0.009984 0.000000 0.000000 0.000000 0.009984 0.000000 0.000000 0.000000 0.009984 0.00000 0.00000 0.00000 Friedland, N. Liou, H.-L. Lobel, P. Stock, A.M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 24 90.00 90.00 90.00 100.157 100.157 100.157 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 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 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 C8 H15 N O6 221.208 2-acetamido-2-deoxy-beta-D-glucopyranose D-saccharide, beta linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking O4 P -3 94.971 PHOSPHATE ION non-polymer 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 C5 H11 N O2 117.146 y VALINE L-peptide linking US Proc.Natl.Acad.Sci.USA PNASA6 0040 0027-8424 100 2512 2517 10.1073/pnas.0437840100 12591954 Structure of a Cholesterol-binding Protein Deficient in Niemann-Pick Type C2 Disease 2003 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 2002-01-01 SINGLE WAVELENGTH M x-ray 1 1.06287 1.0 X4A NSLS 1.06287 SYNCHROTRON NSLS BEAMLINE X4A 14632.744 Epididymal secretory protein E1 1 nat polymer 221.208 2-acetamido-2-deoxy-beta-D-glucopyranose 1 man non-polymer 94.971 PHOSPHATE ION 1 syn non-polymer 18.015 water 101 nat water EPV20, bNPC2 no no EPVKFKDCGSWVGVIKEVNVSPCPTQPCKLHRGQSYSVNVTFTSNTQSQSSKAVVHGIVMGIPVPFPIPESDGCKSGIRC PIEKDKTYNYVNKLPVKNEYPSIKVVVEWELTDDKNQRFFCWQIPIEVEA EPVKFKDCGSWVGVIKEVNVSPCPTQPCKLHRGQSYSVNVTFTSNTQSQSSKAVVHGIVMGIPVPFPIPESDGCKSGIRC PIEKDKTYNYVNKLPVKNEYPSIKVVVEWELTDDKNQRFFCWQIPIEVEA 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 cattle Bos sample 9913 Bos taurus 1 2.61 52.49 VAPOR DIFFUSION, HANGING DROP 7.5 Tris, Ammonium phosphate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K 298 chem_comp entity pdbx_chem_comp_identifier pdbx_entity_nonpoly pdbx_unobs_or_zero_occ_atoms struct_conn struct_site struct_site_gen repository Initial release Carbohydrate remediation repository Remediation Version format compliance Non-polymer description Version format compliance Atomic model Advisory Data collection Derived calculations Structure summary 1 0 2003-01-28 1 1 2008-04-28 1 2 2011-07-13 1 3 2011-11-16 1 4 2020-07-29 _chem_comp.name _chem_comp.type _entity.pdbx_description _pdbx_entity_nonpoly.name _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_role DGlcpNAcb N-acetyl-b-D-glucopyranosamine b-D-GlcpNAc GlcNAc RCSB Y RCSB 2002-12-11 REL REL NAG 2-acetamido-2-deoxy-beta-D-glucopyranose PO4 PHOSPHATE ION HOH water NAG 402 2 NAG NAG 402 A PO4 401 3 PO4 PO4 401 A HOH 201 4 HOH HOH 201 A HOH 202 4 HOH HOH 202 A HOH 203 4 HOH HOH 203 A HOH 204 4 HOH HOH 204 A HOH 205 4 HOH HOH 205 A HOH 206 4 HOH HOH 206 A HOH 207 4 HOH HOH 207 A HOH 208 4 HOH HOH 208 A HOH 209 4 HOH HOH 209 A HOH 210 4 HOH HOH 210 A HOH 211 4 HOH HOH 211 A HOH 212 4 HOH HOH 212 A HOH 213 4 HOH HOH 213 A HOH 214 4 HOH HOH 214 A HOH 215 4 HOH HOH 215 A HOH 216 4 HOH HOH 216 A HOH 217 4 HOH HOH 217 A HOH 218 4 HOH HOH 218 A HOH 219 4 HOH HOH 219 A HOH 220 4 HOH HOH 220 A HOH 221 4 HOH HOH 221 A HOH 222 4 HOH HOH 222 A HOH 223 4 HOH HOH 223 A HOH 224 4 HOH HOH 224 A HOH 225 4 HOH HOH 225 A HOH 226 4 HOH HOH 226 A HOH 227 4 HOH HOH 227 A HOH 228 4 HOH HOH 228 A HOH 229 4 HOH HOH 229 A HOH 230 4 HOH HOH 230 A HOH 231 4 HOH HOH 231 A HOH 232 4 HOH HOH 232 A HOH 233 4 HOH HOH 233 A HOH 234 4 HOH HOH 234 A HOH 235 4 HOH HOH 235 A HOH 236 4 HOH HOH 236 A HOH 237 4 HOH HOH 237 A HOH 238 4 HOH HOH 238 A HOH 240 4 HOH HOH 240 A HOH 241 4 HOH HOH 241 A HOH 242 4 HOH HOH 242 A HOH 243 4 HOH HOH 243 A HOH 244 4 HOH HOH 244 A HOH 245 4 HOH HOH 245 A HOH 246 4 HOH HOH 246 A HOH 247 4 HOH HOH 247 A HOH 248 4 HOH HOH 248 A HOH 249 4 HOH HOH 249 A HOH 250 4 HOH HOH 250 A HOH 251 4 HOH HOH 251 A HOH 252 4 HOH HOH 252 A HOH 253 4 HOH HOH 253 A HOH 254 4 HOH HOH 254 A HOH 255 4 HOH HOH 255 A HOH 256 4 HOH HOH 256 A HOH 257 4 HOH HOH 257 A HOH 258 4 HOH HOH 258 A HOH 259 4 HOH HOH 259 A HOH 260 4 HOH HOH 260 A HOH 261 4 HOH HOH 261 A HOH 262 4 HOH HOH 262 A HOH 263 4 HOH HOH 263 A HOH 264 4 HOH HOH 264 A HOH 265 4 HOH HOH 265 A HOH 266 4 HOH HOH 266 A HOH 267 4 HOH HOH 267 A HOH 268 4 HOH HOH 268 A HOH 269 4 HOH HOH 269 A HOH 270 4 HOH HOH 270 A HOH 271 4 HOH HOH 271 A HOH 272 4 HOH HOH 272 A HOH 273 4 HOH HOH 273 A HOH 274 4 HOH HOH 274 A HOH 275 4 HOH HOH 275 A HOH 276 4 HOH HOH 276 A HOH 277 4 HOH HOH 277 A HOH 278 4 HOH HOH 278 A HOH 279 4 HOH HOH 279 A HOH 280 4 HOH HOH 280 A HOH 281 4 HOH HOH 281 A HOH 282 4 HOH HOH 282 A HOH 283 4 HOH HOH 283 A HOH 284 4 HOH HOH 284 A HOH 285 4 HOH HOH 285 A HOH 286 4 HOH HOH 286 A HOH 287 4 HOH HOH 287 A HOH 288 4 HOH HOH 288 A HOH 289 4 HOH HOH 289 A HOH 290 4 HOH HOH 290 A HOH 291 4 HOH HOH 291 A HOH 292 4 HOH HOH 292 A HOH 293 4 HOH HOH 293 A HOH 294 4 HOH HOH 294 A HOH 295 4 HOH HOH 295 A HOH 296 4 HOH HOH 296 A HOH 297 4 HOH HOH 297 A HOH 298 4 HOH HOH 298 A HOH 299 4 HOH HOH 299 A HOH 300 4 HOH HOH 300 A HOH 301 4 HOH HOH 301 A HOH 302 4 HOH HOH 302 A GLU 1 n 1 GLU 1 A PRO 2 n 2 PRO 2 A VAL 3 n 3 VAL 3 A LYS 4 n 4 LYS 4 A PHE 5 n 5 PHE 5 A LYS 6 n 6 LYS 6 A ASP 7 n 7 ASP 7 A CYS 8 n 8 CYS 8 A GLY 9 n 9 GLY 9 A SER 10 n 10 SER 10 A TRP 11 n 11 TRP 11 A VAL 12 n 12 VAL 12 A GLY 13 n 13 GLY 13 A VAL 14 n 14 VAL 14 A ILE 15 n 15 ILE 15 A LYS 16 n 16 LYS 16 A GLU 17 n 17 GLU 17 A VAL 18 n 18 VAL 18 A ASN 19 n 19 ASN 19 A VAL 20 n 20 VAL 20 A SER 21 n 21 SER 21 A PRO 22 n 22 PRO 22 A CYS 23 n 23 CYS 23 A PRO 24 n 24 PRO 24 A THR 25 n 25 THR 25 A GLN 26 n 26 GLN 26 A PRO 27 n 27 PRO 27 A CYS 28 n 28 CYS 28 A LYS 29 n 29 LYS 29 A LEU 30 n 30 LEU 30 A HIS 31 n 31 HIS 31 A ARG 32 n 32 ARG 32 A GLY 33 n 33 GLY 33 A GLN 34 n 34 GLN 34 A SER 35 n 35 SER 35 A TYR 36 n 36 TYR 36 A SER 37 n 37 SER 37 A VAL 38 n 38 VAL 38 A ASN 39 n 39 ASN 39 A VAL 40 n 40 VAL 40 A THR 41 n 41 THR 41 A PHE 42 n 42 PHE 42 A THR 43 n 43 THR 43 A SER 44 n 44 SER 44 A ASN 45 n 45 ASN 45 A THR 46 n 46 THR 46 A GLN 47 n 47 GLN 47 A SER 48 n 48 SER 48 A GLN 49 n 49 GLN 49 A SER 50 n 50 SER 50 A SER 51 n 51 SER 51 A LYS 52 n 52 LYS 52 A ALA 53 n 53 ALA 53 A VAL 54 n 54 VAL 54 A VAL 55 n 55 VAL 55 A HIS 56 n 56 HIS 56 A GLY 57 n 57 GLY 57 A ILE 58 n 58 ILE 58 A VAL 59 n 59 VAL 59 A MET 60 n 60 MET 60 A GLY 61 n 61 GLY 61 A ILE 62 n 62 ILE 62 A PRO 63 n 63 PRO 63 A VAL 64 n 64 VAL 64 A PRO 65 n 65 PRO 65 A PHE 66 n 66 PHE 66 A PRO 67 n 67 PRO 67 A ILE 68 n 68 ILE 68 A PRO 69 n 69 PRO 69 A GLU 70 n 70 GLU 70 A SER 71 n 71 SER 71 A ASP 72 n 72 ASP 72 A GLY 73 n 73 GLY 73 A CYS 74 n 74 CYS 74 A LYS 75 n 75 LYS 75 A SER 76 n 76 SER 76 A GLY 77 n 77 GLY 77 A ILE 78 n 78 ILE 78 A ARG 79 n 79 ARG 79 A CYS 80 n 80 CYS 80 A PRO 81 n 81 PRO 81 A ILE 82 n 82 ILE 82 A GLU 83 n 83 GLU 83 A LYS 84 n 84 LYS 84 A ASP 85 n 85 ASP 85 A LYS 86 n 86 LYS 86 A THR 87 n 87 THR 87 A TYR 88 n 88 TYR 88 A ASN 89 n 89 ASN 89 A TYR 90 n 90 TYR 90 A VAL 91 n 91 VAL 91 A ASN 92 n 92 ASN 92 A LYS 93 n 93 LYS 93 A LEU 94 n 94 LEU 94 A PRO 95 n 95 PRO 95 A VAL 96 n 96 VAL 96 A LYS 97 n 97 LYS 97 A ASN 98 n 98 ASN 98 A GLU 99 n 99 GLU 99 A TYR 100 n 100 TYR 100 A PRO 101 n 101 PRO 101 A SER 102 n 102 SER 102 A ILE 103 n 103 ILE 103 A LYS 104 n 104 LYS 104 A VAL 105 n 105 VAL 105 A VAL 106 n 106 VAL 106 A VAL 107 n 107 VAL 107 A GLU 108 n 108 GLU 108 A TRP 109 n 109 TRP 109 A GLU 110 n 110 GLU 110 A LEU 111 n 111 LEU 111 A THR 112 n 112 THR 112 A ASP 113 n 113 ASP 113 A ASP 114 n 114 ASP 114 A LYS 115 n 115 LYS 115 A ASN 116 n 116 ASN 116 A GLN 117 n 117 GLN 117 A ARG 118 n 118 ARG 118 A PHE 119 n 119 PHE 119 A PHE 120 n 120 PHE 120 A CYS 121 n 121 CYS 121 A TRP 122 n 122 TRP 122 A GLN 123 n 123 GLN 123 A ILE 124 n 124 ILE 124 A PRO 125 n 125 PRO 125 A ILE 126 n 126 ILE 126 A GLU 127 n 127 GLU 127 A VAL 128 n 128 VAL 128 A GLU 129 n 129 GLU 129 A ALA 130 n 130 ALA 130 A author_defined_assembly 1 monomeric A ASN 39 GLYCOSYLATION SITE A ASN 39 ASN 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 O VAL 64 A O VAL 64 A N GLY 57 A N GLY 57 A N ILE 58 A N ILE 58 A O VAL 106 A O VAL 106 A N VAL 107 A N VAL 107 A O ILE 124 A O ILE 124 A O GLN 123 A O GLN 123 A N LYS 6 A N LYS 6 A O VAL 64 A O VAL 64 A N GLY 57 A N GLY 57 A N ILE 58 A N ILE 58 A O VAL 106 A O VAL 106 A N VAL 107 A N VAL 107 A O ILE 124 A O ILE 124 A O GLU 127 A O GLU 127 A N CYS 28 A N CYS 28 A N SER 21 A N SER 21 A O SER 37 A O SER 37 A N PHE 42 A N PHE 42 A O TYR 88 A O TYR 88 1 A HOH 292 D HOH 1 A CYS 23 -159.05 60.10 1 A ASP 113 -101.76 -168.74 PROTEIN_REP.PARAM PROTEIN.TOP WATER_REP.PARAM NAG_XPLOR_TOP.TXT PO4.PARAM NAG_XPLOR_PAR.TXT 12.1 0.2123 0.007 0.1945 0.1945 1.70 19.64 901 18534 18475 4.9 99.7 RANDOM 1 RESTRAINED THROUGHOUT 0 SAD FLAT MODEL 51.9511 0.420042 0.21 1.70 19.64 101 1146 19 0 1026 0.010 1.6 27.2 1.07 0.74 1.50 1.14 2.00 1.55 2.00 2.12 2.50 0.216 0.018 0.197 1.81 148 2892 6 4.9 99.3 10.9 1.40 19.64 1NEP 32967 1 data reduction DENZO data scaling SCALEPACK refinement CNS phasing CNS Epididymal secretory protein E1 Crystal Structure Analysis of the Bovine NPC2 (Niemann-Pick C2) Protein 1 N N 2 N N 3 N N 4 N N A ASP 72 A ASP 72 HELX_P A SER 76 A SER 76 5 1 5 disulf 2.052 A CYS 8 A SG CYS 8 1_555 A CYS 121 A SG CYS 121 1_555 disulf 2.042 A CYS 23 A SG CYS 23 1_555 A CYS 28 A SG CYS 28 1_555 disulf 2.032 A CYS 74 A SG CYS 74 1_555 A CYS 80 A SG CYS 80 1_555 covale 1.463 one N-Glycosylation A ASN 39 A ND2 ASN 39 1_555 A NAG 402 B C1 NAG 1_555 LIPID BINDING PROTEIN NPC2, bNPC2, Niemann-Pick C2, LDL, cholesterol, LIPID BINDING PROTEIN A SER 21 A SER 21 1 A PRO 22 A PRO 22 0.14 A GLN 26 A GLN 26 1 A PRO 27 A PRO 27 -0.64 A CYS 80 A CYS 80 1 A PRO 81 A PRO 81 0.42 NPC2_BOVIN UNP 1 20 P79345 EPVKFKDCGSWVGVIKEVNVSPCPTQPCKLHRGQSYSVNVTFTSNTQSQSSKAVVHGIVMGIPVPFPIPESDGCKSGIRC PIEKDKTYNYVNKLPVKNEYPSIKVVVEWELTDDKNQRFFCWQIPIEVEA 20 149 1NEP 1 130 P79345 A 1 1 130 5 5 3 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel anti-parallel A ILE 62 A ILE 62 A PRO 65 A PRO 65 A LYS 52 A LYS 52 A VAL 59 A VAL 59 A LYS 104 A LYS 104 A THR 112 A THR 112 A ARG 118 A ARG 118 A GLU 129 A GLU 129 A LYS 6 A LYS 6 A ASP 7 A ASP 7 A ILE 62 A ILE 62 A PRO 65 A PRO 65 A LYS 52 A LYS 52 A VAL 59 A VAL 59 A LYS 104 A LYS 104 A THR 112 A THR 112 A ARG 118 A ARG 118 A GLU 129 A GLU 129 A CYS 28 A CYS 28 A HIS 31 A HIS 31 A GLY 13 A GLY 13 A SER 21 A SER 21 A SER 35 A SER 35 A SER 44 A SER 44 A THR 87 A THR 87 A PRO 95 A PRO 95 197 I 2 3