0.021327 0.000000 0.000000 0.000000 0.017227 0.000000 0.000000 0.000000 0.012016 0.00000 0.00000 0.00000 CIS PROLINE - PRO A 8 CIS PROLINE - PRO A 95 CIS PROLINE - PRO B 8 CIS PROLINE - PRO B 95 RESIDUES ARG A 24 AND B 24 ARE PARTIALLY DISORDERED. Essen, L.-O. Skerra, A. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 46.890 58.050 83.220 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 C3 H8 O 60.095 ISOPROPYL ALCOHOL 2-PROPANOL non-polymer 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 J.Mol.Biol. JMOBAK 0070 0022-2836 238 226 244 10.1006/jmbi.1994.1284 8158652 The de novo design of an antibody combining site. Crystallographic analysis of the VL domain confirms the structural model. 1994 NE J.Chromatogr.,A JCRAEY 2032 0021-9673 657 55 Single-Step Purification of a Bacterially Expressed Antibody FV Fragment by Immobilized Metal Affinity Chromatography in the Presence of Betaine 1993 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 x-ray 1 1.0 11664.921 IGG-KAPPA M29B FV (LIGHT CHAIN) 2 man polymer 60.095 ISOPROPYL ALCOHOL 1 syn non-polymer 18.015 water 85 nat water no no DIELTQSPATLSVTPGNSVSISCRASQSIGNRLFWYQQKSHESPRLLIKYASQSISGIPSRFSGSGSGTDFTLSINSVET EDLAVYFCQQVSEWPFTFGGGTKLEIK DIELTQSPATLSVTPGNSVSISCRASQSIGNRLFWYQQKSHESPRLLIKYASQSISGIPSRFSGSGSGTDFTLSINSVET EDLAVYFCQQVSEWPFTFGGGTKLEIK A,B 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 house mouse sample 10090 Mus musculus 2.43 49.31 repository Initial release Version format compliance Version format compliance Source and taxonomy 1 0 1994-08-31 1 1 2008-03-24 1 2 2011-07-13 1 3 2014-02-05 Y 1994-05-04 REL IPA ISOPROPYL ALCOHOL HOH water THE SEQUENCE PRESENTED IN THIS ENTRY IS DESCRIBED IN THE JRNL ARTICLE LISTED ABOVE. IPA 86 2 IPA IPA 108 A HOH 1 3 HOH HOH 109 A HOH 2 3 HOH HOH 110 A HOH 3 3 HOH HOH 111 A HOH 4 3 HOH HOH 112 A HOH 5 3 HOH HOH 113 A HOH 6 3 HOH HOH 114 A HOH 7 3 HOH HOH 115 A HOH 8 3 HOH HOH 116 A HOH 9 3 HOH HOH 117 A HOH 10 3 HOH HOH 118 A HOH 11 3 HOH HOH 119 A HOH 12 3 HOH HOH 120 A HOH 13 3 HOH HOH 121 A HOH 14 3 HOH HOH 122 A HOH 15 3 HOH HOH 123 A HOH 16 3 HOH HOH 124 A HOH 17 3 HOH HOH 125 A HOH 18 3 HOH HOH 126 A HOH 19 3 HOH HOH 127 A HOH 20 3 HOH HOH 128 A HOH 21 3 HOH HOH 129 A HOH 22 3 HOH HOH 130 A HOH 23 3 HOH HOH 131 A HOH 24 3 HOH HOH 132 A HOH 25 3 HOH HOH 133 A HOH 26 3 HOH HOH 134 A HOH 27 3 HOH HOH 135 A HOH 28 3 HOH HOH 136 A HOH 29 3 HOH HOH 137 A HOH 30 3 HOH HOH 138 A HOH 31 3 HOH HOH 139 A HOH 32 3 HOH HOH 140 A HOH 33 3 HOH HOH 141 A HOH 34 3 HOH HOH 142 A HOH 35 3 HOH HOH 143 A HOH 36 3 HOH HOH 144 A HOH 37 3 HOH HOH 145 A HOH 38 3 HOH HOH 146 A HOH 39 3 HOH HOH 147 A HOH 40 3 HOH HOH 148 A HOH 41 3 HOH HOH 149 A HOH 42 3 HOH HOH 150 A HOH 43 3 HOH HOH 151 A HOH 44 3 HOH HOH 152 A HOH 45 3 HOH HOH 153 A HOH 46 3 HOH HOH 154 A HOH 47 3 HOH HOH 155 A HOH 48 3 HOH HOH 156 A HOH 49 3 HOH HOH 157 A HOH 65 3 HOH HOH 158 A HOH 70 3 HOH HOH 159 A HOH 50 3 HOH HOH 108 B HOH 51 3 HOH HOH 109 B HOH 52 3 HOH HOH 110 B HOH 53 3 HOH HOH 111 B HOH 54 3 HOH HOH 112 B HOH 55 3 HOH HOH 113 B HOH 56 3 HOH HOH 114 B HOH 57 3 HOH HOH 115 B HOH 58 3 HOH HOH 116 B HOH 59 3 HOH HOH 117 B HOH 60 3 HOH HOH 118 B HOH 61 3 HOH HOH 119 B HOH 62 3 HOH HOH 120 B HOH 63 3 HOH HOH 121 B HOH 64 3 HOH HOH 122 B HOH 66 3 HOH HOH 123 B HOH 67 3 HOH HOH 124 B HOH 68 3 HOH HOH 125 B HOH 69 3 HOH HOH 126 B HOH 71 3 HOH HOH 127 B HOH 72 3 HOH HOH 128 B HOH 73 3 HOH HOH 129 B HOH 74 3 HOH HOH 130 B HOH 75 3 HOH HOH 131 B HOH 76 3 HOH HOH 132 B HOH 77 3 HOH HOH 133 B HOH 78 3 HOH HOH 134 B HOH 79 3 HOH HOH 135 B HOH 80 3 HOH HOH 136 B HOH 81 3 HOH HOH 137 B HOH 82 3 HOH HOH 138 B HOH 83 3 HOH HOH 139 B HOH 84 3 HOH HOH 140 B HOH 85 3 HOH HOH 141 B ASP 1 n 1 ASP 1 A ILE 2 n 2 ILE 2 A GLU 3 n 3 GLU 3 A LEU 4 n 4 LEU 4 A THR 5 n 5 THR 5 A GLN 6 n 6 GLN 6 A SER 7 n 7 SER 7 A PRO 8 n 8 PRO 8 A ALA 9 n 9 ALA 9 A THR 10 n 10 THR 10 A LEU 11 n 11 LEU 11 A SER 12 n 12 SER 12 A VAL 13 n 13 VAL 13 A THR 14 n 14 THR 14 A PRO 15 n 15 PRO 15 A GLY 16 n 16 GLY 16 A ASN 17 n 17 ASN 17 A SER 18 n 18 SER 18 A VAL 19 n 19 VAL 19 A SER 20 n 20 SER 20 A ILE 21 n 21 ILE 21 A SER 22 n 22 SER 22 A CYS 23 n 23 CYS 23 A ARG 24 n 24 ARG 24 A ALA 25 n 25 ALA 25 A SER 26 n 26 SER 26 A GLN 27 n 27 GLN 27 A SER 28 n 28 SER 28 A ILE 29 n 29 ILE 29 A GLY 30 n 30 GLY 30 A ASN 31 n 31 ASN 31 A ARG 32 n 32 ARG 32 A LEU 33 n 33 LEU 33 A PHE 34 n 34 PHE 34 A TRP 35 n 35 TRP 35 A TYR 36 n 36 TYR 36 A GLN 37 n 37 GLN 37 A GLN 38 n 38 GLN 38 A LYS 39 n 39 LYS 39 A SER 40 n 40 SER 40 A HIS 41 n 41 HIS 41 A GLU 42 n 42 GLU 42 A SER 43 n 43 SER 43 A PRO 44 n 44 PRO 44 A ARG 45 n 45 ARG 45 A LEU 46 n 46 LEU 46 A LEU 47 n 47 LEU 47 A ILE 48 n 48 ILE 48 A LYS 49 n 49 LYS 49 A TYR 50 n 50 TYR 50 A ALA 51 n 51 ALA 51 A SER 52 n 52 SER 52 A GLN 53 n 53 GLN 53 A SER 54 n 54 SER 54 A ILE 55 n 55 ILE 55 A SER 56 n 56 SER 56 A GLY 57 n 57 GLY 57 A ILE 58 n 58 ILE 58 A PRO 59 n 59 PRO 59 A SER 60 n 60 SER 60 A ARG 61 n 61 ARG 61 A PHE 62 n 62 PHE 62 A SER 63 n 63 SER 63 A GLY 64 n 64 GLY 64 A SER 65 n 65 SER 65 A GLY 66 n 66 GLY 66 A SER 67 n 67 SER 67 A GLY 68 n 68 GLY 68 A THR 69 n 69 THR 69 A ASP 70 n 70 ASP 70 A PHE 71 n 71 PHE 71 A THR 72 n 72 THR 72 A LEU 73 n 73 LEU 73 A SER 74 n 74 SER 74 A ILE 75 n 75 ILE 75 A ASN 76 n 76 ASN 76 A SER 77 n 77 SER 77 A VAL 78 n 78 VAL 78 A GLU 79 n 79 GLU 79 A THR 80 n 80 THR 80 A GLU 81 n 81 GLU 81 A ASP 82 n 82 ASP 82 A LEU 83 n 83 LEU 83 A ALA 84 n 84 ALA 84 A VAL 85 n 85 VAL 85 A TYR 86 n 86 TYR 86 A PHE 87 n 87 PHE 87 A CYS 88 n 88 CYS 88 A GLN 89 n 89 GLN 89 A GLN 90 n 90 GLN 90 A VAL 91 n 91 VAL 91 A SER 92 n 92 SER 92 A GLU 93 n 93 GLU 93 A TRP 94 n 94 TRP 94 A PRO 95 n 95 PRO 95 A PHE 96 n 96 PHE 96 A THR 97 n 97 THR 97 A PHE 98 n 98 PHE 98 A GLY 99 n 99 GLY 99 A GLY 100 n 100 GLY 100 A GLY 101 n 101 GLY 101 A THR 102 n 102 THR 102 A LYS 103 n 103 LYS 103 A LEU 104 n 104 LEU 104 A GLU 105 n 105 GLU 105 A ILE 106 n 106 ILE 106 A LYS 107 n 107 LYS 107 A ASP 1 n 1 ASP 1 B ILE 2 n 2 ILE 2 B GLU 3 n 3 GLU 3 B LEU 4 n 4 LEU 4 B THR 5 n 5 THR 5 B GLN 6 n 6 GLN 6 B SER 7 n 7 SER 7 B PRO 8 n 8 PRO 8 B ALA 9 n 9 ALA 9 B THR 10 n 10 THR 10 B LEU 11 n 11 LEU 11 B SER 12 n 12 SER 12 B VAL 13 n 13 VAL 13 B THR 14 n 14 THR 14 B PRO 15 n 15 PRO 15 B GLY 16 n 16 GLY 16 B ASN 17 n 17 ASN 17 B SER 18 n 18 SER 18 B VAL 19 n 19 VAL 19 B SER 20 n 20 SER 20 B ILE 21 n 21 ILE 21 B SER 22 n 22 SER 22 B CYS 23 n 23 CYS 23 B ARG 24 n 24 ARG 24 B ALA 25 n 25 ALA 25 B SER 26 n 26 SER 26 B GLN 27 n 27 GLN 27 B SER 28 n 28 SER 28 B ILE 29 n 29 ILE 29 B GLY 30 n 30 GLY 30 B ASN 31 n 31 ASN 31 B ARG 32 n 32 ARG 32 B LEU 33 n 33 LEU 33 B PHE 34 n 34 PHE 34 B TRP 35 n 35 TRP 35 B TYR 36 n 36 TYR 36 B GLN 37 n 37 GLN 37 B GLN 38 n 38 GLN 38 B LYS 39 n 39 LYS 39 B SER 40 n 40 SER 40 B HIS 41 n 41 HIS 41 B GLU 42 n 42 GLU 42 B SER 43 n 43 SER 43 B PRO 44 n 44 PRO 44 B ARG 45 n 45 ARG 45 B LEU 46 n 46 LEU 46 B LEU 47 n 47 LEU 47 B ILE 48 n 48 ILE 48 B LYS 49 n 49 LYS 49 B TYR 50 n 50 TYR 50 B ALA 51 n 51 ALA 51 B SER 52 n 52 SER 52 B GLN 53 n 53 GLN 53 B SER 54 n 54 SER 54 B ILE 55 n 55 ILE 55 B SER 56 n 56 SER 56 B GLY 57 n 57 GLY 57 B ILE 58 n 58 ILE 58 B PRO 59 n 59 PRO 59 B SER 60 n 60 SER 60 B ARG 61 n 61 ARG 61 B PHE 62 n 62 PHE 62 B SER 63 n 63 SER 63 B GLY 64 n 64 GLY 64 B SER 65 n 65 SER 65 B GLY 66 n 66 GLY 66 B SER 67 n 67 SER 67 B GLY 68 n 68 GLY 68 B THR 69 n 69 THR 69 B ASP 70 n 70 ASP 70 B PHE 71 n 71 PHE 71 B THR 72 n 72 THR 72 B LEU 73 n 73 LEU 73 B SER 74 n 74 SER 74 B ILE 75 n 75 ILE 75 B ASN 76 n 76 ASN 76 B SER 77 n 77 SER 77 B VAL 78 n 78 VAL 78 B GLU 79 n 79 GLU 79 B THR 80 n 80 THR 80 B GLU 81 n 81 GLU 81 B ASP 82 n 82 ASP 82 B LEU 83 n 83 LEU 83 B ALA 84 n 84 ALA 84 B VAL 85 n 85 VAL 85 B TYR 86 n 86 TYR 86 B PHE 87 n 87 PHE 87 B CYS 88 n 88 CYS 88 B GLN 89 n 89 GLN 89 B GLN 90 n 90 GLN 90 B VAL 91 n 91 VAL 91 B SER 92 n 92 SER 92 B GLU 93 n 93 GLU 93 B TRP 94 n 94 TRP 94 B PRO 95 n 95 PRO 95 B PHE 96 n 96 PHE 96 B THR 97 n 97 THR 97 B PHE 98 n 98 PHE 98 B GLY 99 n 99 GLY 99 B GLY 100 n 100 GLY 100 B GLY 101 n 101 GLY 101 B THR 102 n 102 THR 102 B LYS 103 n 103 LYS 103 B LEU 104 n 104 LEU 104 B GLU 105 n 105 GLU 105 B ILE 106 n 106 ILE 106 B LYS 107 n 107 LYS 107 B 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 A O SER 7 A O SER 7 A N SER 22 A N SER 22 A O CYS 23 A O CYS 23 A N PHE 71 A N PHE 71 A N SER 74 A N SER 74 A O SER 63 A O SER 63 A N LEU 11 A N LEU 11 A O LYS 103 A O LYS 103 A N LEU 104 A N LEU 104 A O ALA 84 A O ALA 84 A O GLN 89 A O GLN 89 A N PHE 34 A N PHE 34 A O GLN 37 A O GLN 37 A N ARG 45 A N ARG 45 A N LYS 49 A N LYS 49 A O GLN 53 A O GLN 53 B O SER 7 B O SER 7 B N SER 22 B N SER 22 B N CYS 23 B N CYS 23 B O PHE 71 B O PHE 71 B N SER 74 B N SER 74 B O SER 63 B O SER 63 B N LEU 11 B N LEU 11 B O LYS 103 B O LYS 103 B N LEU 104 B N LEU 104 B O ALA 84 B O ALA 84 B O GLN 89 B O GLN 89 B N PHE 34 B N PHE 34 B O GLN 37 B O GLN 37 B N ARG 45 B N ARG 45 B N LYS 49 B N LYS 49 B O GLN 53 B O GLN 53 1 A CD ARG 24 A CD ARG 24 0 Y 1 A NE ARG 24 A NE ARG 24 0 Y 1 A CZ ARG 24 A CZ ARG 24 0 Y 1 A NH1 ARG 24 A NH1 ARG 24 0 Y 1 A NH2 ARG 24 A NH2 ARG 24 0 Y 1 B CD ARG 24 B CD ARG 24 0 Y 1 B NE ARG 24 B NE ARG 24 0 Y 1 B CZ ARG 24 B CZ ARG 24 0 Y 1 B NH1 ARG 24 B NH1 ARG 24 0 Y 1 B NH2 ARG 24 B NH2 ARG 24 0 Y 1 A ARG 24 0.113 SIDE CHAIN 1 A TYR 50 0.076 SIDE CHAIN 1 B TYR 50 0.067 SIDE CHAIN 1 B TYR 86 0.068 SIDE CHAIN 1 A ALA 51 80.70 -49.06 1 A SER 52 -140.05 0.00 1 A SER 77 88.58 79.12 1 B ALA 51 73.19 -44.65 1 B SER 77 65.29 77.65 0.175 0.175 2.17 6.00 11378 1 2.0 2.17 6.00 85 1733 4 0 1644 0.013 1.7 model building X-PLOR refinement X-PLOR phasing X-PLOR IMMUNOGLOBULIN VL DOMAIN (VARIABLE DOMAIN OF KAPPA LIGHT CHAIN) OF DESIGNED ANTIBODY M29B THE DE NOVO DESIGN OF AN ANTIBODY COMBINING SITE: CRYSTALLOGRAPHIC ANALYSIS OF THE VL DOMAIN CONFIRMS THE STRUCTURAL MODEL 1 N N 1 N N 2 N N 3 N N 3 N N A GLU 79 A GLU 79 HELX_P A LEU 83 A LEU 83 5 1 5 B GLU 79 B GLU 79 HELX_P B LEU 83 B LEU 83 5 2 5 disulf 2.042 A CYS 23 A SG CYS 23 1_555 A CYS 88 A SG CYS 88 1_555 disulf 2.002 B CYS 23 B SG CYS 23 1_555 B CYS 88 B SG CYS 88 1_555 IMMUNOGLOBULIN IMMUNOGLOBULIN A SER 7 A SER 7 1 A PRO 8 A PRO 8 -10.22 A TRP 94 A TRP 94 1 A PRO 95 A PRO 95 -4.39 B SER 7 B SER 7 1 B PRO 8 B PRO 8 -1.74 B TRP 94 B TRP 94 1 B PRO 95 B PRO 95 -8.26 AAA38741 GB 1 1 196585 DIVLTQSPATLSVTPGNSVSLSCRASQSIGNNLHWYQQKSHESPRLLIKYASQSISGIPSRFSGSGSGTDFTLSINSVET EDFGMYFCQQSNSWPYTFGGGTKLEIK 1 107 1IVL 1 107 196585 A 1 1 107 1 107 1IVL 1 107 196585 B 1 1 107 1 VAL CONFLICT GLU 3 1IVL A 196585 GB 3 3 1 LEU CONFLICT ILE 21 1IVL A 196585 GB 21 21 1 ASN CONFLICT ARG 32 1IVL A 196585 GB 32 32 1 HIS CONFLICT PHE 34 1IVL A 196585 GB 34 34 1 PHE CONFLICT LEU 83 1IVL A 196585 GB 83 83 1 GLY CONFLICT ALA 84 1IVL A 196585 GB 84 84 1 MET CONFLICT VAL 85 1IVL A 196585 GB 85 85 1 SER CONFLICT VAL 91 1IVL A 196585 GB 91 91 1 ASN CONFLICT SER 92 1IVL A 196585 GB 92 92 1 SER CONFLICT GLU 93 1IVL A 196585 GB 93 93 1 TYR CONFLICT PHE 96 1IVL A 196585 GB 96 96 2 VAL CONFLICT GLU 3 1IVL B 196585 GB 3 3 2 LEU CONFLICT ILE 21 1IVL B 196585 GB 21 21 2 ASN CONFLICT ARG 32 1IVL B 196585 GB 32 32 2 HIS CONFLICT PHE 34 1IVL B 196585 GB 34 34 2 PHE CONFLICT LEU 83 1IVL B 196585 GB 83 83 2 GLY CONFLICT ALA 84 1IVL B 196585 GB 84 84 2 MET CONFLICT VAL 85 1IVL B 196585 GB 85 85 2 SER CONFLICT VAL 91 1IVL B 196585 GB 91 91 2 ASN CONFLICT SER 92 1IVL B 196585 GB 92 92 2 SER CONFLICT GLU 93 1IVL B 196585 GB 93 93 2 TYR CONFLICT PHE 96 1IVL B 196585 GB 96 96 4 6 4 6 anti-parallel anti-parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel A LEU 4 A LEU 4 A SER 7 A SER 7 A SER 18 A SER 18 A ALA 25 A ALA 25 A ASP 70 A ASP 70 A ASN 76 A ASN 76 A PHE 62 A PHE 62 A GLY 66 A GLY 66 A THR 10 A THR 10 A VAL 13 A VAL 13 A THR 102 A THR 102 A ILE 106 A ILE 106 A ALA 84 A ALA 84 A GLN 90 A GLN 90 A LEU 33 A LEU 33 A GLN 38 A GLN 38 A ARG 45 A ARG 45 A LYS 49 A LYS 49 A GLN 53 A GLN 53 A SER 54 A SER 54 B LEU 4 B LEU 4 B SER 7 B SER 7 B VAL 19 B VAL 19 B ALA 25 B ALA 25 B ASP 70 B ASP 70 B ILE 75 B ILE 75 B PHE 62 B PHE 62 B SER 67 B SER 67 B THR 10 B THR 10 B VAL 13 B VAL 13 B THR 102 B THR 102 B ILE 106 B ILE 106 B ALA 84 B ALA 84 B GLN 90 B GLN 90 B LEU 33 B LEU 33 B GLN 38 B GLN 38 B ARG 45 B ARG 45 B LYS 49 B LYS 49 B GLN 53 B GLN 53 B SER 54 B SER 54 BINDING SITE FOR RESIDUE IPA A 108 Software 4 A GLN 38 A GLN 38 4 1_555 A PHE 98 A PHE 98 4 1_555 B TYR 36 B TYR 36 4 1_555 B GLN 89 B GLN 89 4 1_555 19 P 21 21 21