1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Sampoli-Benitez, B.A. Hunter, M.J. Meininger, D.P. Komives, E.A. 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 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 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE 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 C9 H11 N O3 181.189 y TYROSINE L-peptide linking UK J.Mol.Biol. JMOBAK 0070 0022-2836 273 913 926 10.1006/jmbi.1997.1356 9367781 Structure of the fifth EGF-like domain of thrombomodulin: An EGF-like domain with a novel disulfide-bonding pattern. 1997 10.2210/pdb1adx/pdb pdb_00001adx 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 4377.751 THROMBOMODULIN FIFTH EGF-LIKE DOMAIN 1 man polymer TMEGF5 no no QMFCNQTACPADCDPNTQASCECPEGYILDDGFICTDIDE QMFCNQTACPADCDPNTQASCECPEGYILDDGFICTDIDE 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 human Homo sample 9606 BLOOD Homo sapiens 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 1997-12-24 1 1 2008-03-24 1 2 2011-07-13 1 3 2022-02-16 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.process_site Y BNL 1997-02-18 REL REL LOWEST ENERGY 50 14 TOCSY NOESY DQF-COSY E-COSY 5.5 298 K REFINEMENT DETAILS CAN BE FOUND IN THE JRNL REFERENCE ABOVE. DISTANCE GEOMETRY AND SIMULATED ANNEALING BRUNGER refinement X-PLOR 3.1 structure solution DGII structure solution X-PLOR 500 Bruker AMX500 600 Bruker DRX600 GLN 1 n 1 GLN 1 A MET 2 n 2 MET 2 A PHE 3 n 3 PHE 3 A CYS 4 n 4 CYS 4 A ASN 5 n 5 ASN 5 A GLN 6 n 6 GLN 6 A THR 7 n 7 THR 7 A ALA 8 n 8 ALA 8 A CYS 9 n 9 CYS 9 A PRO 10 n 10 PRO 10 A ALA 11 n 11 ALA 11 A ASP 12 n 12 ASP 12 A CYS 13 n 13 CYS 13 A ASP 14 n 14 ASP 14 A PRO 15 n 15 PRO 15 A ASN 16 n 16 ASN 16 A THR 17 n 17 THR 17 A GLN 18 n 18 GLN 18 A ALA 19 n 19 ALA 19 A SER 20 n 20 SER 20 A CYS 21 n 21 CYS 21 A GLU 22 n 22 GLU 22 A CYS 23 n 23 CYS 23 A PRO 24 n 24 PRO 24 A GLU 25 n 25 GLU 25 A GLY 26 n 26 GLY 26 A TYR 27 n 27 TYR 27 A ILE 28 n 28 ILE 28 A LEU 29 n 29 LEU 29 A ASP 30 n 30 ASP 30 A ASP 31 n 31 ASP 31 A GLY 32 n 32 GLY 32 A PHE 33 n 33 PHE 33 A ILE 34 n 34 ILE 34 A CYS 35 n 35 CYS 35 A THR 36 n 36 THR 36 A ASP 37 n 37 ASP 37 A ILE 38 n 38 ILE 38 A ASP 39 n 39 ASP 39 A GLU 40 n 40 GLU 40 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 2 -26.46 2.10 128.40 101.94 A A A C N CD CYS PRO PRO 9 10 10 Y 2 -21.18 2.10 128.40 107.22 A A A C N CD CYS PRO PRO 23 24 24 Y 3 -19.25 2.10 128.40 109.15 A A A C N CD CYS PRO PRO 23 24 24 Y 4 -23.36 2.10 128.40 105.04 A A A C N CD CYS PRO PRO 23 24 24 Y 5 -22.10 2.10 128.40 106.30 A A A C N CD CYS PRO PRO 9 10 10 Y 6 -19.19 2.10 128.40 109.21 A A A C N CD CYS PRO PRO 23 24 24 Y 8 -26.14 2.10 128.40 102.26 A A A C N CD CYS PRO PRO 9 10 10 Y 8 -21.03 2.10 128.40 107.37 A A A C N CD CYS PRO PRO 23 24 24 Y 10 -19.75 2.10 128.40 108.65 A A A C N CD CYS PRO PRO 23 24 24 Y 1 A PHE 3 178.85 29.48 1 A CYS 4 41.43 -159.80 1 A GLN 6 86.08 41.44 1 A THR 7 82.21 -40.11 1 A ALA 8 -174.64 130.87 1 A PRO 10 -66.28 -159.89 1 A ASP 12 -60.34 90.41 1 A CYS 13 -59.20 90.12 1 A GLN 18 -41.82 96.88 1 A ALA 19 -175.14 29.59 1 A CYS 23 51.69 149.46 1 A PRO 24 -53.26 -164.64 1 A GLU 25 -54.22 90.03 1 A ILE 28 79.85 117.39 1 A LEU 29 -53.99 -165.42 1 A PHE 33 44.88 26.20 1 A ILE 38 -134.84 -38.32 1 A ASP 39 -167.26 -89.52 2 A MET 2 61.55 121.11 2 A CYS 4 68.42 163.50 2 A GLN 6 86.41 110.34 2 A THR 7 31.42 -88.90 2 A CYS 9 -157.97 -122.51 2 A ALA 11 66.57 100.70 2 A THR 17 178.65 53.49 2 A GLN 18 -62.47 -164.40 2 A CYS 23 14.69 104.43 2 A PRO 24 23.24 135.01 2 A GLU 25 -56.62 92.76 2 A ILE 28 98.45 113.30 2 A LEU 29 -60.97 -154.45 2 A ASP 30 101.50 173.86 2 A PHE 33 54.96 19.09 2 A THR 36 160.49 176.95 2 A ASP 37 171.03 40.61 2 A ILE 38 -159.92 29.37 2 A ASP 39 171.91 67.08 3 A PHE 3 -106.46 53.71 3 A CYS 4 63.77 158.89 3 A GLN 6 -109.76 -163.95 3 A CYS 9 175.07 166.54 3 A PRO 10 -53.79 -160.61 3 A CYS 13 -43.07 94.32 3 A THR 17 168.94 87.32 3 A CYS 23 -1.25 118.76 3 A PRO 24 4.08 64.77 3 A GLU 25 24.05 96.14 3 A ILE 28 51.75 153.40 3 A PHE 33 44.89 26.66 3 A ASP 37 160.83 90.87 4 A PHE 3 -45.13 92.75 4 A CYS 4 37.86 -158.11 4 A ASN 5 -95.59 -141.61 4 A ALA 8 66.96 156.25 4 A ALA 11 74.18 -138.46 4 A ASP 12 87.33 109.51 4 A THR 17 -159.59 62.39 4 A CYS 21 41.32 -174.55 4 A GLU 22 42.18 29.93 4 A CYS 23 -25.63 104.08 4 A PRO 24 32.52 -162.21 4 A GLU 25 -102.78 69.05 4 A ILE 28 69.26 109.29 4 A LEU 29 -51.16 -171.17 4 A ASP 30 152.76 179.68 4 A ASP 31 57.57 15.49 4 A PHE 33 45.09 23.71 4 A THR 36 90.10 129.94 4 A ILE 38 27.83 85.02 5 A ASN 5 59.91 -86.45 5 A THR 7 34.80 -84.92 5 A ALA 8 -163.37 82.60 5 A CYS 9 -66.84 -162.42 5 A ALA 11 64.31 84.02 5 A CYS 13 36.90 72.84 5 A THR 17 178.09 79.05 5 A CYS 21 46.50 -171.93 5 A CYS 23 -18.70 141.53 5 A PRO 24 -34.33 156.89 5 A GLU 25 -64.64 87.49 5 A ILE 28 64.28 116.26 5 A LEU 29 -55.36 -165.17 5 A ASP 31 -43.82 107.89 5 A THR 36 170.30 176.08 5 A ASP 37 -139.13 -32.56 6 A PHE 3 -105.78 57.70 6 A CYS 4 35.57 101.49 6 A ASN 5 37.78 60.02 6 A GLN 6 38.07 -93.31 6 A ALA 8 174.25 -177.33 6 A CYS 9 164.13 159.67 6 A PRO 10 -49.75 -143.45 6 A ALA 11 -155.77 48.66 6 A CYS 13 -63.20 88.43 6 A THR 17 -153.28 55.54 6 A SER 20 165.64 -113.12 6 A CYS 21 -55.38 -163.94 6 A CYS 23 -5.27 112.32 6 A PRO 24 8.32 -134.17 6 A ILE 28 79.52 107.60 6 A LEU 29 -50.80 -176.12 6 A ASP 30 160.54 161.05 6 A ASP 31 76.63 -1.93 6 A PHE 33 58.38 13.44 6 A THR 36 162.80 177.45 6 A ASP 37 -158.64 -59.21 7 A MET 2 -150.80 26.14 7 A PHE 3 36.14 80.65 7 A CYS 4 50.55 -176.49 7 A ASN 5 -108.19 -86.34 7 A GLN 6 -52.21 -168.70 7 A THR 7 -38.76 -30.18 7 A ALA 8 172.14 136.75 7 A PRO 10 -76.18 -161.45 7 A ALA 11 -117.09 58.37 7 A THR 17 -140.57 57.49 7 A GLN 18 -63.12 93.64 7 A ALA 19 -154.89 17.71 7 A CYS 23 52.64 131.54 7 A PRO 24 -40.11 99.15 7 A GLU 25 40.76 83.26 7 A TYR 27 -39.20 -36.18 7 A ILE 28 87.58 112.95 7 A LEU 29 -54.47 -179.44 7 A ASP 30 155.74 174.53 7 A PHE 33 56.80 13.83 7 A THR 36 -46.30 174.25 7 A ASP 37 -134.79 -62.33 7 A ILE 38 -38.34 115.47 8 A ASN 5 70.77 -7.44 8 A GLN 6 168.98 73.01 8 A THR 7 70.93 -81.17 8 A CYS 9 -176.13 -125.23 8 A ALA 11 51.31 83.20 8 A CYS 13 30.10 93.95 8 A ASN 16 -90.74 34.95 8 A THR 17 176.55 79.95 8 A SER 20 -44.86 165.11 8 A CYS 21 38.58 -165.92 8 A GLU 22 41.42 29.62 8 A CYS 23 -7.52 103.92 8 A PRO 24 19.53 -143.24 8 A GLU 25 -105.86 56.39 8 A ILE 28 52.00 124.42 8 A LEU 29 -61.80 -166.34 8 A ASP 30 -165.45 -162.09 8 A ASP 31 -43.97 96.33 8 A PHE 33 -75.66 27.78 8 A THR 36 174.16 176.29 8 A ASP 39 -110.82 50.71 9 A MET 2 -170.61 147.51 9 A CYS 4 39.92 93.10 9 A ASN 5 40.53 -88.11 9 A GLN 6 -176.13 134.43 9 A THR 7 83.47 -43.65 9 A ALA 8 162.05 128.34 9 A PRO 10 -61.62 -151.48 9 A ALA 11 -142.22 -140.34 9 A ASP 12 93.07 9.93 9 A CYS 13 40.59 102.97 9 A ASP 14 -52.15 -175.04 9 A GLN 18 32.14 35.95 9 A ALA 19 -138.89 -156.62 9 A CYS 23 -12.88 143.10 9 A PRO 24 -36.90 163.18 9 A ILE 28 58.61 126.33 9 A LEU 29 -54.03 -167.30 9 A CYS 35 -47.91 -86.30 9 A THR 36 41.58 -166.44 9 A ASP 37 -154.83 -32.22 9 A ASP 39 -93.01 39.52 10 A MET 2 -164.11 -149.46 10 A PHE 3 -179.25 90.77 10 A CYS 4 -27.64 107.55 10 A ASN 5 -75.70 -139.83 10 A GLN 6 39.17 36.01 10 A THR 7 83.87 -42.88 10 A ALA 8 178.61 169.70 10 A PRO 10 -53.78 -160.08 10 A CYS 13 39.56 51.09 10 A THR 17 -167.05 73.45 10 A GLN 18 -40.19 -94.40 10 A ALA 19 37.97 -155.31 10 A SER 20 48.60 -123.40 10 A CYS 21 -39.44 157.01 10 A PRO 24 2.30 116.95 10 A GLU 25 -44.12 97.11 10 A ILE 28 47.22 173.11 10 A LEU 29 -77.41 -167.84 10 A ASP 31 -43.10 98.98 10 A PHE 33 48.57 27.16 10 A THR 36 -56.88 -159.66 10 A ASP 37 -164.52 24.66 11 A PHE 3 -40.15 89.40 11 A CYS 4 36.09 92.54 11 A ASN 5 -29.71 -83.65 11 A GLN 6 -42.46 169.20 11 A ALA 8 178.37 103.81 11 A PRO 10 -63.97 -163.09 11 A ASP 12 -103.67 60.80 11 A CYS 13 -37.42 110.67 11 A ASN 16 -92.69 36.61 11 A THR 17 -177.11 77.37 11 A GLN 18 -93.54 39.14 11 A SER 20 -60.75 -117.38 11 A CYS 21 -47.55 173.55 11 A PRO 24 -18.03 139.48 11 A GLU 25 -63.08 89.50 11 A TYR 27 -55.15 -170.40 11 A ILE 28 168.16 161.10 11 A LEU 29 -90.50 -133.85 11 A ASP 30 152.81 91.47 11 A ASP 31 44.05 26.30 11 A THR 36 157.99 -49.21 11 A ASP 37 75.64 124.89 12 A MET 2 161.45 132.29 12 A PHE 3 39.45 28.17 12 A CYS 4 22.66 90.27 12 A GLN 6 163.03 87.46 12 A THR 7 44.94 27.72 12 A ALA 8 73.18 171.38 12 A CYS 9 176.54 144.53 12 A PRO 10 -44.62 -170.19 12 A ASP 12 -47.13 92.50 12 A GLN 18 -88.46 33.52 12 A CYS 21 -126.57 -159.44 12 A CYS 23 -17.66 140.22 12 A PRO 24 -34.58 155.84 12 A GLU 25 -64.54 87.14 12 A ILE 28 72.15 108.81 12 A LEU 29 -61.89 -166.44 12 A PHE 33 40.20 27.90 12 A THR 36 163.03 172.58 12 A ILE 38 -140.17 24.83 13 A MET 2 64.90 124.18 13 A GLN 6 176.93 166.23 13 A CYS 9 177.51 165.09 13 A PRO 10 -52.78 -162.30 13 A CYS 13 -49.16 151.87 13 A THR 17 -165.35 74.96 13 A ALA 19 -51.57 89.38 13 A SER 20 154.75 154.37 13 A CYS 21 43.17 -169.85 13 A CYS 23 -11.96 135.71 13 A PRO 24 -26.58 82.86 13 A GLU 25 5.44 65.86 13 A ILE 28 87.51 111.81 13 A LEU 29 -54.93 -176.19 13 A ASP 30 158.96 164.96 13 A CYS 35 -49.57 -98.51 13 A THR 36 43.47 -168.81 13 A ASP 37 -176.62 77.58 14 A MET 2 72.60 -166.34 14 A PHE 3 -66.97 86.20 14 A CYS 4 -32.97 95.27 14 A ASN 5 -125.52 -158.58 14 A GLN 6 62.48 -103.66 14 A ALA 8 58.47 126.77 14 A PRO 10 -77.22 -158.45 14 A ASP 12 -107.29 48.24 14 A CYS 13 -41.87 106.67 14 A THR 17 -171.42 74.74 14 A GLN 18 -53.96 -107.37 14 A ALA 19 41.42 -125.89 14 A SER 20 42.56 -115.32 14 A CYS 21 -57.27 -160.13 14 A GLU 22 39.85 32.42 14 A CYS 23 -3.86 125.96 14 A PRO 24 -24.27 85.90 14 A GLU 25 5.48 67.00 14 A ILE 28 68.05 104.97 14 A LEU 29 -57.98 -163.41 14 A ASP 31 -43.85 105.58 14 A PHE 33 52.72 19.54 14 A THR 36 178.72 177.91 14 A ASP 37 -169.38 -52.08 14 A ASP 39 48.48 77.61 model building X-PLOR 3.1 refinement X-PLOR 3.1 phasing X-PLOR 3.1 FIFTH EGF-LIKE DOMAIN OF THROMBOMODULIN (TMEGF5), NMR, 14 STRUCTURES 1 Y N disulf 2.021 A CYS 4 A SG CYS 4 1_555 A CYS 9 A SG CYS 9 1_555 disulf 2.020 A CYS 13 A SG CYS 13 1_555 A CYS 21 A SG CYS 21 1_555 disulf 2.020 A CYS 23 A SG CYS 23 1_555 A CYS 35 A SG CYS 35 1_555 BLOOD COAGULATION BLOOD COAGULATION, ANTICOAGULANT, FIBRINOGEN, PEPTIDE SYNTHESIS, PROTEIN C, THROMBIN, DISULFIDE BONDS TRBM_HUMAN UNP 1 1 P07204 MLGVLVLGALALAGLGFPAPAEPQPGGSQCVEHDCFALYPGPATFLNASQICDGLRGHLMTVRSSVAADVISLLLNGDGG VGRRRLWIGLQLPPGCGDPKRLGPLRGFQWVTGDNNTSYSRWARLDLNGAPLCGPLCVAVSAAEATVPSEPIWEEQQCEV KADGFLCEFHFPATCRPLAVEPGAAAAAVSITYGTPFAARGADFQALPVGSSAAVAPLGLQLMCTAPPGAVQGHWAREAP GAWDCSVENGGCEHACNAIPGAPRCQCPAGAALQADGRSCTASATQSCNDLCEHFCVPNPDQPGSYSCMCETGYRLAADQ HRCEDVDDCILEPSPCPQRCVNTQGGFECHCYPNYDLVDGECVEPVDPCFRANCEYQCQPLNQTSYLCVCAEGFAPIPHE PHRCQMFCNQTACPADCDPNTQASCECPEGYILDDGFICTDIDECENGGFCSGVCHNLPGTFECICGPDSALARHIGTDC DSGKVDGGDSGSGEPPPSPTPGSTLTPPAVGLVHSGLLIGISIASLCLVVALLALLCHLRKKQGAARAKMEYKCAAPSKE VVLQHVRTERTPQRL 405 444 1ADX 1 40 P07204 A 1 1 40 1 P 1