0.036248
0.000000
0.000000
0.000000
0.028281
0.000000
0.000000
0.000000
0.027557
0.00000
0.00000
0.00000
Simonovic, M.
Dolmer, K.
Huang, W.
Strickland, D.K.
Volz, K.
Gettins, P.G.W.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
90.00
90.00
27.588
35.359
36.288
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
Ca 2
40.078
CALCIUM ION
non-polymer
C3 H7 N O2 S
121.158
y
CYSTEINE
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
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
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
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
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
US
Biochemistry
BICHAW
0033
0006-2960
40
15127
15134
10.1021/bi015688m
11735395
Calcium coordination and pH dependence of the calcium affinity of ligand-binding repeat CR7 from the LRP. Comparison with related domains from the LRP and the LDL receptor.
2001
10.2210/pdb1j8e/pdb
pdb_00001j8e
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
200
1
CCD
2001-02-12
ADSC QUANTUM 4
SINGLE WAVELENGTH
M
x-ray
1
1.0
1.0
14-BM-C
APS
1.0
SYNCHROTRON
APS BEAMLINE 14-BM-C
4817.019
LOW-DENSITY LIPOPROTEIN RECEPTOR-RELATED PROTEIN 1
COMPLEMENT-LIKE REPEAT 7 (CR7), LDL-RECEPTOR CLASS A 7
C1G
1
man
polymer
40.078
CALCIUM ION
1
syn
non-polymer
18.015
water
31
nat
water
no
no
GSHSCSSTQFKCNSGRCIPEHWTCDGDNDCGDYSDETHANCTNQ
GSHSCSSTQFKCNSGRCIPEHWTCDGDNDCGDYSDETHANCTNQ
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
human
Homo
Escherichia
Escherichia coli
sample
9606
Homo sapiens
469008
Escherichia coli BL21(DE3)
BL21 (DE3)
plasmid
pGEX-2T
1
1.84
33.03
VAPOR DIFFUSION, HANGING DROP
3.8
0.02M Na-acetate, 0.1M CaCl2, 0.3M NaCl, pH 3.8, VAPOR DIFFUSION, HANGING DROP, temperature 292K
292
database_2
pdbx_struct_conn_angle
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
1
0
2001-12-19
1
1
2008-04-27
1
2
2011-07-13
1
3
2021-10-27
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_atom_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_atom_id
_pdbx_struct_conn_angle.ptnr3_label_seq_id
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
NMR solution structure of CR3
domain of LRP
NMR solution structure of CR8
domain of LRP
Crystal structure of LB5 domain
of LDL receptor
RCSB
Y
RCSB
2001-05-21
REL
REL
CA
CALCIUM ION
HOH
water
CA2
201
2
CA
CA
201
A
HOH
301
3
HOH
HOH
301
A
HOH
302
3
HOH
HOH
302
A
HOH
303
3
HOH
HOH
303
A
HOH
304
3
HOH
HOH
304
A
HOH
305
3
HOH
HOH
305
A
HOH
306
3
HOH
HOH
306
A
HOH
307
3
HOH
HOH
307
A
HOH
308
3
HOH
HOH
308
A
HOH
309
3
HOH
HOH
309
A
HOH
310
3
HOH
HOH
310
A
HOH
311
3
HOH
HOH
311
A
HOH
312
3
HOH
HOH
312
A
HOH
313
3
HOH
HOH
313
A
HOH
314
3
HOH
HOH
314
A
HOH
315
3
HOH
HOH
315
A
HOH
316
3
HOH
HOH
316
A
HOH
317
3
HOH
HOH
317
A
HOH
318
3
HOH
HOH
318
A
HOH
319
3
HOH
HOH
319
A
HOH
320
3
HOH
HOH
320
A
HOH
321
3
HOH
HOH
321
A
HOH
322
3
HOH
HOH
322
A
HOH
323
3
HOH
HOH
323
A
HOH
324
3
HOH
HOH
324
A
HOH
325
3
HOH
HOH
325
A
HOH
326
3
HOH
HOH
326
A
HOH
327
3
HOH
HOH
327
A
HOH
328
3
HOH
HOH
328
A
HOH
329
3
HOH
HOH
329
A
HOH
330
3
HOH
HOH
330
A
HOH
331
3
HOH
HOH
331
A
GLY
1
n
1
GLY
1
A
SER
2
n
2
SER
2
A
HIS
3
n
3
HIS
3
A
SER
4
n
4
SER
4
A
CYS
5
n
5
CYS
5
A
SER
6
n
6
SER
6
A
SER
7
n
7
SER
7
A
THR
8
n
8
THR
8
A
GLN
9
n
9
GLN
9
A
PHE
10
n
10
PHE
10
A
LYS
11
n
11
LYS
11
A
CYS
12
n
12
CYS
12
A
ASN
13
n
13
ASN
13
A
SER
14
n
14
SER
14
A
GLY
15
n
15
GLY
15
A
ARG
16
n
16
ARG
16
A
CYS
17
n
17
CYS
17
A
ILE
18
n
18
ILE
18
A
PRO
19
n
19
PRO
19
A
GLU
20
n
20
GLU
20
A
HIS
21
n
21
HIS
21
A
TRP
22
n
22
TRP
22
A
THR
23
n
23
THR
23
A
CYS
24
n
24
CYS
24
A
ASP
25
n
25
ASP
25
A
GLY
26
n
26
GLY
26
A
ASP
27
n
27
ASP
27
A
ASN
28
n
28
ASN
28
A
ASP
29
n
29
ASP
29
A
CYS
30
n
30
CYS
30
A
GLY
31
n
31
GLY
31
A
ASP
32
n
32
ASP
32
A
TYR
33
n
33
TYR
33
A
SER
34
n
34
SER
34
A
ASP
35
n
35
ASP
35
A
GLU
36
n
36
GLU
36
A
THR
37
n
37
THR
37
A
HIS
38
n
38
HIS
38
A
ALA
39
n
39
ALA
39
A
ASN
40
n
40
ASN
40
A
CYS
41
n
41
CYS
41
A
THR
42
n
42
THR
42
A
ASN
43
n
43
ASN
43
A
GLN
44
n
44
GLN
44
A
author_defined_assembly
1
monomeric
A
TRP
22
A
O
TRP
22
1_555
A
CA
201
B
CA
CA
1_555
A
ASP
25
A
OD1
ASP
25
1_555
86.7
A
TRP
22
A
O
TRP
22
1_555
A
CA
201
B
CA
CA
1_555
A
ASP
27
A
O
ASP
27
1_555
176.0
A
ASP
25
A
OD1
ASP
25
1_555
A
CA
201
B
CA
CA
1_555
A
ASP
27
A
O
ASP
27
1_555
91.0
A
TRP
22
A
O
TRP
22
1_555
A
CA
201
B
CA
CA
1_555
A
ASP
29
A
OD1
ASP
29
1_555
86.8
A
ASP
25
A
OD1
ASP
25
1_555
A
CA
201
B
CA
CA
1_555
A
ASP
29
A
OD1
ASP
29
1_555
89.5
A
ASP
27
A
O
ASP
27
1_555
A
CA
201
B
CA
CA
1_555
A
ASP
29
A
OD1
ASP
29
1_555
89.8
A
TRP
22
A
O
TRP
22
1_555
A
CA
201
B
CA
CA
1_555
A
ASP
35
A
OD1
ASP
35
1_555
98.9
A
ASP
25
A
OD1
ASP
25
1_555
A
CA
201
B
CA
CA
1_555
A
ASP
35
A
OD1
ASP
35
1_555
174.3
A
ASP
27
A
O
ASP
27
1_555
A
CA
201
B
CA
CA
1_555
A
ASP
35
A
OD1
ASP
35
1_555
83.2
A
ASP
29
A
OD1
ASP
29
1_555
A
CA
201
B
CA
CA
1_555
A
ASP
35
A
OD1
ASP
35
1_555
90.1
A
TRP
22
A
O
TRP
22
1_555
A
CA
201
B
CA
CA
1_555
A
GLU
36
A
OE1
GLU
36
1_555
101.4
A
ASP
25
A
OD1
ASP
25
1_555
A
CA
201
B
CA
CA
1_555
A
GLU
36
A
OE1
GLU
36
1_555
80.6
A
ASP
27
A
O
ASP
27
1_555
A
CA
201
B
CA
CA
1_555
A
GLU
36
A
OE1
GLU
36
1_555
81.5
A
ASP
29
A
OD1
ASP
29
1_555
A
CA
201
B
CA
CA
1_555
A
GLU
36
A
OE1
GLU
36
1_555
166.7
A
ASP
35
A
OD1
ASP
35
1_555
A
CA
201
B
CA
CA
1_555
A
GLU
36
A
OE1
GLU
36
1_555
98.8
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
A
N
PHE
10
A
N
PHE
10
A
O
ILE
18
A
O
ILE
18
1
A
CYS
24
36.04
62.34
PROTEIN_REP.PARAM
PROTEIN.TOP
WATER_REP.PARAM
ION.PARAM
ION.PARAM
WATER_REP.PARAM
21.0
2.24
0.00
0.00
-6.09
0.00
3.84
0.222
0.013
0.186
1.85
21.96
281
2911
9.7
88.5
RANDOM
1341106.64
0.00
1
RESTRAINED
THROUGHOUT
0
MOLECULAR REPLACEMENT
Composite search model constructed
based on coordinates of 1AJJ, 1D2L,
and 1CR8.
Engh & Huber
FLAT MODEL
51.37
0.419
0.24
0.19
5.00
0.15
0.13
1.85
21.96
31
364
1
0
332
0.005
1.1
25.1
0.63
1.18
1.50
1.80
2.00
1.98
2.00
2.78
2.50
0.288
0.054
0.227
1.97
28
274
274
6
9.3
56.6
13.2
1.85
100
1J8E
86028
0
0.072
1
20
5
88.5
0.268
1.85
1.97
274
2
56.6
data reduction
DENZO
data scaling
SCALEPACK
refinement
CNS
phasing
CNS
Crystal structure of ligand-binding repeat CR7 from LRP
1
N
N
2
N
N
3
N
N
A
HIS
21
A
HIS
21
HELX_P
A
THR
23
A
THR
23
5
1
3
A
TYR
33
A
TYR
33
HELX_P
A
GLU
36
A
GLU
36
5
2
4
A
THR
37
A
THR
37
HELX_P
A
THR
42
A
THR
42
1
3
6
disulf
2.030
A
CYS
5
A
SG
CYS
5
1_555
A
CYS
17
A
SG
CYS
17
1_555
disulf
2.032
A
CYS
12
A
SG
CYS
12
1_555
A
CYS
30
A
SG
CYS
30
1_555
disulf
2.033
A
CYS
24
A
SG
CYS
24
1_555
A
CYS
41
A
SG
CYS
41
1_555
metalc
2.302
A
TRP
22
A
O
TRP
22
1_555
A
CA
201
B
CA
CA
1_555
metalc
2.435
A
ASP
25
A
OD1
ASP
25
1_555
A
CA
201
B
CA
CA
1_555
metalc
2.313
A
ASP
27
A
O
ASP
27
1_555
A
CA
201
B
CA
CA
1_555
metalc
2.332
A
ASP
29
A
OD1
ASP
29
1_555
A
CA
201
B
CA
CA
1_555
metalc
2.304
A
ASP
35
A
OD1
ASP
35
1_555
A
CA
201
B
CA
CA
1_555
metalc
2.299
A
GLU
36
A
OE1
GLU
36
1_555
A
CA
201
B
CA
CA
1_555
SIGNALING PROTEIN
ligand binding, calcium binding, complement-like repeat, LRP receptor, signaling protein
LRP1_HUMAN
UNP
1
1011
Q07954
CSHSCSSTQFKCNSGRCIPEHWTCDGDNDCGDYSDETHANCTNQ
1011
1054
1J8E
1
44
Q07954
A
1
1
44
1
CYS
engineered mutation
GLY
1
1J8E
A
Q07954
UNP
1011
1
2
anti-parallel
A
GLN
9
A
GLN
9
A
LYS
11
A
LYS
11
A
CYS
17
A
CYS
17
A
PRO
19
A
PRO
19
BINDING SITE FOR RESIDUE CA A 201
A
CA
201
Software
6
A
TRP
22
A
TRP
22
6
1_555
A
ASP
25
A
ASP
25
6
1_555
A
ASP
27
A
ASP
27
6
1_555
A
ASP
29
A
ASP
29
6
1_555
A
ASP
35
A
ASP
35
6
1_555
A
GLU
36
A
GLU
36
6
1_555
19
P 21 21 21