0.017615
0.010170
0.000000
0.000000
0.020340
0.000000
0.000000
0.000000
0.017117
0.00000
0.00000
0.00000
Strelkov, S.V.
Herrmann, H.
Geisler, N.
Zimbelmann, R.
Aebi, U.
Burkhard, P.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
56.770
56.770
58.420
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
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
O4 S -2
96.063
SULFATE ION
non-polymer
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
N
1
N
N
N
2
S
C
N
3
N
C
N
4
N
O
N
5
N
C
N
6
N
O
N
7
N
H
N
8
N
H
N
9
N
H
N
10
N
H
N
11
N
H
N
12
N
H
N
13
N
H
N
14
N
N
N
15
S
C
N
16
N
C
N
17
N
O
N
18
N
C
N
19
N
C
N
20
N
C
N
21
N
N
N
22
N
C
N
23
N
N
N
24
N
N
N
25
N
O
N
26
N
H
N
27
N
H
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
H
N
35
N
H
N
36
N
H
N
37
N
H
N
38
N
H
N
39
N
H
N
40
N
H
N
41
N
N
N
42
S
C
N
43
N
C
N
44
N
O
N
45
N
C
N
46
N
C
N
47
N
O
N
48
N
N
N
49
N
O
N
50
N
H
N
51
N
H
N
52
N
H
N
53
N
H
N
54
N
H
N
55
N
H
N
56
N
H
N
57
N
H
N
58
N
N
N
59
S
C
N
60
N
C
N
61
N
O
N
62
N
C
N
63
N
C
N
64
N
O
N
65
N
O
N
66
N
O
N
67
N
H
N
68
N
H
N
69
N
H
N
70
N
H
N
71
N
H
N
72
N
H
N
73
N
H
N
74
N
N
N
75
S
C
N
76
N
C
N
77
N
O
N
78
N
C
N
79
N
C
N
80
N
C
N
81
N
O
N
82
N
N
N
83
N
O
N
84
N
H
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
H
N
89
N
H
N
90
N
H
N
91
N
H
N
92
N
H
N
93
N
H
N
94
N
N
N
95
S
C
N
96
N
C
N
97
N
O
N
98
N
C
N
99
N
C
N
100
N
C
N
101
N
O
N
102
N
O
N
103
N
O
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
H
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
H
N
113
N
N
N
114
N
C
N
115
N
C
N
116
N
O
N
117
N
O
N
118
N
H
N
119
N
H
N
120
N
H
N
121
N
H
N
122
N
H
N
123
N
O
N
124
N
H
N
125
N
H
N
126
N
N
N
127
S
C
N
128
N
C
N
129
N
O
N
130
S
C
N
131
N
C
N
132
N
C
N
133
N
C
N
134
N
O
N
135
N
H
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
H
N
145
N
H
N
146
N
H
N
147
N
H
N
148
N
N
N
149
S
C
N
150
N
C
N
151
N
O
N
152
N
C
N
153
N
C
N
154
N
C
N
155
N
C
N
156
N
O
N
157
N
H
N
158
N
H
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
H
N
163
N
H
N
164
N
H
N
165
N
H
N
166
N
H
N
167
N
H
N
168
N
H
N
169
N
H
N
170
N
N
N
171
S
C
N
172
N
C
N
173
N
O
N
174
N
C
N
175
N
C
N
176
N
C
N
177
N
C
N
178
N
N
N
179
N
O
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
H
N
184
N
H
N
185
N
H
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
H
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
N
N
196
S
C
N
197
N
C
N
198
N
O
N
199
N
C
Y
200
N
C
Y
201
N
C
Y
202
N
C
Y
203
N
C
Y
204
N
C
Y
205
N
C
N
206
N
O
N
207
N
H
N
208
N
H
N
209
N
H
N
210
N
H
N
211
N
H
N
212
N
H
N
213
N
H
N
214
N
H
N
215
N
H
N
216
N
H
N
217
N
H
N
218
N
N
N
219
S
C
N
220
N
C
N
221
N
O
N
222
N
C
N
223
N
O
N
224
N
O
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
H
N
231
N
H
N
232
N
S
N
233
N
O
N
234
N
O
N
235
N
O
N
236
N
O
N
237
N
N
N
238
S
C
N
239
N
C
N
240
N
O
N
241
N
C
Y
242
N
C
Y
243
N
C
Y
244
N
C
Y
245
N
C
Y
246
N
C
Y
247
N
C
N
248
N
O
N
249
N
O
N
250
N
H
N
251
N
H
N
252
N
H
N
253
N
H
N
254
N
H
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
H
N
260
N
H
N
261
N
N
N
262
S
C
N
263
N
C
N
264
N
O
N
265
N
C
N
266
N
C
N
267
N
C
N
268
N
O
N
269
N
H
N
270
N
H
N
271
N
H
N
272
N
H
N
273
N
H
N
274
N
H
N
275
N
H
N
276
N
H
N
277
N
H
N
278
N
H
N
279
N
H
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
doub
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
doub
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
sing
N
28
N
sing
N
29
N
sing
N
30
N
sing
N
31
N
sing
N
32
N
sing
N
33
N
doub
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
doub
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
doub
N
51
N
sing
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
sing
N
57
N
sing
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
doub
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
doub
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
doub
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
doub
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
doub
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
doub
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
doub
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
doub
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
doub
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
doub
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
doub
N
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
sing
Y
195
N
doub
Y
196
N
sing
Y
197
N
sing
N
198
N
sing
Y
199
N
doub
N
200
N
sing
Y
201
N
doub
N
202
N
sing
Y
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
sing
N
212
N
sing
N
213
N
doub
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
N
219
N
sing
N
220
N
doub
N
221
N
doub
N
222
N
sing
N
223
N
sing
N
224
N
sing
N
225
N
sing
N
226
N
sing
N
227
N
sing
N
228
N
sing
N
229
N
sing
N
230
N
doub
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
sing
Y
235
N
doub
Y
236
N
sing
Y
237
N
sing
N
238
N
sing
Y
239
N
doub
N
240
N
sing
Y
241
N
doub
N
242
N
sing
Y
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
doub
N
255
N
sing
N
256
N
sing
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
sing
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
UK
Embo J.
EMJODG
0897
0261-4189
21
1255
10.1093/EMBOJ/21.6.1255
11889032
Conserved Segments 1A and 2B of the Intermediate Filament Dimer: Their Atomic Structures and Role in Filament Assembly.
2002
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
306
773
10.1006/JMBI.2001.4442
11243787
Divide-and-Conquer Crystallographic Approach Towards an Atomic Structure of Intermediate Filaments
2001
10.2210/pdb1gk7/pdb
pdb_00001gk7
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100.0
1
MIRRORS
IMAGE PLATE
1999-04-15
SINGLE WAVELENGTH
M
x-ray
1
0.9
1.0
X11
EMBL/DESY, HAMBURG
0.9
SYNCHROTRON
EMBL/DESY, HAMBURG BEAMLINE X11
TWO EXTRA RESIDUES, GS, AT THE N-TERMINUS ARE RESULT OF THE CLONING PROCEDURE
4654.214
VIMENTIN
1A, RESIDUES 102-138
1
man
polymer
96.063
SULFATE ION
1
syn
non-polymer
18.015
water
35
nat
water
no
no
GSNEKVELQELNDRFANYIDKVRFLEQQNKILLAELEQL
GSNEKVELQELNDRFANYIDKVRFLEQQNKILLAELEQL
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
HUMAN
sample
9606
HOMO SAPIENS
469008
ESCHERICHIA COLI
BL21(DE3)
1
2.9
59
THE SEARCH MODEL WAS A SINGLE CHAIN
6.50
2.0M AMMONIUM ACETATE, 10%(V/V) DIOXANE, 0.1M MES/NA, PH6.5, pH 6.50
diffrn_source
pdbx_struct_special_symmetry
chem_comp_atom
chem_comp_bond
database_2
pdbx_database_status
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Version format compliance
Data collection
Derived calculations
Data collection
Database references
Other
Refinement description
1
0
2002-03-15
1
1
2011-05-08
1
2
2011-07-13
1
3
2019-07-24
1
4
2023-12-13
_diffrn_source.pdbx_synchrotron_site
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.status_code_sf
HUMAN VIMENTIN COIL 2B FRAGMENT (CYS2)
HUMAN VIMENTIN COIL 2B FRAGMENT LINKED TO GCN4 LEUCINE ZIPPER (Z2B)
PDBE
Y
PDBE
2001-08-08
REL
REL
SO4
SULFATE ION
HOH
water
THE RESIDUE NUMBERING USED IN THE LITERATURE FOR
VIMENTIN DIFFERS BY +1 FROM THE NUMBERING USED
IN SWISSPROT ENTRY P08670
THE FRAGMENT CONTAINS RESIDUES 102 TO 138
AND TWO EXOGENOUS RESIDUES, GS, AT THE N-TERMINUS
2ZTA
PDB
experimental model
SO4
1139
2
SO4
SO4
1139
A
HOH
2001
3
HOH
HOH
2001
A
HOH
2002
3
HOH
HOH
2002
A
HOH
2003
3
HOH
HOH
2003
A
HOH
2004
3
HOH
HOH
2004
A
HOH
2005
3
HOH
HOH
2005
A
HOH
2006
3
HOH
HOH
2006
A
HOH
2007
3
HOH
HOH
2007
A
HOH
2008
3
HOH
HOH
2008
A
HOH
2009
3
HOH
HOH
2009
A
HOH
2010
3
HOH
HOH
2010
A
HOH
2011
3
HOH
HOH
2011
A
HOH
2012
3
HOH
HOH
2012
A
HOH
2013
3
HOH
HOH
2013
A
HOH
2014
3
HOH
HOH
2014
A
HOH
2015
3
HOH
HOH
2015
A
HOH
2016
3
HOH
HOH
2016
A
HOH
2017
3
HOH
HOH
2017
A
HOH
2018
3
HOH
HOH
2018
A
HOH
2019
3
HOH
HOH
2019
A
HOH
2020
3
HOH
HOH
2020
A
HOH
2021
3
HOH
HOH
2021
A
HOH
2022
3
HOH
HOH
2022
A
HOH
2023
3
HOH
HOH
2023
A
HOH
2024
3
HOH
HOH
2024
A
HOH
2025
3
HOH
HOH
2025
A
HOH
2026
3
HOH
HOH
2026
A
HOH
2027
3
HOH
HOH
2027
A
HOH
2028
3
HOH
HOH
2028
A
HOH
2029
3
HOH
HOH
2029
A
HOH
2030
3
HOH
HOH
2030
A
HOH
2031
3
HOH
HOH
2031
A
HOH
2032
3
HOH
HOH
2032
A
HOH
2033
3
HOH
HOH
2033
A
HOH
2034
3
HOH
HOH
2034
A
HOH
2035
3
HOH
HOH
2035
A
GLY
100
n
1
GLY
100
A
SER
101
n
2
SER
101
A
ASN
102
n
3
ASN
102
A
GLU
103
n
4
GLU
103
A
LYS
104
n
5
LYS
104
A
VAL
105
n
6
VAL
105
A
GLU
106
n
7
GLU
106
A
LEU
107
n
8
LEU
107
A
GLN
108
n
9
GLN
108
A
GLU
109
n
10
GLU
109
A
LEU
110
n
11
LEU
110
A
ASN
111
n
12
ASN
111
A
ASP
112
n
13
ASP
112
A
ARG
113
n
14
ARG
113
A
PHE
114
n
15
PHE
114
A
ALA
115
n
16
ALA
115
A
ASN
116
n
17
ASN
116
A
TYR
117
n
18
TYR
117
A
ILE
118
n
19
ILE
118
A
ASP
119
n
20
ASP
119
A
LYS
120
n
21
LYS
120
A
VAL
121
n
22
VAL
121
A
ARG
122
n
23
ARG
122
A
PHE
123
n
24
PHE
123
A
LEU
124
n
25
LEU
124
A
GLU
125
n
26
GLU
125
A
GLN
126
n
27
GLN
126
A
GLN
127
n
28
GLN
127
A
ASN
128
n
29
ASN
128
A
LYS
129
n
30
LYS
129
A
ILE
130
n
31
ILE
130
A
LEU
131
n
32
LEU
131
A
LEU
132
n
33
LEU
132
A
ALA
133
n
34
ALA
133
A
GLU
134
n
35
GLU
134
A
LEU
135
n
36
LEU
135
A
GLU
136
n
37
GLU
136
A
GLN
137
n
38
GLN
137
A
LEU
138
n
39
LEU
138
A
author_and_software_defined_assembly
PQS
1
monomeric
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
1
A
HOH
2026
C
HOH
1
A
A
OE2
OE1
GLU
GLU
103
106
1.60
1
A
A
OE2
NH1
GLU
ARG
109
113
1.91
B
1
A
A
CG
O
GLU
HOH
134
2024
2.07
1
12.09
1.20
123.30
135.39
A
A
A
OE1
CD
OE2
GLU
GLU
GLU
134
134
134
N
1
-12.32
2.00
118.30
105.98
A
A
A
CG
CD
OE2
GLU
GLU
GLU
134
134
134
N
1
A
A
OE1
OE1
GLU
GLU
134
134
1.36
1_555
4_765
1
A
A
O
O4
ASN
SO4
102
1139
2.12
1_555
11_555
0.958
0.957
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.216
0.197
0.198
1.40
49.39
461
10979
4.000
99.7
1.967
0.041
RANDOM
1
THROUGHOUT
MOLECULAR REPLACEMENT
0.062
0.057
0.80
0.80
1.40
2ZTA
MAXIMUM LIKELIHOOD
BABINET MODEL WITH MASK
1.40
49.39
35
368
5
0
328
0.020
0.021
341
0.001
0.020
310
2.034
1.996
456
0.856
3.000
725
0.116
0.200
50
0.009
0.020
371
0.004
0.020
64
0.344
0.300
107
0.222
0.300
305
0.286
0.500
19
0.550
0.000
1
0.423
0.300
36
0.419
0.300
53
0.220
0.500
10
2.254
1.500
195
3.323
2.000
312
5.128
3.000
146
7.867
4.500
144
0.2480
0.1990
1.44
44
769
20
1.400
50.000
1GK7
11440
0.03700
1
17.0000
10.300
99.7
0.56000
1.40
1.45
1.900
1
5.50
99.6
refinement
REFMAC
5.0
data reduction
DENZO
data scaling
SCALEPACK
phasing
CCP4
HUMAN VIMENTIN COIL 1A FRAGMENT (1A)
1
N
N
2
N
N
3
N
N
A
GLY
100
A
GLY
1
HELX_P
A
LEU
138
A
LEU
39
1
1
39
VIMENTIN
VIMENTIN, INTERMEDIATE FILAMENT, HEPTAD REPEAT
1GK7
PDB
1
1GK7
VIME_HUMAN
UNP
1
P08670
100
101
1GK7
100
101
1GK7
A
1
1
2
101
137
1GK7
102
138
P08670
A
2
3
39
BINDING SITE FOR RESIDUE SO4 A1139
Software
6
A
GLY
100
A
GLY
1
6
1_555
A
SER
101
A
SER
2
6
1_555
A
ASN
102
A
ASN
3
6
1_555
A
GLU
103
A
GLU
4
6
1_555
A
VAL
105
A
VAL
6
6
1_555
A
GLU
106
A
GLU
7
6
1_555
180
P 62 2 2