n
222
ILE
222
A
LEU
223
n
223
LEU
223
A
LEU
224
n
224
LEU
224
A
ARG
225
n
225
ARG
225
A
SER
226
n
226
SER
226
A
ARG
227
n
227
ARG
227
A
ALA
228
n
228
ALA
228
A
n
229
229
A
n
230
230
A
n
231
231
A
n
232
232
A
n
233
233
A
n
234
234
A
n
235
235
A
n
236
236
A
n
237
237
A
n
238
238
A
n
239
239
A
n
240
240
A
n
241
241
A
n
242
242
A
n
243
243
A
n
244
244
A
n
245
245
A
n
246
246
A
n
247
247
A
n
248
248
A
0.1800000
0.2230000
0.2660000
0.2980000
389
494
5.0
5.0
7600
author_and_software_defined_assembly
PISA,PQS
3
trimeric
6470
-56
24830
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
-0.5000000000
-0.8660254038
0.0000000000
0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
2_665
-y+1,x-y+1,z
crystal symmetry operation
30.4250000000
52.6976458203
0.0000000000
-0.5000000000
0.8660254038
0.0000000000
-0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
3_565
-x+y,-x+1,z
crystal symmetry operation
-30.4250000000
52.6976458203
0.0000000000
A
O
THR
67
A
O
THR
67
A
N
ILE
78
A
N
ILE
78
1
A
PCA
1
A
PCA
1
1
Y
1
A
ALA
2
A
ALA
2
1
Y
1
A
GLN
3
A
GLN
3
1
Y
1
A
ILE
4
A
ILE
4
1
Y
1
A
THR
5
A
THR
5
1
Y
1
A
PHE
153
A
PHE
153
1
Y
1
A
PHE
154
A
PHE
154
1
Y
1
A
GLY
155
A
GLY
155
1
Y
1
A
PHE
156
A
PHE
156
1
Y
1
A
THR
157
A
THR
157
1
Y
1
A
SER
158
A
SER
158
1
Y
1
A
LYS
159
A
LYS
159
1
Y
1
A
ALA
160
A
ALA
160
1
Y
1
A
GLU
161
A
GLU
161
1
Y
1
A
SER
162
A
SER
162
1
Y
1
A
MET
163
A
MET
163
1
Y
1
A
ARG
164
A
ARG
164
1
Y
1
A
PRO
165
A
PRO
165
1
Y
1
A
GLU
166
A
GLU
166
1
Y
1
A
ILE
229
A
ILE
229
1
Y
1
A
PHE
230
A
PHE
230
1
Y
1
A
GLY
231
A
GLY
231
1
Y
1
A
GLU
232
A
GLU
232
1
Y
1
A
ALA
233
A
ALA
233
1
Y
1
A
GLU
234
A
GLU
234
1
Y
1
A
ALA
235
A
ALA
235
1
Y
1
A
PRO
236
A
PRO
236
1
Y
1
A
GLU
237
A
GLU
237
1
Y
1
A
PRO
238
A
PRO
238
1
Y
1
A
SER
239
A
SER
239
1
Y
1
A
ALA
240
A
ALA
240
1
Y
1
A
GLY
241
A
GLY
241
1
Y
1
A
ASP
242
A
ASP
242
1
Y
1
A
GLY
243
A
GLY
243
1
Y
1
A
ALA
244
A
ALA
244
1
Y
1
A
ALA
245
A
ALA
245
1
Y
1
A
ALA
246
A
ALA
246
1
Y
1
A
THR
247
A
THR
247
1
Y
1
A
SER
248
A
SER
248
1
Y
1
A
TYR
147
0.067
SIDE CHAIN
1
A
LYS
216
-104.53
-67.30
USED TWIN OPTION, REFINED TWIN RATIO: 0.54/0.46.
0.2980000
0.2230000
2.3
12.0
6544
494
9696
6912
5.0
96.5
THIN SHELLS
1
FREE R-VALUE
0.0
MOLECULAR REPLACEMENT
1AT9 AND 2BRD
ENGH AND HUBER
SWAT
0
2.3
12.0
3
1635
20
0
1612
0.014
1.653
2.3
25.0
1BRX
9769
0
0.1130000
1
15.1
25.6
96.5
2.30
2.34
1.7
0.4430000
1
75.9
model building
X-PLOR
refinement
X-PLOR
data reduction
HKL
data reduction
DENZO
data scaling
SCALEPACK
phasing
X-PLOR
BACTERIORHODOPSIN/LIPID COMPLEX
1
N
N
2
N
N
3
N
N
A
PRO
8
A
PRO
8
HELX_P
A
LYS
30
A
LYS
30
5
1
23
A
PRO
37
A
PRO
37
HELX_P
A
LEU
61
A
LEU
61
1
2
25
A
TRP
80
A
TRP
80
HELX_P
A
LEU
100
A
LEU
100
5
3
21
A
GLN
105
A
GLN
105
HELX_P
A
LEU
127
A
LEU
127
1
4
23
A
TYR
131
A
TYR
131
HELX_P
A
VAL
151
A
VAL
151
1
5
21
A
ALA
168
A
ALA
168
HELX_P
A
ILE
191
A
ILE
191
1
6
24
A
LEU
201
A
LEU
201
HELX_P
A
ARG
225
A
ARG
225
1
7
25
covale
1.292
one
A
LYS
216
A
NZ
LYS
216
1_555
A
RET
301
B
C15
RET
1_555
PROTON PUMP
PROTON PUMP, MEMBRANE PROTEIN, RETINAL PROTEIN, LIPIDS, PHOTORECEPTOR, HALOARCHAEA
BACR_HALN1
UNP
1
14
P02945
14
253
1BRX
2
248
P02945
A
1
2
248
2
anti-parallel
A
THR
67
A
THR
67
A
PHE
71
A
PHE
71
A
GLU
74
A
GLU
74
A
ILE
78
A
ILE
78
BINDING SITE FOR RESIDUE RET A 301
A
RET
301
Software
12
A
TRP
86
A
TRP
86
12
1_555
A
THR
90
A
THR
90
12
1_555
A
MET
118
A
MET
118
12
1_555
A
TRP
138
A
TRP
138
12
1_555
A
SER
141
A
SER
141
12
1_555
A
THR
142
A
THR
142
12
1_555
A
MET
145
A
MET
145
12
1_555
A
TRP
182
A
TRP
182
12
1_555
A
TYR
185
A
TYR
185
12
1_555
A
TRP
189
A
TRP
189
12
1_555
A
ASP
212
A
ASP
212
12
1_555
A
LYS
216
A
LYS
216
12
1_555
173
P 63