1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Clore, G.M. Werner, M.H. Huth, J.R. Gronenborn, A.M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 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 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 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 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 US Cell(Cambridge,Mass.) CELLB5 0998 0092-8674 81 704 705 10.1016/0092-8674(95)90532-4 7774012 Molecular basis of human 46X,Y sex reversal revealed from the three-dimensional solution structure of the human SRY-DNA complex. 1995 10.2210/pdb1hry/pdb pdb_00001hry 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 2404.621 DNA (5'-D(*GP*CP*AP*CP*AP*AP*AP*C)-3') 1 syn polymer 2448.613 DNA (5'-D(*GP*TP*TP*TP*GP*TP*GP*C)-3') 1 syn polymer 9508.031 HUMAN SRY 1 nat polymer DEOXYRIBONUCLEIC ACID DEOXYRIBONUCLEIC ACID POLYPEPTIDE no no (DG)(DC)(DA)(DC)(DA)(DA)(DA)(DC) GCACAAAC B polydeoxyribonucleotide no no (DG)(DT)(DT)(DT)(DG)(DT)(DG)(DC) GTTTGTGC C polydeoxyribonucleotide no no VQDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRP VQDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRP 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 human Homo sample 9606 Homo sapiens -1.530 1 19 B 1 C 8 -0.357 B_DG1:DC8_C 1 0.324 0.540 -0.091 0.214 7.429 1 19 B 2 C 7 0.190 B_DC2:DG7_C 2 -3.014 -0.616 -0.672 0.149 3.416 1 20 B 3 C 6 -0.546 B_DA3:DT6_C 3 -5.665 -0.071 -0.498 0.149 2.123 1 19 B 4 C 5 1.097 B_DC4:DG5_C 4 3.059 -0.135 -0.069 0.273 -4.188 1 20 B 5 C 4 0.542 B_DA5:DT4_C 5 -5.319 0.273 -0.471 0.246 7.944 1 20 B 6 C 3 -11.638 B_DA6:DT3_C 6 -0.737 0.133 -0.462 0.153 10.482 1 20 B 7 C 2 -16.683 B_DA7:DT2_C 7 11.179 0.244 -0.313 0.198 15.610 1 19 B 8 C 1 1.231 B_DC8:DG1_C 8 -2.466 -0.672 -0.570 0.201 2.519 29.336 B B 1 2 42.200 C C 8 7 3.286 19.530 0.264 0.066 BB_DG1DC2:DG7DC8_CC 1 3.479 -7.518 21.721 -4.193 0.249 2.830 46.777 B B 2 3 46.843 C C 7 6 3.735 33.660 -0.340 0.219 BB_DC2DA3:DT6DG7_CC 2 -1.261 1.755 32.940 -3.097 0.302 3.403 29.246 B B 3 4 22.832 C C 6 5 3.779 11.202 -0.113 -0.192 BB_DA3DC4:DG5DT6_CC 3 -4.306 8.777 26.719 -3.173 -0.850 4.288 34.703 B B 4 5 18.995 C C 5 4 4.340 11.123 0.179 0.539 BB_DC4DA5:DT4DG5_CC 4 3.406 -5.817 32.752 -1.414 0.409 3.332 30.340 B B 5 6 41.320 C C 4 3 3.918 19.898 -1.246 0.561 BB_DA5DA6:DT3DT4_CC 5 0.460 -0.955 23.016 -4.013 2.498 4.071 25.487 B B 6 7 1.642 C C 3 2 4.107 0.723 0.128 -0.010 BB_DA6DA7:DT2DT3_CC 6 -2.631 5.976 25.342 -0.281 -1.234 3.264 22.553 B B 7 8 25.484 C C 2 1 3.880 9.649 0.214 -0.559 BB_DA7DC8:DG1DT2_CC 7 -1.059 2.796 20.382 -5.488 -0.994 database_2 pdbx_database_status pdbx_struct_assembly pdbx_struct_oper_list repository Initial release Version format compliance Version format compliance Database references Derived calculations Other 1 0 1995-09-15 1 1 2008-03-03 1 2 2011-07-13 1 3 2022-02-23 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.process_site ENSEMBLE OF 35 STRUCTURES Y BNL 1995-05-09 REL REL chemically synthesized sample chemically synthesized sample 72 1805 444 107 221 386 40 72 271 71 10 THE 3D STRUCTURE OF THE HUMAN SRY-DNA COMPLEX SOLVED BY MULTI-DIMENSIONAL HETERONUCLEAR-EDITED AND -FILTERED NMR IS BASED ON 1805 EXPERIMENTAL RESTRAINTS: (A) INTRA-PROTEIN: 290 SEQUENTIAL (|I-J|=1), 221 MEDIUM RANGE (1 < |I-J| >=5) AND 107 LONG RANGE (|I-J| >5) INTERRESIDUES. 238 INTRARESIDUE APPROXIMATE INTERPROTON DISTANCE RESTRAINTS; 70 DISTANCE RESTRAINTS FOR 35 HYDROGEN BONDS; 153 TORSION ANGLE (71 PHI, 10 PSI, 56 CHI1 AND 16 CHI2) RESTRAINTS; 56 THREE-BOND HN-HA COUPLING CONSTANT RESTRAINTS; 145 (73 CALPHA AND 72 CBETA) 13C SHIFT RESTRAINTS. (B) INTRA-DNA: 206 INTRARESIDUE, 96 SEQUENTIAL INTRASTRAND, 36 INTERSTRAND INTERPROTON DISTANCE RESTRAINTS; 40 H-BOND RESTRAINTS; 72 TORSION ANGLE RESTRAINTS (FOR ALPHA, BETA, GAMMA, EPSILON AND ZETA BACKBONE TORSION ANGLES. (C) INTERMOLECULAR: 75 INTERPROTON DISTANCE RESTRAINTS 1 NUMBER OF ATOMS USED IN REFINEMENT. NUMBER OF PROTEIN ATOMS 644 NUMBER OF NUCLEIC ACID ATOMS 322 NUMBER OF HETEROGEN ATOMS 0 NUMBER OF SOLVENT ATOMS 0 THE STRUCTURES WERE CALCULATED USING THE SIMULATED ANNEALING PROTOCOL OF NILGES ET AL. (1988) FEBS LETT. 229, 129 - 136 USING THE PROGRAM X-PLOR 3.1 (BRUNGER) MODIFIED TO INCORPORATE COUPLING CONSTANT (GARRETT ET AL. (1984) J. MAGN. RESON. SERIES B 104, 99 - 103) AND CARBON CHEMICAL SHIFT RESTRAINTS (KUSZEWSKI ET AL. (1995) MAGN. RESON. SERIES B 106, 92 - 96). THE 3D STRUCTURE OF THE HUMAN SRY-DNA COMPLEX SOLVED BY MULTI-DIMENSIONAL HETERONUCLEAR-EDITED AND -FILTERED NMR IS BASED ON 1805 EXPERIMENTAL RESTRAINTS: (A) INTRA-PROTEIN: 290 SEQUENTIAL (|I-J|=1), 221 MEDIUM RANGE (1 < |I-J| >=5) AND 107 LONG RANGE (|I-J| >5) INTERRESIDUES. 238 INTRARESIDUE APPROXIMATE INTERPROTON DISTANCE RESTRAINTS; 70 DISTANCE RESTRAINTS FOR 35 HYDROGEN BONDS; 153 TORSION ANGLE (71 PHI, 10 PSI, 56 CHI1 AND 16 CHI2) RESTRAINTS; 56 THREE-BOND HN-HA COUPLING CONSTANT RESTRAINTS; 145 (73 CALPHA AND 72 CBETA) 13C SHIFT RESTRAINTS. (B) INTRA-DNA: 206 INTRARESIDUE, 96 SEQUENTIAL INTRASTRAND, 36 INTERSTRAND INTERPROTON DISTANCE RESTRAINTS; 40 H-BOND RESTRAINTS; 72 TORSION ANGLE RESTRAINTS (FOR ALPHA, BETA, GAMMA, EPSILON AND ZETA BACKBONE TORSION ANGLES. (C) INTERMOLECULAR: 75 INTERPROTON DISTANCE RESTRAINTS THE STRUCTURE IN THIS ENTRY IS THE RESTRAINED REGULARIZED MEAN STRUCTURE. THE LAST COLUMN REPRESENTS THE RMS OF THE 35 INDIVIDUAL SIMULATED ANNEALING STRUCTURES ABOUT THE MEAN COORDINATE POSITIONS. THE 35 INDIVIDUAL STRUCTURES CAN BE FOUND IN PDB ENTRY 1HRZ. THE LAST COLUMN IN THE INDIVIDUAL SA STRUCTURES HAS NO MEANING. simulated annealing BRUNGER refinement X-PLOR G 1 n 1 DG 1 B C 2 n 2 DC 2 B A 3 n 3 DA 3 B C 4 n 4 DC 4 B A 5 n 5 DA 5 B A 6 n 6 DA 6 B A 7 n 7 DA 7 B C 8 n 8 DC 8 B G 1 n 1 DG 1 C T 2 n 2 DT 2 C T 3 n 3 DT 3 C T 4 n 4 DT 4 C G 5 n 5 DG 5 C T 6 n 6 DT 6 C G 7 n 7 DG 7 C C 8 n 8 DC 8 C n 1 1 A n 2 2 A ASP 3 n 3 ASP 3 A ARG 4 n 4 ARG 4 A VAL 5 n 5 VAL 5 A LYS 6 n 6 LYS 6 A ARG 7 n 7 ARG 7 A PRO 8 n 8 PRO 8 A MET 9 n 9 MET 9 A ASN 10 n 10 ASN 10 A ALA 11 n 11 ALA 11 A PHE 12 n 12 PHE 12 A ILE 13 n 13 ILE 13 A VAL 14 n 14 VAL 14 A TRP 15 n 15 TRP 15 A SER 16 n 16 SER 16 A ARG 17 n 17 ARG 17 A ASP 18 n 18 ASP 18 A GLN 19 n 19 GLN 19 A ARG 20 n 20 ARG 20 A ARG 21 n 21 ARG 21 A LYS 22 n 22 LYS 22 A MET 23 n 23 MET 23 A ALA 24 n 24 ALA 24 A LEU 25 n 25 LEU 25 A GLU 26 n 26 GLU 26 A ASN 27 n 27 ASN 27 A PRO 28 n 28 PRO 28 A ARG 29 n 29 ARG 29 A MET 30 n 30 MET 30 A ARG 31 n 31 ARG 31 A ASN 32 n 32 ASN 32 A SER 33 n 33 SER 33 A GLU 34 n 34 GLU 34 A ILE 35 n 35 ILE 35 A SER 36 n 36 SER 36 A LYS 37 n 37 LYS 37 A GLN 38 n 38 GLN 38 A LEU 39 n 39 LEU 39 A GLY 40 n 40 GLY 40 A TYR 41 n 41 TYR 41 A GLN 42 n 42 GLN 42 A TRP 43 n 43 TRP 43 A LYS 44 n 44 LYS 44 A MET 45 n 45 MET 45 A LEU 46 n 46 LEU 46 A THR 47 n 47 THR 47 A GLU 48 n 48 GLU 48 A ALA 49 n 49 ALA 49 A GLU 50 n 50 GLU 50 A LYS 51 n 51 LYS 51 A TRP 52 n 52 TRP 52 A PRO 53 n 53 PRO 53 A PHE 54 n 54 PHE 54 A PHE 55 n 55 PHE 55 A GLN 56 n 56 GLN 56 A GLU 57 n 57 GLU 57 A ALA 58 n 58 ALA 58 A GLN 59 n 59 GLN 59 A LYS 60 n 60 LYS 60 A LEU 61 n 61 LEU 61 A GLN 62 n 62 GLN 62 A ALA 63 n 63 ALA 63 A MET 64 n 64 MET 64 A HIS 65 n 65 HIS 65 A ARG 66 n 66 ARG 66 A GLU 67 n 67 GLU 67 A LYS 68 n 68 LYS 68 A TYR 69 n 69 TYR 69 A PRO 70 n 70 PRO 70 A ASN 71 n 71 ASN 71 A TYR 72 n 72 TYR 72 A LYS 73 n 73 LYS 73 A TYR 74 n 74 TYR 74 A ARG 75 n 75 ARG 75 A n 76 76 A author_defined_assembly 3 trimeric 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 1 A VAL 1 C VAL 1 1 Y 1 A GLN 2 C GLN 2 1 Y 1 A PRO 76 C PRO 76 1 Y 1 B C3' DA 5 WRONG HAND 1 C C3' DG 1 WRONG HAND 1 A ARG 31 0.096 SIDE CHAIN 1 2.70 0.30 108.30 111.00 B B B O4' C1' N9 DG DG DG 1 1 1 N 1 -4.14 0.50 104.30 100.16 B B B C5 N7 C8 DG DG DG 1 1 1 N 1 7.15 0.50 113.10 120.25 B B B N7 C8 N9 DG DG DG 1 1 1 N 1 -3.63 0.40 106.40 102.77 B B B C8 N9 C4 DG DG DG 1 1 1 N 1 2.76 0.30 108.30 111.06 B B B O4' C1' N1 DC DC DC 2 2 2 N 1 2.63 0.30 108.30 110.93 B B B O4' C1' N9 DA DA DA 3 3 3 N 1 -3.84 0.50 103.90 100.06 B B B C5 N7 C8 DA DA DA 3 3 3 N 1 6.25 0.50 113.80 120.05 B B B N7 C8 N9 DA DA DA 3 3 3 N 1 -3.13 0.40 105.80 102.67 B B B C8 N9 C4 DA DA DA 3 3 3 N 1 2.31 0.30 108.30 110.61 B B B O4' C1' N1 DC DC DC 4 4 4 N 1 3.67 0.30 108.30 111.97 B B B O4' C1' N9 DA DA DA 5 5 5 N 1 -3.01 0.50 129.30 126.29 B B B N1 C2 N3 DA DA DA 5 5 5 N 1 -3.83 0.50 103.90 100.07 B B B C5 N7 C8 DA DA DA 5 5 5 N 1 6.20 0.50 113.80 120.00 B B B N7 C8 N9 DA DA DA 5 5 5 N 1 -3.17 0.40 105.80 102.63 B B B C8 N9 C4 DA DA DA 5 5 5 N 1 2.07 0.30 108.30 110.37 B B B O4' C1' N9 DA DA DA 6 6 6 N 1 -3.81 0.50 103.90 100.09 B B B C5 N7 C8 DA DA DA 6 6 6 N 1 6.43 0.50 113.80 120.23 B B B N7 C8 N9 DA DA DA 6 6 6 N 1 -3.33 0.40 105.80 102.47 B B B C8 N9 C4 DA DA DA 6 6 6 N 1 3.75 0.30 108.30 112.05 B B B O4' C1' N9 DA DA DA 7 7 7 N 1 -3.86 0.50 103.90 100.04 B B B C5 N7 C8 DA DA DA 7 7 7 N 1 6.37 0.50 113.80 120.17 B B B N7 C8 N9 DA DA DA 7 7 7 N 1 -3.08 0.40 105.80 102.72 B B B C8 N9 C4 DA DA DA 7 7 7 N 1 2.19 0.30 108.30 110.49 B B B O4' C1' N1 DC DC DC 8 8 8 N 1 2.98 0.30 108.30 111.28 C C C O4' C1' N9 DG DG DG 1 1 1 N 1 -4.02 0.50 104.30 100.28 C C C C5 N7 C8 DG DG DG 1 1 1 N 1 7.03 0.50 113.10 120.13 C C C N7 C8 N9 DG DG DG 1 1 1 N 1 -3.70 0.40 106.40 102.70 C C C C8 N9 C4 DG DG DG 1 1 1 N 1 2.60 0.30 108.30 110.90 C C C O4' C1' N1 DT DT DT 2 2 2 N 1 1.83 0.30 108.30 110.13 C C C O4' C1' N1 DT DT DT 3 3 3 N 1 2.75 0.30 108.30 111.05 C C C O4' C1' N1 DT DT DT 4 4 4 N 1 3.11 0.30 108.30 111.41 C C C O4' C1' N9 DG DG DG 5 5 5 N 1 -4.11 0.50 104.30 100.19 C C C C5 N7 C8 DG DG DG 5 5 5 N 1 7.14 0.50 113.10 120.24 C C C N7 C8 N9 DG DG DG 5 5 5 N 1 -3.71 0.40 106.40 102.69 C C C C8 N9 C4 DG DG DG 5 5 5 N 1 3.77 0.30 108.30 112.07 C C C O4' C1' N1 DT DT DT 6 6 6 N 1 2.21 0.30 108.30 110.51 C C C O4' C1' N9 DG DG DG 7 7 7 N 1 -4.09 0.50 104.30 100.21 C C C C5 N7 C8 DG DG DG 7 7 7 N 1 7.16 0.50 113.10 120.26 C C C N7 C8 N9 DG DG DG 7 7 7 N 1 -3.68 0.40 106.40 102.72 C C C C8 N9 C4 DG DG DG 7 7 7 N 1 2.32 0.30 108.30 110.62 C C C O4' C1' N1 DC DC DC 8 8 8 N 1 C C C5 C7 DT DT 2 2 0.037 0.006 1.496 1.533 N 1 A PRO 8 -66.76 -173.11 1 A ARG 17 -41.07 -77.01 1 A ARG 31 -64.61 -74.71 1 A ILE 35 -48.78 -15.60 1 A LYS 51 -69.30 -78.70 1 A PRO 53 -42.15 -76.64 1 A PRO 70 -50.34 -70.10 model building X-PLOR 3.1 refinement X-PLOR 3.1 phasing X-PLOR 3.1 THE 3D STRUCTURE OF THE HUMAN SRY-DNA COMPLEX SOLVED BY MULTID-DIMENSIONAL HETERONUCLEAR-EDITED AND-FILTERED NMR 1 N N 2 N N 3 N N A ALA 11 C ALA 11 HELX_P A GLU 26 C GLU 26 1 1 16 A GLU 34 C GLU 34 HELX_P A MET 45 C MET 45 1 2 12 A GLU 48 C GLU 48 HELX_P A LYS 68 C LYS 68 1 3 21 hydrog WATSON-CRICK B DG 1 A N1 DG 1 1_555 C DC 8 B N3 DC 8 1_555 hydrog WATSON-CRICK B DG 1 A N2 DG 1 1_555 C DC 8 B O2 DC 8 1_555 hydrog WATSON-CRICK B DG 1 A O6 DG 1 1_555 C DC 8 B N4 DC 8 1_555 hydrog WATSON-CRICK B DC 2 A N3 DC 2 1_555 C DG 7 B N1 DG 7 1_555 hydrog WATSON-CRICK B DC 2 A N4 DC 2 1_555 C DG 7 B O6 DG 7 1_555 hydrog WATSON-CRICK B DC 2 A O2 DC 2 1_555 C DG 7 B N2 DG 7 1_555 hydrog WATSON-CRICK B DA 3 A N1 DA 3 1_555 C DT 6 B N3 DT 6 1_555 hydrog WATSON-CRICK B DA 3 A N6 DA 3 1_555 C DT 6 B O4 DT 6 1_555 hydrog WATSON-CRICK B DC 4 A N3 DC 4 1_555 C DG 5 B N1 DG 5 1_555 hydrog WATSON-CRICK B DC 4 A N4 DC 4 1_555 C DG 5 B O6 DG 5 1_555 hydrog WATSON-CRICK B DC 4 A O2 DC 4 1_555 C DG 5 B N2 DG 5 1_555 hydrog WATSON-CRICK B DA 5 A N1 DA 5 1_555 C DT 4 B N3 DT 4 1_555 hydrog WATSON-CRICK B DA 5 A N6 DA 5 1_555 C DT 4 B O4 DT 4 1_555 hydrog WATSON-CRICK B DA 6 A N1 DA 6 1_555 C DT 3 B N3 DT 3 1_555 hydrog WATSON-CRICK B DA 6 A N6 DA 6 1_555 C DT 3 B O4 DT 3 1_555 hydrog WATSON-CRICK B DA 7 A N1 DA 7 1_555 C DT 2 B N3 DT 2 1_555 hydrog WATSON-CRICK B DA 7 A N6 DA 7 1_555 C DT 2 B O4 DT 2 1_555 hydrog WATSON-CRICK B DC 8 A N3 DC 8 1_555 C DG 1 B N1 DG 1 1_555 hydrog WATSON-CRICK B DC 8 A N4 DC 8 1_555 C DG 1 B O6 DG 1 1_555 hydrog WATSON-CRICK B DC 8 A O2 DC 8 1_555 C DG 1 B N2 DG 1 1_555 DNA BINDING PROTEIN/DNA DNA, SRY, DNA-BINDING PROTEIN, DNA BINDING PROTEIN-DNA COMPLEX SRY_HUMAN UNP 3 56 Q05066 1HRY PDB 1 1HRY 1HRY PDB 2 1HRY 56 131 1HRY 1 76 Q05066 A 1 1 76 1 8 1HRY 1 8 1HRY B 2 1 8 1 8 1HRY 1 8 1HRY C 3 1 8 1 P 1