0.022753 0.000000 0.000000 0.000000 0.011485 0.000000 0.000000 0.000000 0.028043 0.00000 0.00000 0.00000 Kashiwagi, T. Jeanteur, D. Haruki, M. Katayanagi, K. Kanaya, S. Morikawa, K. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 43.950 87.070 35.660 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 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 UK Protein Eng. PRENE9 0859 0269-2139 9 857 867 10.1093/protein/9.10.857 8931125 Proposal for new catalytic roles for two invariant residues in Escherichia coli ribonuclease HI. 1996 US Proteins PSFGEY 0867 0887-3585 17 337 Crystal Structure of Escherichia Coli Rnase Hi in Complex with Mg2+ at 2.8 A Resolution: Proof for a Single Mg(2+)-Binding Site 1993 UK J.Mol.Biol. JMOBAK 0070 0022-2836 223 1029 Structural Details of Ribonuclease H from Escherichia Coli as Refined to an Atomic Resolution 1992 US Science SCIEAS 0038 0036-8075 249 1398 Structure of Ribonuclease H Phased at 2 A Resolution by MAD Analysis of the Selenomethionyl Protein 1990 UK Nature NATUAS 0006 0028-0836 347 306 Three-Dimensional Structure of Ribonuclease H from E. Coli 1990 10.2210/pdb1kva/pdb pdb_00001kva 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1 DIFFRACTOMETER 1993-05-29 ENRAF-NONIUS FAST M x-ray 1 1.5418 1.0 1.5418 17578.988 RIBONUCLEASE H 3.1.26.4 D134A 1 man polymer 18.015 water 173 nat water RNASE H no no MLKQVEIFTDGSCLGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEHCEVILSTDSQYVRQGITQ WIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGHPENERCAELARAAAMNPTLEDTGYQVEV MLKQVEIFTDGSCLGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEHCEVILSTDSQYVRQGITQ WIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGHPENERCAELARAAAMNPTLEDTGYQVEV 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 Escherichia MIC3001 Escherichia sample 562 Escherichia coli RNHA 562 Escherichia coli PJAL134A 1.94 36.9 diffrn_detector pdbx_database_status database_2 struct_conn struct_ref_seq_dif repository Initial release Version format compliance Version format compliance Data collection Other Database references Derived calculations 1 0 1997-03-12 1 1 2008-03-24 1 2 2011-07-13 1 3 2018-04-18 1 4 2021-11-03 _diffrn_detector.detector _pdbx_database_status.process_site _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_symmetry _struct_ref_seq_dif.details Y BNL 1996-10-04 REL REL HOH water HOH 201 2 HOH HOH 201 A HOH 202 2 HOH HOH 202 A HOH 203 2 HOH HOH 203 A HOH 204 2 HOH HOH 204 A HOH 205 2 HOH HOH 205 A HOH 206 2 HOH HOH 206 A HOH 207 2 HOH HOH 207 A HOH 208 2 HOH HOH 208 A HOH 209 2 HOH HOH 209 A HOH 210 2 HOH HOH 210 A HOH 211 2 HOH HOH 211 A HOH 212 2 HOH HOH 212 A HOH 213 2 HOH HOH 213 A HOH 214 2 HOH HOH 214 A HOH 215 2 HOH HOH 215 A HOH 216 2 HOH HOH 216 A HOH 217 2 HOH HOH 217 A HOH 218 2 HOH HOH 218 A HOH 219 2 HOH HOH 219 A HOH 220 2 HOH HOH 220 A HOH 221 2 HOH HOH 221 A HOH 222 2 HOH HOH 222 A HOH 223 2 HOH HOH 223 A HOH 224 2 HOH HOH 224 A HOH 225 2 HOH HOH 225 A HOH 226 2 HOH HOH 226 A HOH 227 2 HOH HOH 227 A HOH 228 2 HOH HOH 228 A HOH 229 2 HOH HOH 229 A HOH 230 2 HOH HOH 230 A HOH 231 2 HOH HOH 231 A HOH 232 2 HOH HOH 232 A HOH 233 2 HOH HOH 233 A HOH 234 2 HOH HOH 234 A HOH 235 2 HOH HOH 235 A HOH 236 2 HOH HOH 236 A HOH 237 2 HOH HOH 237 A HOH 238 2 HOH HOH 238 A HOH 239 2 HOH HOH 239 A HOH 240 2 HOH HOH 240 A HOH 241 2 HOH HOH 241 A HOH 242 2 HOH HOH 242 A HOH 243 2 HOH HOH 243 A HOH 244 2 HOH HOH 244 A HOH 245 2 HOH HOH 245 A HOH 246 2 HOH HOH 246 A HOH 247 2 HOH HOH 247 A HOH 248 2 HOH HOH 248 A HOH 249 2 HOH HOH 249 A HOH 250 2 HOH HOH 250 A HOH 251 2 HOH HOH 251 A HOH 252 2 HOH HOH 252 A HOH 253 2 HOH HOH 253 A HOH 254 2 HOH HOH 254 A HOH 255 2 HOH HOH 255 A HOH 256 2 HOH HOH 256 A HOH 257 2 HOH HOH 257 A HOH 258 2 HOH HOH 258 A HOH 259 2 HOH HOH 259 A HOH 260 2 HOH HOH 260 A HOH 261 2 HOH HOH 261 A HOH 262 2 HOH HOH 262 A HOH 263 2 HOH HOH 263 A HOH 264 2 HOH HOH 264 A HOH 265 2 HOH HOH 265 A HOH 266 2 HOH HOH 266 A HOH 267 2 HOH HOH 267 A HOH 268 2 HOH HOH 268 A HOH 269 2 HOH HOH 269 A HOH 270 2 HOH HOH 270 A HOH 271 2 HOH HOH 271 A HOH 272 2 HOH HOH 272 A HOH 273 2 HOH HOH 273 A HOH 274 2 HOH HOH 274 A HOH 275 2 HOH HOH 275 A HOH 276 2 HOH HOH 276 A HOH 277 2 HOH HOH 277 A HOH 278 2 HOH HOH 278 A HOH 279 2 HOH HOH 279 A HOH 280 2 HOH HOH 280 A HOH 281 2 HOH HOH 281 A HOH 282 2 HOH HOH 282 A HOH 283 2 HOH HOH 283 A HOH 284 2 HOH HOH 284 A HOH 285 2 HOH HOH 285 A HOH 286 2 HOH HOH 286 A HOH 287 2 HOH HOH 287 A HOH 288 2 HOH HOH 288 A HOH 289 2 HOH HOH 289 A HOH 290 2 HOH HOH 290 A HOH 291 2 HOH HOH 291 A HOH 292 2 HOH HOH 292 A HOH 293 2 HOH HOH 293 A HOH 294 2 HOH HOH 294 A HOH 295 2 HOH HOH 295 A HOH 296 2 HOH HOH 296 A HOH 297 2 HOH HOH 297 A HOH 298 2 HOH HOH 298 A HOH 299 2 HOH HOH 299 A HOH 300 2 HOH HOH 300 A HOH 301 2 HOH HOH 301 A HOH 302 2 HOH HOH 302 A HOH 303 2 HOH HOH 303 A HOH 304 2 HOH HOH 304 A HOH 305 2 HOH HOH 305 A HOH 306 2 HOH HOH 306 A HOH 307 2 HOH HOH 307 A HOH 308 2 HOH HOH 308 A HOH 309 2 HOH HOH 309 A HOH 310 2 HOH HOH 310 A HOH 311 2 HOH HOH 311 A HOH 312 2 HOH HOH 312 A HOH 313 2 HOH HOH 313 A HOH 314 2 HOH HOH 314 A HOH 315 2 HOH HOH 315 A HOH 316 2 HOH HOH 316 A HOH 317 2 HOH HOH 317 A HOH 318 2 HOH HOH 318 A HOH 319 2 HOH HOH 319 A HOH 320 2 HOH HOH 320 A HOH 321 2 HOH HOH 321 A HOH 322 2 HOH HOH 322 A HOH 323 2 HOH HOH 323 A HOH 324 2 HOH HOH 324 A HOH 325 2 HOH HOH 325 A HOH 326 2 HOH HOH 326 A HOH 327 2 HOH HOH 327 A HOH 328 2 HOH HOH 328 A HOH 329 2 HOH HOH 329 A HOH 330 2 HOH HOH 330 A HOH 331 2 HOH HOH 331 A HOH 332 2 HOH HOH 332 A HOH 333 2 HOH HOH 333 A HOH 334 2 HOH HOH 334 A HOH 335 2 HOH HOH 335 A HOH 336 2 HOH HOH 336 A HOH 337 2 HOH HOH 337 A HOH 338 2 HOH HOH 338 A HOH 339 2 HOH HOH 339 A HOH 340 2 HOH HOH 340 A HOH 341 2 HOH HOH 341 A HOH 342 2 HOH HOH 342 A HOH 343 2 HOH HOH 343 A HOH 344 2 HOH HOH 344 A HOH 345 2 HOH HOH 345 A HOH 346 2 HOH HOH 346 A HOH 347 2 HOH HOH 347 A HOH 348 2 HOH HOH 348 A HOH 349 2 HOH HOH 349 A HOH 350 2 HOH HOH 350 A HOH 351 2 HOH HOH 351 A HOH 352 2 HOH HOH 352 A HOH 353 2 HOH HOH 353 A HOH 354 2 HOH HOH 354 A HOH 355 2 HOH HOH 355 A HOH 356 2 HOH HOH 356 A HOH 357 2 HOH HOH 357 A HOH 358 2 HOH HOH 358 A HOH 359 2 HOH HOH 359 A HOH 360 2 HOH HOH 360 A HOH 361 2 HOH HOH 361 A HOH 362 2 HOH HOH 362 A HOH 363 2 HOH HOH 363 A HOH 364 2 HOH HOH 364 A HOH 365 2 HOH HOH 365 A HOH 366 2 HOH HOH 366 A HOH 367 2 HOH HOH 367 A HOH 368 2 HOH HOH 368 A HOH 369 2 HOH HOH 369 A HOH 370 2 HOH HOH 370 A HOH 371 2 HOH HOH 371 A HOH 372 2 HOH HOH 372 A HOH 373 2 HOH HOH 373 A MET 1 n 1 MET 1 A LEU 2 n 2 LEU 2 A LYS 3 n 3 LYS 3 A GLN 4 n 4 GLN 4 A VAL 5 n 5 VAL 5 A GLU 6 n 6 GLU 6 A ILE 7 n 7 ILE 7 A PHE 8 n 8 PHE 8 A THR 9 n 9 THR 9 A ASP 10 n 10 ASP 10 A GLY 11 n 11 GLY 11 A SER 12 n 12 SER 12 A CYS 13 n 13 CYS 13 A LEU 14 n 14 LEU 14 A GLY 15 n 15 GLY 15 A ASN 16 n 16 ASN 16 A PRO 17 n 17 PRO 17 A GLY 18 n 18 GLY 18 A PRO 19 n 19 PRO 19 A GLY 20 n 20 GLY 20 A GLY 21 n 21 GLY 21 A TYR 22 n 22 TYR 22 A GLY 23 n 23 GLY 23 A ALA 24 n 24 ALA 24 A ILE 25 n 25 ILE 25 A LEU 26 n 26 LEU 26 A ARG 27 n 27 ARG 27 A TYR 28 n 28 TYR 28 A ARG 29 n 29 ARG 29 A GLY 30 n 30 GLY 30 A ARG 31 n 31 ARG 31 A GLU 32 n 32 GLU 32 A LYS 33 n 33 LYS 33 A THR 34 n 34 THR 34 A PHE 35 n 35 PHE 35 A SER 36 n 36 SER 36 A ALA 37 n 37 ALA 37 A GLY 38 n 38 GLY 38 A TYR 39 n 39 TYR 39 A THR 40 n 40 THR 40 A ARG 41 n 41 ARG 41 A THR 42 n 42 THR 42 A THR 43 n 43 THR 43 A ASN 44 n 44 ASN 44 A ASN 45 n 45 ASN 45 A ARG 46 n 46 ARG 46 A MET 47 n 47 MET 47 A GLU 48 n 48 GLU 48 A LEU 49 n 49 LEU 49 A MET 50 n 50 MET 50 A ALA 51 n 51 ALA 51 A ALA 52 n 52 ALA 52 A ILE 53 n 53 ILE 53 A VAL 54 n 54 VAL 54 A ALA 55 n 55 ALA 55 A LEU 56 n 56 LEU 56 A GLU 57 n 57 GLU 57 A ALA 58 n 58 ALA 58 A LEU 59 n 59 LEU 59 A LYS 60 n 60 LYS 60 A GLU 61 n 61 GLU 61 A HIS 62 n 62 HIS 62 A CYS 63 n 63 CYS 63 A GLU 64 n 64 GLU 64 A VAL 65 n 65 VAL 65 A ILE 66 n 66 ILE 66 A LEU 67 n 67 LEU 67 A SER 68 n 68 SER 68 A THR 69 n 69 THR 69 A ASP 70 n 70 ASP 70 A SER 71 n 71 SER 71 A GLN 72 n 72 GLN 72 A TYR 73 n 73 TYR 73 A VAL 74 n 74 VAL 74 A ARG 75 n 75 ARG 75 A GLN 76 n 76 GLN 76 A GLY 77 n 77 GLY 77 A ILE 78 n 78 ILE 78 A THR 79 n 79 THR 79 A GLN 80 n 80 GLN 80 A TRP 81 n 81 TRP 81 A ILE 82 n 82 ILE 82 A HIS 83 n 83 HIS 83 A ASN 84 n 84 ASN 84 A TRP 85 n 85 TRP 85 A LYS 86 n 86 LYS 86 A LYS 87 n 87 LYS 87 A ARG 88 n 88 ARG 88 A GLY 89 n 89 GLY 89 A TRP 90 n 90 TRP 90 A LYS 91 n 91 LYS 91 A THR 92 n 92 THR 92 A ALA 93 n 93 ALA 93 A ASP 94 n 94 ASP 94 A LYS 95 n 95 LYS 95 A LYS 96 n 96 LYS 96 A PRO 97 n 97 PRO 97 A VAL 98 n 98 VAL 98 A LYS 99 n 99 LYS 99 A ASN 100 n 100 ASN 100 A VAL 101 n 101 VAL 101 A ASP 102 n 102 ASP 102 A LEU 103 n 103 LEU 103 A TRP 104 n 104 TRP 104 A GLN 105 n 105 GLN 105 A ARG 106 n 106 ARG 106 A LEU 107 n 107 LEU 107 A ASP 108 n 108 ASP 108 A ALA 109 n 109 ALA 109 A ALA 110 n 110 ALA 110 A LEU 111 n 111 LEU 111 A GLY 112 n 112 GLY 112 A GLN 113 n 113 GLN 113 A HIS 114 n 114 HIS 114 A GLN 115 n 115 GLN 115 A ILE 116 n 116 ILE 116 A LYS 117 n 117 LYS 117 A TRP 118 n 118 TRP 118 A GLU 119 n 119 GLU 119 A TRP 120 n 120 TRP 120 A VAL 121 n 121 VAL 121 A LYS 122 n 122 LYS 122 A GLY 123 n 123 GLY 123 A HIS 124 n 124 HIS 124 A ALA 125 n 125 ALA 125 A GLY 126 n 126 GLY 126 A HIS 127 n 127 HIS 127 A PRO 128 n 128 PRO 128 A GLU 129 n 129 GLU 129 A ASN 130 n 130 ASN 130 A GLU 131 n 131 GLU 131 A ARG 132 n 132 ARG 132 A CYS 133 n 133 CYS 133 A ALA 134 n 134 ALA 134 A GLU 135 n 135 GLU 135 A LEU 136 n 136 LEU 136 A ALA 137 n 137 ALA 137 A ARG 138 n 138 ARG 138 A ALA 139 n 139 ALA 139 A ALA 140 n 140 ALA 140 A ALA 141 n 141 ALA 141 A MET 142 n 142 MET 142 A ASN 143 n 143 ASN 143 A PRO 144 n 144 PRO 144 A THR 145 n 145 THR 145 A LEU 146 n 146 LEU 146 A GLU 147 n 147 GLU 147 A ASP 148 n 148 ASP 148 A THR 149 n 149 THR 149 A GLY 150 n 150 GLY 150 A TYR 151 n 151 TYR 151 A GLN 152 n 152 GLN 152 A VAL 153 n 153 VAL 153 A GLU 154 n 154 GLU 154 A VAL 155 n 155 VAL 155 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 ARG 31 A O ARG 31 A N TYR 28 A N TYR 28 A O GLY 21 A O GLY 21 A N SER 12 A N SER 12 A O VAL 5 A O VAL 5 A N ILE 66 A N ILE 66 A O VAL 65 A O VAL 65 A N GLN 115 A N GLN 115 1 A A O O HOH HOH 274 281 2.18 1 9.83 1.60 122.70 132.53 A A A O C N LEU LEU ARG 26 26 27 Y 1 -4.64 0.50 120.30 115.66 A A A NE CZ NH2 ARG ARG ARG 41 41 41 N 1 5.34 0.50 120.30 125.64 A A A NE CZ NH1 ARG ARG ARG 46 46 46 N 1 -4.37 0.50 120.30 115.93 A A A NE CZ NH2 ARG ARG ARG 46 46 46 N 1 -6.14 0.90 118.30 112.16 A A A CB CG OD2 ASP ASP ASP 70 70 70 N 1 5.95 0.50 120.30 126.25 A A A NE CZ NH1 ARG ARG ARG 132 132 132 N 1 -3.46 0.50 120.30 116.84 A A A NE CZ NH2 ARG ARG ARG 132 132 132 N 1 3.17 0.50 120.30 123.47 A A A NE CZ NH1 ARG ARG ARG 138 138 138 N 1 A A O O HOH HOH 285 300 2.03 1_555 4_555 1 A A O O HOH HOH 343 353 2.14 1_555 2_454 1 A ASN 16 -154.11 75.55 1 A ARG 29 66.99 -72.85 1 A GLU 154 -54.23 -85.53 26.52 IDEAL BOND LENGTHS AND ANGLES USED DURING REFINEMENT: HENDRICKSON AND KONNERT INITIAL REFINEMENTS WERE DONE WITH X-PLOR 3.1 BY BRUNGER. 0.1970000 1.8 6.0 9918 1 1.0 1.8 6.0 173 1408 0 0 1235 0.015 0.020 0.031 0.030 0.043 0.050 1.221 1.500 1.861 2.000 1.980 2.000 2.958 2.500 0.013 0.020 0.158 0.150 0.177 0.300 0.212 0.300 0.248 0.300 2.5 3.0 19.1 15.0 28.9 20.0 1.8 1KVA 10270 0.5 0.0740000 1 3.06 77.1 model building X-PLOR 3.1 refinement PROLSQ refinement X-PLOR 3.1 data reduction MADNES phasing X-PLOR 3.1 E. COLI RIBONUCLEASE HI D134A MUTANT 1 N N 2 N N A ASN 44 A ASN 44 HELX_P A ALA 58 A ALA 58 1 1 15 A GLN 72 A GLN 72 HELX_P A GLN 80 A GLN 80 1 2 9 A ILE 82 A ILE 82 HELX_P A LYS 87 A LYS 87 1 3 6 A VAL 101 A VAL 101 HELX_P A GLN 113 A GLN 113 1 4 13 A PRO 128 A PRO 128 HELX_P A MET 142 A MET 142 1 5 15 covale 2.145 none A LYS 122 A NZ LYS 122 1_554 A GLU 147 A OE1 GLU 147 1_555 covale 2.145 none A LYS 122 A NZ LYS 122 1_555 A GLU 147 A OE1 GLU 147 1_556 ENDORIBONUCLEASE HYDROLASE, ENDORIBONUCLEASE, MUTANT A ASN 16 A ASN 16 1 A PRO 17 A PRO 17 2.58 RNH_ECOLI UNP 1 1 P0A7Y4 MLKQVEIFTDGSCLGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEHCEVILSTDSQYVRQGITQ WIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLEDTGYQVEV 1 155 1KVA 1 155 P0A7Y4 A 1 1 155 1 ASP engineered mutation ALA 134 1KVA A P0A7Y4 UNP 134 134 5 anti-parallel anti-parallel parallel parallel A ARG 31 A ARG 31 A TYR 39 A TYR 39 A GLY 20 A GLY 20 A TYR 28 A TYR 28 A VAL 5 A VAL 5 A CYS 13 A CYS 13 A GLU 64 A GLU 64 A THR 69 A THR 69 A GLN 115 A GLN 115 A TRP 120 A TRP 120 19 P 21 21 21