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