0.022573 0.000000 0.000000 0.000000 0.022573 0.000000 0.000000 0.000000 0.040323 0.00000 0.00000 0.00000 Ramakrishnan, B. Sekharudu, C. Pan, B.C. Sundaralingam, M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.0 90.0 90.0 44.3 44.3 24.8 C10 H14 N5 O6 P 331.222 y 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE DNA linking C9 H14 N3 O7 P 307.197 y 2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE DNA linking C10 H14 N5 O7 P 347.221 y 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE DNA linking C10 H15 N2 O8 P 322.208 y THYMIDINE-5'-MONOPHOSPHATE DNA linking H2 O 18.015 WATER non-polymer Co H18 N6 3 161.116 COBALT HEXAMMINE(III) non-polymer N 1 N O N 2 N P N 3 N O N 4 N O N 5 N O N 6 N C N 7 R C N 8 N O N 9 S C N 10 N O N 11 N C N 12 R C Y 13 N N Y 14 N C Y 15 N N Y 16 N C Y 17 N C N 18 N N Y 19 N N Y 20 N C Y 21 N N Y 22 N C N 23 N H N 24 N H N 25 N H N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N O N 38 N P N 39 N O N 40 N O N 41 N O N 42 N C N 43 R C N 44 N O N 45 S C N 46 N O N 47 N C N 48 R C N 49 N N N 50 N C N 51 N O N 52 N N N 53 N C N 54 N N N 55 N C N 56 N C N 57 N H N 58 N H N 59 N H N 60 N H N 61 N H N 62 N H N 63 N H N 64 N H N 65 N H N 66 N H N 67 N H N 68 N H N 69 N H N 70 N H N 71 N O N 72 N P N 73 N O N 74 N O N 75 N O N 76 N C N 77 R C N 78 N O N 79 S C N 80 N O N 81 N C N 82 R C Y 83 N N Y 84 N C Y 85 N N Y 86 N C N 87 N C N 88 N O N 89 N N N 90 N C N 91 N N N 92 N N Y 93 N C N 94 N H N 95 N H N 96 N H N 97 N H N 98 N H N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N H N 105 N H N 106 N H N 107 N H N 108 N O N 109 N P N 110 N O N 111 N O N 112 N O N 113 N C N 114 R C N 115 N O N 116 S C N 117 N O N 118 N C N 119 R C N 120 N N N 121 N C N 122 N O N 123 N N N 124 N C N 125 N O N 126 N C N 127 N C N 128 N C N 129 N H N 130 N H N 131 N H N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N O N 145 N H N 146 N H N 147 N CO N 148 N N N 149 N N N 150 N N N 151 N N N 152 N N N 153 N N N 154 N H N 155 N H N 156 N H N 157 N H N 158 N H N 159 N H N 160 N H N 161 N H N 162 N H N 163 N H N 164 N H N 165 N H N 166 N H N 167 N H N 168 N H N 169 N H N 170 N H N 171 N H N 1 N sing N 2 N sing N 3 N doub N 4 N sing N 5 N sing N 6 N sing N 7 N sing N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N sing N 20 N sing N 21 N sing N 22 N sing N 23 N sing Y 24 N sing Y 25 N sing Y 26 N doub N 27 N sing Y 28 N sing Y 29 N sing Y 30 N doub N 31 N sing Y 32 N doub N 33 N sing N 34 N sing Y 35 N sing Y 36 N doub N 37 N sing Y 38 N sing N 39 N sing N 40 N sing N 41 N doub N 42 N sing N 43 N sing N 44 N sing N 45 N sing N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N doub N 65 N sing N 66 N doub N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N doub N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N doub N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing Y 97 N sing Y 98 N sing Y 99 N doub N 100 N sing Y 101 N sing N 102 N sing Y 103 N doub N 104 N doub N 105 N sing N 106 N sing N 107 N sing N 108 N sing N 109 N doub N 110 N sing N 111 N sing N 112 N sing N 113 N sing N 114 N sing N 115 N doub N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N sing N 136 N sing N 137 N sing N 138 N doub N 139 N sing N 140 N sing N 141 N sing N 142 N doub N 143 N sing N 144 N sing N 145 N doub N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N sing N 153 N sing N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N sing N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N sing N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing DK Acta Crystallogr.,Sect.D ABCRE6 0766 0907-4449 59 67 72 10.1107/S0907444902018917 12499541 Near-atomic resolution crystal structure of an A-DNA decamer d(CCCGATCGGG): cobalt hexammine interaction with A-DNA. 2003 10.2210/pdb1m77/pdb pdb_00001m77 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 mirrors AREA DETECTOR 1993-09-22 NICOLET graphite SINGLE WAVELENGTH M x-ray 1 1.5418 1.0 1.5418 ROTATING ANODE SIEMENS 3045.992 5'-D(*CP*CP*CP*GP*AP*TP*CP*GP*GP*G)-3' 1 syn polymer 161.116 COBALT HEXAMMINE(III) 1 syn non-polymer 18.015 water 34 nat water no no (DC)(DC)(DC)(DG)(DA)(DT)(DC)(DG)(DG)(DG) CCCGATCGGG A polydeoxyribonucleotide n n n n n n n n n n 1 1.91 35.50 VAPOR DIFFUSION, HANGING DROP 6.0 cobalt hexammine, cacodylate, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K 298 cobalt hexammine 1 cacodylate 1 1.441 1 19 A 1 A 10 0.027 A_DC1:DG10_A 1 -9.247 0.086 0.092 -0.093 7.020 1 19 A 2 A 9 -2.022 A_DC2:DG9_A 2 -17.995 0.182 -0.032 -0.230 -0.469 1 19 A 3 A 8 1.890 A_DC3:DG8_A 3 -17.396 0.258 0.135 -0.173 -17.409 1 19 A 4 A 7 -0.368 A_DG4:DC7_A 4 -11.261 -0.174 -0.354 -0.119 -7.473 1 20 A 5 A 6 0.517 A_DA5:DT6_A 5 -8.842 0.099 0.063 -0.151 7.473 1 20 A 6 A 5 0.517 A_DT6:DA5_A 6 -8.842 -0.099 0.063 -0.151 17.409 1 19 A 7 A 4 -0.368 A_DC7:DG4_A 7 -11.261 0.174 -0.354 -0.119 0.469 1 19 A 8 A 3 1.890 A_DG8:DC3_A 8 -17.396 -0.258 0.135 -0.173 -7.019 1 19 A 9 A 2 -2.022 A_DG9:DC2_A 9 -17.995 -0.182 -0.032 -0.230 -1.441 1 19 A 10 A 1 0.027 A_DG10:DC1_A 10 -9.247 -0.086 0.092 -0.093 3.079 37.624 A A 1 2 4.749 A A 10 9 3.166 3.058 -0.349 -1.153 AA_DC1DC2:DG9DG10_AA 1 -1.912 2.969 37.457 -2.167 0.303 3.257 32.100 A A 2 3 8.574 A A 9 8 3.543 4.722 0.486 -1.494 AA_DC2DC3:DG8DG9_AA 2 -1.981 3.596 31.700 -3.589 -1.251 2.413 37.664 A A 3 4 29.539 A A 8 7 3.639 18.312 -0.889 -1.626 AA_DC3DG4:DC7DG8_AA 3 1.032 -1.664 33.039 -4.875 1.510 1.856 27.852 A A 4 5 30.701 A A 7 6 3.121 14.115 0.972 -1.665 AA_DG4DA5:DT6DC7_AA 4 -0.480 1.045 24.067 -6.225 -2.114 2.950 30.375 A A 5 6 7.885 A A 6 5 3.175 4.119 0.000 -1.486 AA_DA5DT6:DA5DT6_AA 5 0.000 0.000 30.101 -3.613 0.000 1.856 27.852 A A 6 7 30.701 A A 5 4 3.121 14.115 -0.972 -1.665 AA_DT6DC7:DG4DA5_AA 6 0.480 -1.045 24.067 -6.225 2.114 2.413 37.664 A A 7 8 29.539 A A 4 3 3.639 18.312 0.889 -1.626 AA_DC7DG8:DC3DG4_AA 7 -1.032 1.664 33.039 -4.875 -1.510 3.257 32.100 A A 8 9 8.574 A A 3 2 3.543 4.722 -0.486 -1.494 AA_DG8DG9:DC2DC3_AA 8 1.981 -3.596 31.700 -3.589 1.251 3.079 37.624 A A 9 10 4.749 A A 2 1 3.166 3.058 0.349 -1.153 AA_DG9DG10:DC1DC2_AA 9 1.912 -2.969 37.457 -2.167 -0.303 software chem_comp_atom chem_comp_bond database_2 struct_site pdbx_initial_refinement_model repository Initial release Version format compliance Version format compliance Refinement description Data collection Database references Derived calculations Refinement description 1 0 2003-01-07 1 1 2008-04-28 1 2 2011-07-13 1 3 2017-10-11 1 4 2024-02-14 1 5 2024-04-03 _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id RCSB Y RCSB 2002-07-18 REL REL NCO COBALT HEXAMMINE(III) HOH water fiber A-DNA Other experimental model COH 201 2 NCO NCO 201 A HOH 101 3 HOH HOH 101 A HOH 102 3 HOH HOH 102 A HOH 103 3 HOH HOH 103 A HOH 104 3 HOH HOH 104 A HOH 105 3 HOH HOH 105 A HOH 106 3 HOH HOH 106 A HOH 107 3 HOH HOH 107 A HOH 108 3 HOH HOH 108 A HOH 109 3 HOH HOH 109 A HOH 110 3 HOH HOH 110 A HOH 111 3 HOH HOH 111 A HOH 112 3 HOH HOH 112 A HOH 113 3 HOH HOH 113 A HOH 114 3 HOH HOH 114 A HOH 115 3 HOH HOH 115 A HOH 116 3 HOH HOH 116 A HOH 117 3 HOH HOH 117 A HOH 118 3 HOH HOH 118 A HOH 119 3 HOH HOH 119 A HOH 120 3 HOH HOH 120 A HOH 121 3 HOH HOH 121 A HOH 122 3 HOH HOH 122 A HOH 123 3 HOH HOH 123 A HOH 124 3 HOH HOH 124 A HOH 125 3 HOH HOH 125 A HOH 126 3 HOH HOH 126 A HOH 127 3 HOH HOH 127 A HOH 128 3 HOH HOH 128 A HOH 129 3 HOH HOH 129 A HOH 130 3 HOH HOH 130 A HOH 131 3 HOH HOH 131 A HOH 132 3 HOH HOH 132 A HOH 133 3 HOH HOH 133 A HOH 134 3 HOH HOH 134 A CYT 1 n 1 DC 1 A CYT 2 n 2 DC 2 A CYT 3 n 3 DC 3 A GUA 4 n 4 DG 4 A ADE 5 n 5 DA 5 A THY 6 n 6 DT 6 A CYT 7 n 7 DC 7 A GUA 8 n 8 DG 8 A GUA 9 n 9 DG 9 A GUA 10 n 10 DG 10 A author_defined_assembly 2 dimeric 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 0.0000000000 1.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 7_555 y,x,-z crystal symmetry operation 0.0000000000 0.0000000000 0.0000000000 1 A DC 1 0.076 SIDE CHAIN 1 A DC 2 0.112 SIDE CHAIN 1 2.75 0.30 108.30 111.05 A A A O4' C1' N1 DC DC DC 1 1 1 N 1 2.26 0.30 108.30 110.56 A A A O4' C1' N1 DC DC DC 2 2 2 N 1 4.59 0.30 108.30 112.89 A A A O4' C1' N1 DC DC DC 3 3 3 N 1 2.09 0.30 108.30 110.39 A A A O4' C1' N9 DA DA DA 5 5 5 N 1 7.13 1.10 110.50 117.63 A A A O3' P OP2 DA DT DT 5 6 6 Y 1 -3.76 0.60 122.90 119.14 A A A C6 C5 C7 DT DT DT 6 6 6 N 1 9.54 1.10 110.50 120.04 A A A O3' P OP2 DT DC DC 6 7 7 Y 1 4.21 0.30 108.30 112.51 A A A O4' C1' N1 DC DC DC 7 7 7 N 1 4.13 0.30 108.30 112.43 A A A O4' C1' N9 DG DG DG 8 8 8 N 1 2.00 0.30 108.30 110.30 A A A O4' C1' N9 DG DG DG 9 9 9 N 0.185 0.163 1.25 8.0 653 5969 5316 random 1 isotropic 2 MOLECULAR REPLACEMENT fiber A-DNA 1.25 8.0 34 243 7 202 0 0.224 0.197 1.31 52 1.25 28.0 1M77 7785 6929 1.0 1.0 0.055 1 7.4 90 1.25 1.31 433 data scaling X-GEN 2.0 data reduction X-GEN 2.0 refinement X-PLOR Near Atomic Resolution Crystal Structure of an A-DNA Decamer d(CCCGATCGGG): Cobalt Hexammine Interactions with A-DNA 1 N N 2 N N 3 N N hydrog WATSON-CRICK A DC 1 A N3 DC 1 1_555 A DG 10 A N1 DG 10 7_555 hydrog WATSON-CRICK A DC 1 A N4 DC 1 1_555 A DG 10 A O6 DG 10 7_555 hydrog WATSON-CRICK A DC 1 A O2 DC 1 1_555 A DG 10 A N2 DG 10 7_555 hydrog WATSON-CRICK A DC 2 A N3 DC 2 1_555 A DG 9 A N1 DG 9 7_555 hydrog WATSON-CRICK A DC 2 A N4 DC 2 1_555 A DG 9 A O6 DG 9 7_555 hydrog WATSON-CRICK A DC 2 A O2 DC 2 1_555 A DG 9 A N2 DG 9 7_555 hydrog WATSON-CRICK A DC 3 A N3 DC 3 1_555 A DG 8 A N1 DG 8 7_555 hydrog WATSON-CRICK A DC 3 A N4 DC 3 1_555 A DG 8 A O6 DG 8 7_555 hydrog WATSON-CRICK A DC 3 A O2 DC 3 1_555 A DG 8 A N2 DG 8 7_555 hydrog WATSON-CRICK A DG 4 A N1 DG 4 1_555 A DC 7 A N3 DC 7 7_555 hydrog WATSON-CRICK A DG 4 A N2 DG 4 1_555 A DC 7 A O2 DC 7 7_555 hydrog WATSON-CRICK A DG 4 A O6 DG 4 1_555 A DC 7 A N4 DC 7 7_555 hydrog WATSON-CRICK A DA 5 A N1 DA 5 1_555 A DT 6 A N3 DT 6 7_555 hydrog WATSON-CRICK A DA 5 A N6 DA 5 1_555 A DT 6 A O4 DT 6 7_555 hydrog WATSON-CRICK A DT 6 A N3 DT 6 1_555 A DA 5 A N1 DA 5 7_555 hydrog WATSON-CRICK A DT 6 A O4 DT 6 1_555 A DA 5 A N6 DA 5 7_555 hydrog WATSON-CRICK A DC 7 A N3 DC 7 1_555 A DG 4 A N1 DG 4 7_555 hydrog WATSON-CRICK A DC 7 A N4 DC 7 1_555 A DG 4 A O6 DG 4 7_555 hydrog WATSON-CRICK A DC 7 A O2 DC 7 1_555 A DG 4 A N2 DG 4 7_555 hydrog WATSON-CRICK A DG 8 A N1 DG 8 1_555 A DC 3 A N3 DC 3 7_555 hydrog WATSON-CRICK A DG 8 A N2 DG 8 1_555 A DC 3 A O2 DC 3 7_555 hydrog WATSON-CRICK A DG 8 A O6 DG 8 1_555 A DC 3 A N4 DC 3 7_555 hydrog WATSON-CRICK A DG 9 A N1 DG 9 1_555 A DC 2 A N3 DC 2 7_555 hydrog WATSON-CRICK A DG 9 A N2 DG 9 1_555 A DC 2 A O2 DC 2 7_555 hydrog WATSON-CRICK A DG 9 A O6 DG 9 1_555 A DC 2 A N4 DC 2 7_555 hydrog WATSON-CRICK A DG 10 A N1 DG 10 1_555 A DC 1 A N3 DC 1 7_555 hydrog WATSON-CRICK A DG 10 A N2 DG 10 1_555 A DC 1 A O2 DC 1 7_555 hydrog WATSON-CRICK A DG 10 A O6 DG 10 1_555 A DC 1 A N4 DC 1 7_555 DNA A-DNA, Cobalt hexammine, DNA 1M77 PDB 1 1M77 1 10 1M77 1 10 1M77 A 1 1 10 BINDING SITE FOR RESIDUE NCO A 201 A NCO 201 Software 12 A DC 3 A DC 3 12 5_545 A DG 4 A DG 4 12 5_545 A DA 5 A DA 5 12 7_556 A DG 9 A DG 9 12 4_555 A DG 9 A DG 9 12 1_555 A DG 10 A DG 10 12 4_555 A HOH 101 C HOH 12 1_555 A HOH 102 C HOH 12 1_555 A HOH 103 C HOH 12 1_555 A HOH 104 C HOH 12 7_556 A HOH 111 C HOH 12 5_545 A HOH 123 C HOH 12 7_556 96 P 43 21 2