0.022795 0.000000 0.000000 0.000000 0.018943 0.000000 0.000000 0.000000 0.012644 0.00000 0.00000 0.00000 Sidhu, G. Brayer, G.D. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 43.870 52.790 79.090 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 H9 F O3 136.122 1,5-anhydro-2-deoxy-2-fluoro-D-xylitol D-saccharide 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 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 C5 H11 N O2 117.146 y VALINE L-peptide linking C5 H10 O5 150.130 beta-D-xylopyranose D-saccharide, beta linking US Biochemistry BICHAW 0033 0006-2960 38 5346 5354 10.1021/bi982946f 10220321 Sugar ring distortion in the glycosyl-enzyme intermediate of a family G/11 xylanase. 1999 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 298 1 IMAGE PLATE RIGAKU RAXIS IIC M x-ray 1 1.5418 1.0 1.5418 ROTATING ANODE RIGAKU RUH3R 2-DEOXY-2-FLUORO-XYLOBIOSE COVALENTLY BONDED TO GLU 78 OE2 20409.004 ENDO-1,4-BETA-XYLANASE 3.2.1.8 1 man polymer 268.237 beta-D-xylopyranose-(1-4)-1,5-anhydro-2-deoxy-2-fluoro-D-xylitol 1 man branched 18.015 water 117 nat water BCX no no ASTDYWQNWTDGGGIVNAVNGSGGNYSVNWSNTGNFVVGKGWTTGSPFRTINYNAGVWAPNGNGYLTLYGWTRSPLIEYY VVDSWGTYRPTGTYKGTVKSDGGTYDIYTTTRYNAPSIDGDRTTFTQYWSVRQSKRPTGSNATITFTNHVNAWKSHGMNL GSNWAYQVMATEGYQSSGSSNVTVW ASTDYWQNWTDGGGIVNAVNGSGGNYSVNWSNTGNFVVGKGWTTGSPFRTINYNAGVWAPNGNGYLTLYGWTRSPLIEYY VVDSWGTYRPTGTYKGTVKSDGGTYDIYTTTRYNAPSIDGDRTTFTQYWSVRQSKRPTGSNATITFTNHVNAWKSHGMNL GSNWAYQVMATEGYQSSGSSNVTVW 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 Bacillus Escherichia sample 1397 Bacillus circulans 562 Escherichia coli 1 2.24 45.16 7.5 pH 7.5 atom_site chem_comp entity pdbx_branch_scheme pdbx_chem_comp_identifier pdbx_database_status pdbx_entity_branch pdbx_entity_branch_descriptor pdbx_entity_branch_link pdbx_entity_branch_list pdbx_entity_nonpoly pdbx_nonpoly_scheme pdbx_struct_assembly_gen struct_asym struct_conn struct_site struct_site_gen repository Initial release Carbohydrate remediation repository Remediation Version format compliance Version format compliance Atomic model Data collection Derived calculations Other Structure summary 1 0 1999-06-08 1 1 2008-03-24 1 2 2011-07-13 2 0 2020-07-29 _atom_site.B_iso_or_equiv _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.auth_asym_id _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.label_asym_id _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_entity_id _atom_site.type_symbol _chem_comp.name _chem_comp.type _pdbx_database_status.process_site _pdbx_struct_assembly_gen.asym_id_list _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_asym_id _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_asym_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 DFX 502 n B DFX 1 XYS 501 n B XYP 2 D-1-deoxy-Xylp2fluoro DXylpb b-D-xylopyranose b-D-Xylp Xyl Y BNL 1998-09-18 REL oligosaccharide WURCS=2.0/2,2,1/[h212h_1-5_2*F][a212h-1b_1-5]/1-2/a4-b1 2 PDB2Glycan 1.1.0 WURCS [][<C5O2F1>]{[(1+1)][b-D-Xylp]{}} 2 PDB-CARE LINUCS C1 O4 XYP DFX 2 1 2 O1 HO4 sing n n HOH water HOH 186 3 HOH HOH 186 A HOH 187 3 HOH HOH 187 A HOH 188 3 HOH HOH 188 A HOH 189 3 HOH HOH 189 A HOH 190 3 HOH HOH 190 A HOH 191 3 HOH HOH 191 A HOH 192 3 HOH HOH 192 A HOH 193 3 HOH HOH 193 A HOH 194 3 HOH HOH 194 A HOH 195 3 HOH HOH 195 A HOH 196 3 HOH HOH 196 A HOH 197 3 HOH HOH 197 A HOH 198 3 HOH HOH 198 A HOH 199 3 HOH HOH 199 A HOH 200 3 HOH HOH 200 A HOH 201 3 HOH HOH 201 A HOH 202 3 HOH HOH 202 A HOH 203 3 HOH HOH 203 A HOH 204 3 HOH HOH 204 A HOH 205 3 HOH HOH 205 A HOH 206 3 HOH HOH 206 A HOH 207 3 HOH HOH 207 A HOH 208 3 HOH HOH 208 A HOH 209 3 HOH HOH 209 A HOH 210 3 HOH HOH 210 A HOH 211 3 HOH HOH 211 A HOH 212 3 HOH HOH 212 A HOH 213 3 HOH HOH 213 A HOH 214 3 HOH HOH 214 A HOH 215 3 HOH HOH 215 A HOH 216 3 HOH HOH 216 A HOH 217 3 HOH HOH 217 A HOH 218 3 HOH HOH 218 A HOH 219 3 HOH HOH 219 A HOH 220 3 HOH HOH 220 A HOH 221 3 HOH HOH 221 A HOH 222 3 HOH HOH 222 A HOH 223 3 HOH HOH 223 A HOH 224 3 HOH HOH 224 A HOH 225 3 HOH HOH 225 A HOH 226 3 HOH HOH 226 A HOH 227 3 HOH HOH 227 A HOH 228 3 HOH HOH 228 A HOH 229 3 HOH HOH 229 A HOH 230 3 HOH HOH 230 A HOH 231 3 HOH HOH 231 A HOH 232 3 HOH HOH 232 A HOH 233 3 HOH HOH 233 A HOH 234 3 HOH HOH 234 A HOH 235 3 HOH HOH 235 A HOH 236 3 HOH HOH 236 A HOH 237 3 HOH HOH 237 A HOH 238 3 HOH HOH 238 A HOH 239 3 HOH HOH 239 A HOH 240 3 HOH HOH 240 A HOH 241 3 HOH HOH 241 A HOH 242 3 HOH HOH 242 A HOH 243 3 HOH HOH 243 A HOH 244 3 HOH HOH 244 A HOH 245 3 HOH HOH 245 A HOH 246 3 HOH HOH 246 A HOH 247 3 HOH HOH 247 A HOH 248 3 HOH HOH 248 A HOH 249 3 HOH HOH 249 A HOH 250 3 HOH HOH 250 A HOH 251 3 HOH HOH 251 A HOH 252 3 HOH HOH 252 A HOH 253 3 HOH HOH 253 A HOH 254 3 HOH HOH 254 A HOH 255 3 HOH HOH 255 A HOH 256 3 HOH HOH 256 A HOH 257 3 HOH HOH 257 A HOH 258 3 HOH HOH 258 A HOH 259 3 HOH HOH 259 A HOH 260 3 HOH HOH 260 A HOH 261 3 HOH HOH 261 A HOH 262 3 HOH HOH 262 A HOH 263 3 HOH HOH 263 A HOH 264 3 HOH HOH 264 A HOH 265 3 HOH HOH 265 A HOH 266 3 HOH HOH 266 A HOH 267 3 HOH HOH 267 A HOH 268 3 HOH HOH 268 A HOH 269 3 HOH HOH 269 A HOH 270 3 HOH HOH 270 A HOH 271 3 HOH HOH 271 A HOH 272 3 HOH HOH 272 A HOH 273 3 HOH HOH 273 A HOH 274 3 HOH HOH 274 A HOH 275 3 HOH HOH 275 A HOH 276 3 HOH HOH 276 A HOH 277 3 HOH HOH 277 A HOH 278 3 HOH HOH 278 A HOH 279 3 HOH HOH 279 A HOH 280 3 HOH HOH 280 A HOH 281 3 HOH HOH 281 A HOH 282 3 HOH HOH 282 A HOH 283 3 HOH HOH 283 A HOH 284 3 HOH HOH 284 A HOH 285 3 HOH HOH 285 A HOH 286 3 HOH HOH 286 A HOH 287 3 HOH HOH 287 A HOH 288 3 HOH HOH 288 A HOH 289 3 HOH HOH 289 A HOH 290 3 HOH HOH 290 A HOH 291 3 HOH HOH 291 A HOH 292 3 HOH HOH 292 A HOH 293 3 HOH HOH 293 A HOH 294 3 HOH HOH 294 A HOH 295 3 HOH HOH 295 A HOH 296 3 HOH HOH 296 A HOH 297 3 HOH HOH 297 A HOH 298 3 HOH HOH 298 A HOH 299 3 HOH HOH 299 A HOH 300 3 HOH HOH 300 A HOH 301 3 HOH HOH 301 A HOH 302 3 HOH HOH 302 A ALA 1 n 1 ALA 1 A SER 2 n 2 SER 2 A THR 3 n 3 THR 3 A ASP 4 n 4 ASP 4 A TYR 5 n 5 TYR 5 A TRP 6 n 6 TRP 6 A GLN 7 n 7 GLN 7 A ASN 8 n 8 ASN 8 A TRP 9 n 9 TRP 9 A THR 10 n 10 THR 10 A ASP 11 n 11 ASP 11 A GLY 12 n 12 GLY 12 A GLY 13 n 13 GLY 13 A GLY 14 n 14 GLY 14 A ILE 15 n 15 ILE 15 A VAL 16 n 16 VAL 16 A ASN 17 n 17 ASN 17 A ALA 18 n 18 ALA 18 A VAL 19 n 19 VAL 19 A ASN 20 n 20 ASN 20 A GLY 21 n 21 GLY 21 A SER 22 n 22 SER 22 A GLY 23 n 23 GLY 23 A GLY 24 n 24 GLY 24 A ASN 25 n 25 ASN 25 A TYR 26 n 26 TYR 26 A SER 27 n 27 SER 27 A VAL 28 n 28 VAL 28 A ASN 29 n 29 ASN 29 A TRP 30 n 30 TRP 30 A SER 31 n 31 SER 31 A ASN 32 n 32 ASN 32 A THR 33 n 33 THR 33 A GLY 34 n 34 GLY 34 A ASN 35 n 35 ASN 35 A PHE 36 n 36 PHE 36 A VAL 37 n 37 VAL 37 A VAL 38 n 38 VAL 38 A GLY 39 n 39 GLY 39 A LYS 40 n 40 LYS 40 A GLY 41 n 41 GLY 41 A TRP 42 n 42 TRP 42 A THR 43 n 43 THR 43 A THR 44 n 44 THR 44 A GLY 45 n 45 GLY 45 A SER 46 n 46 SER 46 A PRO 47 n 47 PRO 47 A PHE 48 n 48 PHE 48 A ARG 49 n 49 ARG 49 A THR 50 n 50 THR 50 A ILE 51 n 51 ILE 51 A ASN 52 n 52 ASN 52 A TYR 53 n 53 TYR 53 A ASN 54 n 54 ASN 54 A ALA 55 n 55 ALA 55 A GLY 56 n 56 GLY 56 A VAL 57 n 57 VAL 57 A TRP 58 n 58 TRP 58 A ALA 59 n 59 ALA 59 A PRO 60 n 60 PRO 60 A ASN 61 n 61 ASN 61 A GLY 62 n 62 GLY 62 A ASN 63 n 63 ASN 63 A GLY 64 n 64 GLY 64 A TYR 65 n 65 TYR 65 A LEU 66 n 66 LEU 66 A THR 67 n 67 THR 67 A LEU 68 n 68 LEU 68 A TYR 69 n 69 TYR 69 A GLY 70 n 70 GLY 70 A TRP 71 n 71 TRP 71 A THR 72 n 72 THR 72 A ARG 73 n 73 ARG 73 A SER 74 n 74 SER 74 A PRO 75 n 75 PRO 75 A LEU 76 n 76 LEU 76 A ILE 77 n 77 ILE 77 A GLU 78 n 78 GLU 78 A TYR 79 n 79 TYR 79 A TYR 80 n 80 TYR 80 A VAL 81 n 81 VAL 81 A VAL 82 n 82 VAL 82 A ASP 83 n 83 ASP 83 A SER 84 n 84 SER 84 A TRP 85 n 85 TRP 85 A GLY 86 n 86 GLY 86 A THR 87 n 87 THR 87 A TYR 88 n 88 TYR 88 A ARG 89 n 89 ARG 89 A PRO 90 n 90 PRO 90 A THR 91 n 91 THR 91 A GLY 92 n 92 GLY 92 A THR 93 n 93 THR 93 A TYR 94 n 94 TYR 94 A LYS 95 n 95 LYS 95 A GLY 96 n 96 GLY 96 A THR 97 n 97 THR 97 A VAL 98 n 98 VAL 98 A LYS 99 n 99 LYS 99 A SER 100 n 100 SER 100 A ASP 101 n 101 ASP 101 A GLY 102 n 102 GLY 102 A GLY 103 n 103 GLY 103 A THR 104 n 104 THR 104 A TYR 105 n 105 TYR 105 A ASP 106 n 106 ASP 106 A ILE 107 n 107 ILE 107 A TYR 108 n 108 TYR 108 A THR 109 n 109 THR 109 A THR 110 n 110 THR 110 A THR 111 n 111 THR 111 A ARG 112 n 112 ARG 112 A TYR 113 n 113 TYR 113 A ASN 114 n 114 ASN 114 A ALA 115 n 115 ALA 115 A PRO 116 n 116 PRO 116 A SER 117 n 117 SER 117 A ILE 118 n 118 ILE 118 A ASP 119 n 119 ASP 119 A GLY 120 n 120 GLY 120 A ASP 121 n 121 ASP 121 A ARG 122 n 122 ARG 122 A THR 123 n 123 THR 123 A THR 124 n 124 THR 124 A PHE 125 n 125 PHE 125 A THR 126 n 126 THR 126 A GLN 127 n 127 GLN 127 A TYR 128 n 128 TYR 128 A TRP 129 n 129 TRP 129 A SER 130 n 130 SER 130 A VAL 131 n 131 VAL 131 A ARG 132 n 132 ARG 132 A GLN 133 n 133 GLN 133 A SER 134 n 134 SER 134 A LYS 135 n 135 LYS 135 A ARG 136 n 136 ARG 136 A PRO 137 n 137 PRO 137 A THR 138 n 138 THR 138 A GLY 139 n 139 GLY 139 A SER 140 n 140 SER 140 A ASN 141 n 141 ASN 141 A ALA 142 n 142 ALA 142 A THR 143 n 143 THR 143 A ILE 144 n 144 ILE 144 A THR 145 n 145 THR 145 A PHE 146 n 146 PHE 146 A THR 147 n 147 THR 147 A ASN 148 n 148 ASN 148 A HIS 149 n 149 HIS 149 A VAL 150 n 150 VAL 150 A ASN 151 n 151 ASN 151 A ALA 152 n 152 ALA 152 A TRP 153 n 153 TRP 153 A LYS 154 n 154 LYS 154 A SER 155 n 155 SER 155 A HIS 156 n 156 HIS 156 A GLY 157 n 157 GLY 157 A MET 158 n 158 MET 158 A ASN 159 n 159 ASN 159 A LEU 160 n 160 LEU 160 A GLY 161 n 161 GLY 161 A SER 162 n 162 SER 162 A ASN 163 n 163 ASN 163 A TRP 164 n 164 TRP 164 A ALA 165 n 165 ALA 165 A TYR 166 n 166 TYR 166 A GLN 167 n 167 GLN 167 A VAL 168 n 168 VAL 168 A MET 169 n 169 MET 169 A ALA 170 n 170 ALA 170 A THR 171 n 171 THR 171 A GLU 172 n 172 GLU 172 A GLY 173 n 173 GLY 173 A TYR 174 n 174 TYR 174 A GLN 175 n 175 GLN 175 A SER 176 n 176 SER 176 A SER 177 n 177 SER 177 A GLY 178 n 178 GLY 178 A SER 179 n 179 SER 179 A SER 180 n 180 SER 180 A ASN 181 n 181 ASN 181 A VAL 182 n 182 VAL 182 A THR 183 n 183 THR 183 A VAL 184 n 184 VAL 184 A TRP 185 n 185 TRP 185 A author_defined_assembly 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 A O TYR 5 A O TYR 5 A N GLY 41 A N GLY 41 A O PHE 36 A O PHE 36 A N GLY 173 A N GLY 173 A O VAL 168 A O VAL 168 A N TYR 69 A N TYR 69 A O LEU 66 A O LEU 66 A N SER 84 A N SER 84 A O GLU 78 A O GLU 78 A N THR 126 A N THR 126 A O PHE 125 A O PHE 125 A N ARG 112 A N ARG 112 A O GLY 103 A O GLY 103 A N SER 100 A N SER 100 A O ILE 15 A O ILE 15 A N SER 31 A N SER 31 A O TYR 26 A O TYR 26 A N VAL 182 A N VAL 182 A O SER 179 A O SER 179 A N ALA 59 A N ALA 59 A O ILE 51 A O ILE 51 A N ILE 144 A N ILE 144 1 -16.37 2.50 113.10 96.73 A A A N CA C GLY GLY GLY 34 34 34 N 1 A ASP 121 62.28 -141.20 1 A ALA 165 -99.60 -157.95 0.189 0.189 1.8 10 17492 99 1 0.0 1.8 10 117 1583 18 0 1448 0.007 1.128 1.8 10 1BVV 17727 0 0.073 1 13.6 7.8 99 model building X-PLOR refinement X-PLOR data reduction DENZO data scaling SCALEPACK phasing X-PLOR ENDO-1,4-BETA-XYLANASE, 1,2-DEOXY-2-FLUORO-XYLOPYRANOSE SUGAR RING DISTORTION IN THE GLYCOSYL-ENZYME INTERMEDIATE OF A FAMILY G/11 XYLANASE 1 N N 2 N N 3 N N A PHE 146 A PHE 146 HELX_P A HIS 156 A HIS 156 1 1 11 covale 1.446 none A GLU 78 A OE2 GLU 78 1_555 B DFX 1 B C1 DFX 1_555 covale 1.431 none B DFX 1 B O4 DFX 1_555 B XYP 2 B C1 XYP 1_555 HYDROLASE XYLANASE, GLYCOSIDASE, GLYCOSYL-ENZYME INTERMEDIATE, BOAT CONFORMATION, HYDROLASE, XYLAN DEGRADATION A SER 74 A SER 74 1 A PRO 75 A PRO 75 -0.24 XYNA_BACCI UNP 1 1 P09850 MFKFKKNFLVGLSAALMSISLFSATASAASTDYWQNWTDGGGIVNAVNGSGGNYSVNWSNTGNFVVGKGWTTGSPFRTIN YNAGVWAPNGNGYLTLYGWTRSPLIEYYVVDSWGTYRPTGTYKGTVKSDGGTYDIYTTTRYNAPSIDGDRTTFTQYWSVR QSKRPTGSNATITFTNHVNAWKSHGMNLGSNWAYQVMATEGYQSSGSSNVTVW 29 213 1BVV 1 185 P09850 A 1 1 185 8 5 anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A TYR 5 A TYR 5 A THR 10 A THR 10 A ASN 35 A ASN 35 A TRP 42 A TRP 42 A GLN 167 A GLN 167 A TYR 174 A TYR 174 A GLY 64 A GLY 64 A THR 72 A THR 72 A ILE 77 A ILE 77 A TRP 85 A TRP 85 A PHE 125 A PHE 125 A ARG 132 A ARG 132 A GLY 103 A GLY 103 A ARG 112 A ARG 112 A THR 93 A THR 93 A SER 100 A SER 100 A ILE 15 A ILE 15 A ASN 20 A ASN 20 A ASN 25 A ASN 25 A SER 31 A SER 31 A GLY 178 A GLY 178 A TRP 185 A TRP 185 A THR 50 A THR 50 A PRO 60 A PRO 60 A ALA 142 A ALA 142 A THR 145 A THR 145 THE NUCLEOPHILE TO WHICH THE INHIBITOR IS BOUND IS GLU 78. Unknown 1 THE ACID BASE CATALYST IS RESIDUE GLU 172. Unknown 1 A GLU 78 A GLU 78 1 1_555 A GLU 172 A GLU 172 1 1_555 19 P 21 21 21