0.014182 0.000000 0.000000 0.000000 0.014182 0.000000 0.000000 0.000000 0.004924 0.00000 0.00000 0.00000 Vyas, N.K. Vyas, M.N. Chervenak, M.C. Johnson, M.A. Pinto, B.M. Bundle, D.R. Quiocho, F.A. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 70.510 70.510 203.100 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 C8 H15 N O6 221.208 2-acetamido-2-deoxy-beta-D-glucopyranose D-saccharide, beta linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C6 H12 O5 164.156 alpha-L-rhamnopyranose L-saccharide, alpha linking C7 H14 O5 178.183 n methyl 6-deoxy-alpha-L-rhamnopyranoside L-saccharide 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 Biochemistry BICHAW 0033 0006-2960 41 13575 13586 10.1021/bi0261387 12427018 Molecular Recognition of Oligosaccharide Epitopes by a Monoclonal Fab Specific for Shigella flexneri Y Lipopolysaccharide: X-ray Structures and Thermodynamics 2002 UK J.Mol.Biol. JMOBAK 0070 0022-2836 231 133 136 10.1006/jmbi.1993.1262 Preliminary Crystallographic Analysis of a Fab Specific for the O-antigen of Shigella flexneri Cell Surface Lipoplysacharide with and and without Bound Saccharides 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 281 1 hoton Factory BL6A2 IMAGE PLATE 1990-06-02 FUJI SINGLE WAVELENGTH M x-ray 1 1.0 1.0 BL-6A Photon Factory 1.0 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-6A 23717.350 light chain of the monoclonal antibody Fab SYA/J6 1 man polymer 23547.361 heavy chain of the monoclonal antibody Fab SYA/J6 1 man polymer 819.798 alpha-L-rhamnopyranose-(1-2)-alpha-L-rhamnopyranose-(1-3)-alpha-L-rhamnopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-methyl 6-deoxy-alpha-L-rhamnopyranoside 1 man branched 18.015 water 170 nat water no no DVVLTQTPLSLPVRLGDQASISCRSSQSLLHSDGNTYLHWYLQKPGQSPKLLIYKVSNRFSGVPDRFSGSGSGTDFTLKI SRVEAEDLGVYFCSQTTHVPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQ NGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNR DVVLTQTPLSLPVRLGDQASISCRSSQSLLHSDGNTYLHWYLQKPGQSPKLLIYKVSNRFSGVPDRFSGSGSGTDFTLKI SRVEAEDLGVYFCSQTTHVPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQ NGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNR A polypeptide(L) no no EVKVEESGGGLVQPGGSMKLSCVASGFTFSNYWMEWVRQSPEKGLEWVAEIRLKSNNYATHYAESVKGRFTISRDDSKSS VYLQMNNLRAEDTGIYYCTRGGAVGAMDYWGQGTSVTVSSATTTAPSVYPLVPGCSDTSGSSVTLGCLVKGYFPEPVTVK WNYGALSSGVRTVSSVLQSGFYSLSSLVTVPSSTWPSQTVICNVAHPASKVDLIKEPSGP EVKVEESGGGLVQPGGSMKLSCVASGFTFSNYWMEWVRQSPEKGLEWVAEIRLKSNNYATHYAESVKGRFTISRDDSKSS VYLQMNNLRAEDTGIYYCTRGGAVGAMDYWGQGTSVTVSSATTTAPSVYPLVPGCSDTSGSSVTLGCLVKGYFPEPVTVK WNYGALSSGVRTVSSVLQSGFYSLSSLVTVPSSTWPSQTVICNVAHPASKVDLIKEPSGP 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 n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n 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 Mus Balb/C Escherichia sample Plasmacytoma cell SYA/J6 hybridoma 10090 Spleen Mus musculus 562 Escherichia coli house mouse Mus Balb/C Escherichia sample Plasmacytoma cell SYA/J6 hybridoma 10090 Spleen Mus musculus 562 Escherichia coli 1 2.67 53.92 VAPOR DIFFUSION 6.5 MPD, potassium phosphate, pH 6.5, VAPOR DIFFUSION, temperature 277K 277 software atom_site chem_comp entity pdbx_branch_scheme pdbx_chem_comp_identifier pdbx_entity_branch pdbx_entity_branch_descriptor pdbx_entity_branch_link pdbx_entity_branch_list pdbx_entity_nonpoly pdbx_nonpoly_scheme pdbx_struct_assembly_gen struct_asym struct_conn struct_site struct_site_gen repository Initial release Carbohydrate remediation repository Remediation Version format compliance Non-polymer description Version format compliance Refinement description Atomic model Data collection Derived calculations Structure summary 1 0 2003-07-22 1 1 2008-04-28 1 2 2011-07-13 1 3 2017-10-11 2 0 2020-07-29 _software.name _atom_site.B_iso_or_equiv _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.auth_asym_id _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.label_asym_id _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_entity_id _atom_site.type_symbol _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.type _pdbx_struct_assembly_gen.asym_id_list _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id RHB 5 n C RAO 1 NAG 4 n C NAG 2 RHA 3 n C RAM 3 RHA 2 n C RAM 4 RHA 1 n C RAM 5 DGlcpNAcb N-acetyl-b-D-glucopyranosamine b-D-GlcpNAc GlcNAc LRhapa a-L-rhamnopyranose a-L-Rhap Rha LRhap[1Me]a 1-methyl-a-L-rhamnoopyranose 1-O-methyl-a-rhamnose Phosphocholine binding immunoglobulin Fab McPC603. An X-ray diffraction study at 2.7 A Crystal structure of a Monoclonal Fab Specific for Shigella flexneri Y Lipopolysaccharide complexed with a pentasaccharide Crystal structure of a Monoclonal Fab Specific for Shigella flexneri Y Lipopolysaccharide complexed with a trisaccharide SEQUENCE At the time of processing, this sequence of chain A and chain B have not yet been deposited in a sequence database. RCSB Y RCSB 2002-07-19 REL oligosaccharide LRhapa1-2LRhapa1-3LRhapa1-3DGlcpNAcb1-2LRhap[1Me]a1-OME 3 GMML 1.0 Glycam Condensed Sequence WURCS=2.0/3,5,4/[a2211m-1a_1-5_1*OC][a2122h-1b_1-5_2*NCC/3=O][a2211m-1a_1-5]/1-2-3-3-3/a2-b1_b3-c1_c3-d1_d2-e1 3 PDB2Glycan 1.1.0 WURCS [][methyl]{[(1+1)][a-L-Rhap]{[(2+1)][b-D-GlcpNAc]{[(3+1)][a-L-Rhap]{[(3+1)][a-L-Rhap]{[(2+1)][a-L-Rhap]{}}}}}} 3 PDB-CARE LINUCS C1 O2 NAG RAO 2 1 3 O1 HO2 sing C1 O3 RAM NAG 3 2 3 O1 HO3 sing C1 O3 RAM RAM 4 3 3 O1 HO3 sing C1 O2 RAM RAM 5 4 3 O1 HO2 sing n n n n n HOH water TIP 1 4 HOH HOH 217 A TIP 2 4 HOH HOH 218 A TIP 4 4 HOH HOH 219 A TIP 5 4 HOH HOH 220 A TIP 6 4 HOH HOH 221 A TIP 8 4 HOH HOH 222 A TIP 11 4 HOH HOH 223 A TIP 14 4 HOH HOH 224 A TIP 15 4 HOH HOH 225 A TIP 16 4 HOH HOH 226 A TIP 17 4 HOH HOH 227 A TIP 18 4 HOH HOH 228 A TIP 21 4 HOH HOH 229 A TIP 23 4 HOH HOH 230 A TIP 24 4 HOH HOH 231 A TIP 26 4 HOH HOH 232 A TIP 27 4 HOH HOH 233 A TIP 28 4 HOH HOH 234 A TIP 30 4 HOH HOH 235 A TIP 33 4 HOH HOH 236 A TIP 36 4 HOH HOH 237 A TIP 38 4 HOH HOH 238 A TIP 40 4 HOH HOH 239 A TIP 50 4 HOH HOH 240 A TIP 51 4 HOH HOH 241 A TIP 52 4 HOH HOH 242 A TIP 53 4 HOH HOH 243 A TIP 54 4 HOH HOH 244 A TIP 55 4 HOH HOH 245 A TIP 56 4 HOH HOH 246 A TIP 57 4 HOH HOH 247 A TIP 59 4 HOH HOH 248 A TIP 61 4 HOH HOH 249 A TIP 64 4 HOH HOH 250 A TIP 65 4 HOH HOH 251 A TIP 69 4 HOH HOH 252 A TIP 70 4 HOH HOH 253 A TIP 71 4 HOH HOH 254 A TIP 72 4 HOH HOH 255 A TIP 75 4 HOH HOH 256 A TIP 76 4 HOH HOH 257 A TIP 77 4 HOH HOH 258 A TIP 80 4 HOH HOH 259 A TIP 83 4 HOH HOH 260 A TIP 85 4 HOH HOH 261 A TIP 86 4 HOH HOH 262 A TIP 87 4 HOH HOH 263 A TIP 88 4 HOH HOH 264 A TIP 89 4 HOH HOH 265 A TIP 90 4 HOH HOH 266 A TIP 91 4 HOH HOH 267 A TIP 93 4 HOH HOH 268 A TIP 94 4 HOH HOH 269 A TIP 96 4 HOH HOH 270 A TIP 97 4 HOH HOH 271 A TIP 100 4 HOH HOH 272 A TIP 102 4 HOH HOH 273 A TIP 108 4 HOH HOH 274 A TIP 109 4 HOH HOH 275 A TIP 110 4 HOH HOH 276 A TIP 111 4 HOH HOH 277 A TIP 113 4 HOH HOH 278 A TIP 118 4 HOH HOH 279 A TIP 120 4 HOH HOH 280 A TIP 121 4 HOH HOH 281 A TIP 123 4 HOH HOH 282 A TIP 124 4 HOH HOH 283 A TIP 125 4 HOH HOH 284 A TIP 130 4 HOH HOH 285 A TIP 132 4 HOH HOH 286 A TIP 139 4 HOH HOH 287 A TIP 140 4 HOH HOH 288 A TIP 141 4 HOH HOH 289 A TIP 142 4 HOH HOH 290 A TIP 143 4 HOH HOH 291 A TIP 145 4 HOH HOH 292 A TIP 146 4 HOH HOH 293 A TIP 150 4 HOH HOH 294 A TIP 153 4 HOH HOH 295 A TIP 156 4 HOH HOH 296 A TIP 157 4 HOH HOH 297 A TIP 158 4 HOH HOH 298 A TIP 159 4 HOH HOH 299 A TIP 162 4 HOH HOH 300 A TIP 164 4 HOH HOH 301 A TIP 165 4 HOH HOH 302 A TIP 167 4 HOH HOH 303 A TIP 168 4 HOH HOH 304 A TIP 169 4 HOH HOH 305 A TIP 171 4 HOH HOH 306 A TIP 3 4 HOH HOH 214 B TIP 7 4 HOH HOH 215 B TIP 9 4 HOH HOH 216 B TIP 10 4 HOH HOH 217 B TIP 12 4 HOH HOH 218 B TIP 13 4 HOH HOH 219 B TIP 19 4 HOH HOH 220 B TIP 20 4 HOH HOH 221 B TIP 22 4 HOH HOH 222 B TIP 25 4 HOH HOH 223 B TIP 29 4 HOH HOH 224 B TIP 31 4 HOH HOH 225 B TIP 32 4 HOH HOH 226 B TIP 34 4 HOH HOH 227 B TIP 35 4 HOH HOH 228 B TIP 37 4 HOH HOH 229 B TIP 39 4 HOH HOH 230 B TIP 41 4 HOH HOH 231 B TIP 42 4 HOH HOH 232 B TIP 43 4 HOH HOH 233 B TIP 44 4 HOH HOH 234 B TIP 45 4 HOH HOH 235 B TIP 46 4 HOH HOH 236 B TIP 47 4 HOH HOH 237 B TIP 48 4 HOH HOH 238 B TIP 49 4 HOH HOH 239 B TIP 58 4 HOH HOH 240 B TIP 60 4 HOH HOH 241 B TIP 62 4 HOH HOH 242 B TIP 63 4 HOH HOH 243 B TIP 66 4 HOH HOH 244 B TIP 67 4 HOH HOH 245 B TIP 68 4 HOH HOH 246 B TIP 73 4 HOH HOH 247 B TIP 74 4 HOH HOH 248 B TIP 78 4 HOH HOH 249 B TIP 79 4 HOH HOH 250 B TIP 81 4 HOH HOH 251 B TIP 82 4 HOH HOH 252 B TIP 84 4 HOH HOH 253 B TIP 92 4 HOH HOH 254 B TIP 95 4 HOH HOH 255 B TIP 98 4 HOH HOH 256 B TIP 99 4 HOH HOH 257 B TIP 101 4 HOH HOH 258 B TIP 103 4 HOH HOH 259 B TIP 104 4 HOH HOH 260 B TIP 105 4 HOH HOH 261 B TIP 106 4 HOH HOH 262 B TIP 107 4 HOH HOH 263 B TIP 112 4 HOH HOH 264 B TIP 114 4 HOH HOH 265 B TIP 115 4 HOH HOH 266 B TIP 116 4 HOH HOH 267 B TIP 117 4 HOH HOH 268 B TIP 119 4 HOH HOH 269 B TIP 122 4 HOH HOH 270 B TIP 126 4 HOH HOH 271 B TIP 127 4 HOH HOH 272 B TIP 128 4 HOH HOH 273 B TIP 129 4 HOH HOH 274 B TIP 131 4 HOH HOH 275 B TIP 133 4 HOH HOH 276 B TIP 134 4 HOH HOH 277 B TIP 135 4 HOH HOH 278 B TIP 136 4 HOH HOH 279 B TIP 137 4 HOH HOH 280 B TIP 138 4 HOH HOH 281 B TIP 144 4 HOH HOH 282 B TIP 147 4 HOH HOH 283 B TIP 148 4 HOH HOH 284 B TIP 149 4 HOH HOH 285 B TIP 151 4 HOH HOH 286 B TIP 152 4 HOH HOH 287 B TIP 154 4 HOH HOH 288 B TIP 155 4 HOH HOH 289 B TIP 161 4 HOH HOH 290 B TIP 163 4 HOH HOH 291 B TIP 166 4 HOH HOH 292 B TIP 170 4 HOH HOH 293 B ASP 1 n 1 ASP 1 A VAL 2 n 2 VAL 2 A VAL 3 n 3 VAL 3 A LEU 4 n 4 LEU 4 A THR 5 n 5 THR 5 A GLN 6 n 6 GLN 6 A THR 7 n 7 THR 7 A PRO 8 n 8 PRO 8 A LEU 9 n 9 LEU 9 A SER 10 n 10 SER 10 A LEU 11 n 11 LEU 11 A PRO 12 n 12 PRO 12 A VAL 13 n 13 VAL 13 A ARG 14 n 14 ARG 14 A LEU 15 n 15 LEU 15 A GLY 16 n 16 GLY 16 A ASP 17 n 17 ASP 17 A GLN 18 n 18 GLN 18 A ALA 19 n 19 ALA 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 SER 25 n 25 SER 25 A SER 26 n 26 SER 26 A GLN 27 n 27 GLN 27 A SER 27 n 28 A SER 27 A LEU 27 n 29 B LEU 27 A LEU 27 n 30 C LEU 27 A HIS 27 n 31 D HIS 27 A SER 27 n 32 E SER 27 A ASP 28 n 33 ASP 28 A GLY 29 n 34 GLY 29 A ASN 30 n 35 ASN 30 A THR 31 n 36 THR 31 A TYR 32 n 37 TYR 32 A LEU 33 n 38 LEU 33 A HIS 34 n 39 HIS 34 A TRP 35 n 40 TRP 35 A TYR 36 n 41 TYR 36 A LEU 37 n 42 LEU 37 A GLN 38 n 43 GLN 38 A LYS 39 n 44 LYS 39 A PRO 40 n 45 PRO 40 A GLY 41 n 46 GLY 41 A GLN 42 n 47 GLN 42 A SER 43 n 48 SER 43 A PRO 44 n 49 PRO 44 A LYS 45 n 50 LYS 45 A LEU 46 n 51 LEU 46 A LEU 47 n 52 LEU 47 A ILE 48 n 53 ILE 48 A TYR 49 n 54 TYR 49 A LYS 50 n 55 LYS 50 A VAL 51 n 56 VAL 51 A SER 52 n 57 SER 52 A ASN 53 n 58 ASN 53 A ARG 54 n 59 ARG 54 A PHE 55 n 60 PHE 55 A SER 56 n 61 SER 56 A GLY 57 n 62 GLY 57 A VAL 58 n 63 VAL 58 A PRO 59 n 64 PRO 59 A ASP 60 n 65 ASP 60 A ARG 61 n 66 ARG 61 A PHE 62 n 67 PHE 62 A SER 63 n 68 SER 63 A GLY 64 n 69 GLY 64 A SER 65 n 70 SER 65 A GLY 66 n 71 GLY 66 A SER 67 n 72 SER 67 A GLY 68 n 73 GLY 68 A THR 69 n 74 THR 69 A ASP 70 n 75 ASP 70 A PHE 71 n 76 PHE 71 A THR 72 n 77 THR 72 A LEU 73 n 78 LEU 73 A LYS 74 n 79 LYS 74 A ILE 75 n 80 ILE 75 A SER 76 n 81 SER 76 A ARG 77 n 82 ARG 77 A VAL 78 n 83 VAL 78 A GLU 79 n 84 GLU 79 A ALA 80 n 85 ALA 80 A GLU 81 n 86 GLU 81 A ASP 82 n 87 ASP 82 A LEU 83 n 88 LEU 83 A GLY 84 n 89 GLY 84 A VAL 85 n 90 VAL 85 A TYR 86 n 91 TYR 86 A PHE 87 n 92 PHE 87 A CYS 88 n 93 CYS 88 A SER 89 n 94 SER 89 A GLN 90 n 95 GLN 90 A THR 91 n 96 THR 91 A THR 92 n 97 THR 92 A HIS 93 n 98 HIS 93 A VAL 94 n 99 VAL 94 A PRO 95 n 100 PRO 95 A THR 97 n 101 THR 97 A PHE 98 n 102 PHE 98 A GLY 99 n 103 GLY 99 A GLY 100 n 104 GLY 100 A GLY 101 n 105 GLY 101 A THR 102 n 106 THR 102 A LYS 103 n 107 LYS 103 A LEU 104 n 108 LEU 104 A GLU 105 n 109 GLU 105 A ILE 106 n 110 ILE 106 A LYS 107 n 111 LYS 107 A ARG 108 n 112 ARG 108 A ALA 109 n 113 ALA 109 A ASP 110 n 114 ASP 110 A ALA 111 n 115 ALA 111 A ALA 112 n 116 ALA 112 A PRO 113 n 117 PRO 113 A THR 114 n 118 THR 114 A VAL 115 n 119 VAL 115 A SER 116 n 120 SER 116 A ILE 117 n 121 ILE 117 A PHE 118 n 122 PHE 118 A PRO 119 n 123 PRO 119 A PRO 120 n 124 PRO 120 A SER 121 n 125 SER 121 A SER 122 n 126 SER 122 A GLU 123 n 127 GLU 123 A GLN 124 n 128 GLN 124 A LEU 125 n 129 LEU 125 A THR 126 n 130 THR 126 A SER 127 n 131 SER 127 A GLY 128 n 132 GLY 128 A GLY 129 n 133 GLY 129 A ALA 130 n 134 ALA 130 A SER 131 n 135 SER 131 A VAL 132 n 136 VAL 132 A VAL 133 n 137 VAL 133 A CYS 134 n 138 CYS 134 A PHE 135 n 139 PHE 135 A LEU 136 n 140 LEU 136 A ASN 137 n 141 ASN 137 A ASN 138 n 142 ASN 138 A PHE 139 n 143 PHE 139 A TYR 140 n 144 TYR 140 A PRO 141 n 145 PRO 141 A LYS 142 n 146 LYS 142 A ASP 143 n 147 ASP 143 A ILE 144 n 148 ILE 144 A ASN 145 n 149 ASN 145 A VAL 146 n 150 VAL 146 A LYS 147 n 151 LYS 147 A TRP 148 n 152 TRP 148 A LYS 149 n 153 LYS 149 A ILE 150 n 154 ILE 150 A ASP 151 n 155 ASP 151 A GLY 152 n 156 GLY 152 A SER 153 n 157 SER 153 A GLU 154 n 158 GLU 154 A ARG 155 n 159 ARG 155 A GLN 156 n 160 GLN 156 A ASN 157 n 161 ASN 157 A GLY 158 n 162 GLY 158 A VAL 159 n 163 VAL 159 A LEU 160 n 164 LEU 160 A ASN 161 n 165 ASN 161 A SER 162 n 166 SER 162 A TRP 163 n 167 TRP 163 A THR 164 n 168 THR 164 A ASP 165 n 169 ASP 165 A GLN 166 n 170 GLN 166 A ASP 167 n 171 ASP 167 A SER 168 n 172 SER 168 A LYS 169 n 173 LYS 169 A ASP 170 n 174 ASP 170 A SER 171 n 175 SER 171 A THR 172 n 176 THR 172 A TYR 173 n 177 TYR 173 A SER 174 n 178 SER 174 A MET 175 n 179 MET 175 A SER 176 n 180 SER 176 A SER 177 n 181 SER 177 A THR 178 n 182 THR 178 A LEU 179 n 183 LEU 179 A THR 180 n 184 THR 180 A LEU 181 n 185 LEU 181 A THR 182 n 186 THR 182 A LYS 183 n 187 LYS 183 A ASP 184 n 188 ASP 184 A GLU 185 n 189 GLU 185 A TYR 186 n 190 TYR 186 A GLU 187 n 191 GLU 187 A ARG 188 n 192 ARG 188 A HIS 189 n 193 HIS 189 A ASN 190 n 194 ASN 190 A SER 191 n 195 SER 191 A TYR 192 n 196 TYR 192 A THR 193 n 197 THR 193 A CYS 194 n 198 CYS 194 A GLU 195 n 199 GLU 195 A ALA 196 n 200 ALA 196 A THR 197 n 201 THR 197 A HIS 198 n 202 HIS 198 A LYS 199 n 203 LYS 199 A THR 200 n 204 THR 200 A SER 201 n 205 SER 201 A THR 202 n 206 THR 202 A SER 203 n 207 SER 203 A PRO 204 n 208 PRO 204 A ILE 205 n 209 ILE 205 A VAL 206 n 210 VAL 206 A LYS 207 n 211 LYS 207 A SER 208 n 212 SER 208 A PHE 209 n 213 PHE 209 A ASN 210 n 214 ASN 210 A ARG 211 n 215 ARG 211 A GLU 1 n 1 GLU 1 B VAL 2 n 2 VAL 2 B LYS 3 n 3 LYS 3 B VAL 4 n 4 VAL 4 B GLU 5 n 5 GLU 5 B GLU 6 n 6 GLU 6 B SER 7 n 7 SER 7 B GLY 8 n 8 GLY 8 B GLY 9 n 9 GLY 9 B GLY 10 n 10 GLY 10 B LEU 11 n 11 LEU 11 B VAL 12 n 12 VAL 12 B GLN 13 n 13 GLN 13 B PRO 14 n 14 PRO 14 B GLY 15 n 15 GLY 15 B GLY 16 n 16 GLY 16 B SER 17 n 17 SER 17 B MET 18 n 18 MET 18 B LYS 19 n 19 LYS 19 B LEU 20 n 20 LEU 20 B SER 21 n 21 SER 21 B CYS 22 n 22 CYS 22 B VAL 23 n 23 VAL 23 B ALA 24 n 24 ALA 24 B SER 25 n 25 SER 25 B GLY 26 n 26 GLY 26 B PHE 27 n 27 PHE 27 B THR 28 n 28 THR 28 B PHE 29 n 29 PHE 29 B SER 30 n 30 SER 30 B ASN 31 n 31 ASN 31 B TYR 32 n 32 TYR 32 B TRP 33 n 33 TRP 33 B MET 34 n 34 MET 34 B GLU 35 n 35 GLU 35 B TRP 36 n 36 TRP 36 B VAL 37 n 37 VAL 37 B ARG 38 n 38 ARG 38 B GLN 39 n 39 GLN 39 B SER 40 n 40 SER 40 B PRO 41 n 41 PRO 41 B GLU 42 n 42 GLU 42 B LYS 43 n 43 LYS 43 B GLY 44 n 44 GLY 44 B LEU 45 n 45 LEU 45 B GLU 46 n 46 GLU 46 B TRP 47 n 47 TRP 47 B VAL 48 n 48 VAL 48 B ALA 49 n 49 ALA 49 B GLU 50 n 50 GLU 50 B ILE 51 n 51 ILE 51 B ARG 52 n 52 ARG 52 B LEU 52 n 53 A LEU 52 B LYS 52 n 54 B LYS 52 B SER 52 n 55 C SER 52 B ASN 53 n 56 ASN 53 B ASN 54 n 57 ASN 54 B TYR 55 n 58 TYR 55 B ALA 56 n 59 ALA 56 B THR 57 n 60 THR 57 B HIS 58 n 61 HIS 58 B TYR 59 n 62 TYR 59 B ALA 60 n 63 ALA 60 B GLU 61 n 64 GLU 61 B SER 62 n 65 SER 62 B VAL 63 n 66 VAL 63 B LYS 64 n 67 LYS 64 B GLY 65 n 68 GLY 65 B ARG 66 n 69 ARG 66 B PHE 67 n 70 PHE 67 B THR 68 n 71 THR 68 B ILE 69 n 72 ILE 69 B SER 70 n 73 SER 70 B ARG 71 n 74 ARG 71 B ASP 72 n 75 ASP 72 B ASP 73 n 76 ASP 73 B SER 74 n 77 SER 74 B LYS 75 n 78 LYS 75 B SER 76 n 79 SER 76 B SER 77 n 80 SER 77 B VAL 78 n 81 VAL 78 B TYR 79 n 82 TYR 79 B LEU 80 n 83 LEU 80 B GLN 81 n 84 GLN 81 B MET 82 n 85 MET 82 B ASN 82 n 86 A ASN 82 B ASN 82 n 87 B ASN 82 B LEU 82 n 88 C LEU 82 B ARG 83 n 89 ARG 83 B ALA 84 n 90 ALA 84 B GLU 85 n 91 GLU 85 B ASP 86 n 92 ASP 86 B THR 87 n 93 THR 87 B GLY 88 n 94 GLY 88 B ILE 89 n 95 ILE 89 B TYR 90 n 96 TYR 90 B TYR 91 n 97 TYR 91 B CYS 92 n 98 CYS 92 B THR 93 n 99 THR 93 B ARG 94 n 100 ARG 94 B GLY 95 n 101 GLY 95 B GLY 96 n 102 GLY 96 B ALA 97 n 103 ALA 97 B VAL 98 n 104 VAL 98 B GLY 99 n 105 GLY 99 B ALA 100 n 106 ALA 100 B MET 100 n 107 A MET 100 B ASP 101 n 108 ASP 101 B TYR 102 n 109 TYR 102 B TRP 103 n 110 TRP 103 B GLY 104 n 111 GLY 104 B GLN 105 n 112 GLN 105 B GLY 106 n 113 GLY 106 B THR 107 n 114 THR 107 B SER 108 n 115 SER 108 B VAL 109 n 116 VAL 109 B THR 110 n 117 THR 110 B VAL 111 n 118 VAL 111 B SER 112 n 119 SER 112 B SER 113 n 120 SER 113 B ALA 114 n 121 ALA 114 B THR 115 n 122 THR 115 B THR 116 n 123 THR 116 B THR 117 n 124 THR 117 B ALA 118 n 125 ALA 118 B PRO 119 n 126 PRO 119 B SER 120 n 127 SER 120 B VAL 121 n 128 VAL 121 B TYR 122 n 129 TYR 122 B PRO 123 n 130 PRO 123 B LEU 124 n 131 LEU 124 B VAL 125 n 132 VAL 125 B PRO 126 n 133 PRO 126 B GLY 127 n 134 GLY 127 B CYS 128 n 135 CYS 128 B SER 129 n 136 SER 129 B ASP 130 n 137 ASP 130 B THR 131 n 138 THR 131 B SER 132 n 139 SER 132 B GLY 133 n 140 GLY 133 B SER 134 n 141 SER 134 B SER 135 n 142 SER 135 B VAL 136 n 143 VAL 136 B THR 137 n 144 THR 137 B LEU 138 n 145 LEU 138 B GLY 139 n 146 GLY 139 B CYS 140 n 147 CYS 140 B LEU 141 n 148 LEU 141 B VAL 142 n 149 VAL 142 B LYS 143 n 150 LYS 143 B GLY 144 n 151 GLY 144 B TYR 145 n 152 TYR 145 B PHE 146 n 153 PHE 146 B PRO 147 n 154 PRO 147 B GLU 148 n 155 GLU 148 B PRO 149 n 156 PRO 149 B VAL 150 n 157 VAL 150 B THR 151 n 158 THR 151 B VAL 152 n 159 VAL 152 B LYS 153 n 160 LYS 153 B TRP 154 n 161 TRP 154 B ASN 155 n 162 ASN 155 B TYR 156 n 163 TYR 156 B GLY 157 n 164 GLY 157 B ALA 158 n 165 ALA 158 B LEU 159 n 166 LEU 159 B SER 160 n 167 SER 160 B SER 161 n 168 SER 161 B GLY 162 n 169 GLY 162 B VAL 163 n 170 VAL 163 B ARG 164 n 171 ARG 164 B THR 165 n 172 THR 165 B VAL 166 n 173 VAL 166 B SER 167 n 174 SER 167 B SER 168 n 175 SER 168 B VAL 169 n 176 VAL 169 B LEU 170 n 177 LEU 170 B GLN 171 n 178 GLN 171 B SER 172 n 179 SER 172 B GLY 173 n 180 GLY 173 B PHE 174 n 181 PHE 174 B TYR 175 n 182 TYR 175 B SER 176 n 183 SER 176 B LEU 177 n 184 LEU 177 B SER 178 n 185 SER 178 B SER 179 n 186 SER 179 B LEU 180 n 187 LEU 180 B VAL 181 n 188 VAL 181 B THR 182 n 189 THR 182 B VAL 183 n 190 VAL 183 B PRO 184 n 191 PRO 184 B SER 185 n 192 SER 185 B SER 186 n 193 SER 186 B THR 187 n 194 THR 187 B TRP 188 n 195 TRP 188 B PRO 189 n 196 PRO 189 B SER 190 n 197 SER 190 B GLN 191 n 198 GLN 191 B THR 192 n 199 THR 192 B VAL 193 n 200 VAL 193 B ILE 194 n 201 ILE 194 B CYS 195 n 202 CYS 195 B ASN 196 n 203 ASN 196 B VAL 197 n 204 VAL 197 B ALA 198 n 205 ALA 198 B HIS 199 n 206 HIS 199 B PRO 200 n 207 PRO 200 B ALA 201 n 208 ALA 201 B SER 202 n 209 SER 202 B LYS 203 n 210 LYS 203 B VAL 204 n 211 VAL 204 B ASP 205 n 212 ASP 205 B LEU 206 n 213 LEU 206 B ILE 207 n 214 ILE 207 B LYS 208 n 215 LYS 208 B GLU 209 n 216 GLU 209 B PRO 210 n 217 PRO 210 B SER 211 n 218 SER 211 B GLY 212 n 219 GLY 212 B PRO 213 n 220 PRO 213 B author_and_software_defined_assembly PISA 2 dimeric 5080 1 19540 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 THR 7 A O THR 7 A N SER 22 A N SER 22 A N CYS 23 A N CYS 23 A O PHE 71 A O PHE 76 A N LYS 74 A N LYS 79 A O SER 63 A O SER 68 A O ASN 53 A O ASN 58 A N TYR 49 A N TYR 54 A N LEU 47 A N LEU 52 A O TRP 35 A O TRP 40 A N GLN 38 A N GLN 43 A O VAL 85 A O VAL 90 A N GLN 90 A N GLN 95 A O THR 97 A O THR 101 A O THR 97 A O THR 101 A N GLN 90 A N GLN 95 A N TYR 86 A N TYR 91 A O THR 102 A O THR 106 A N GLU 105 A N GLU 109 A O LEU 11 A O LEU 11 A N PHE 118 A N PHE 122 A O VAL 133 A O VAL 137 A O PHE 139 A O PHE 143 A N TYR 173 A N TYR 177 A N THR 178 A N THR 182 A O LEU 160 A O LEU 164 A O PHE 209 A O PHE 213 A N TYR 192 A N TYR 196 A N THR 197 A N THR 201 A O ASN 145 A O ASN 149 A N ILE 150 A N ILE 154 A O SER 153 A O SER 157 B O SER 7 B O SER 7 B N SER 21 B N SER 21 B O CYS 22 B O CYS 22 B N VAL 78 B N VAL 81 B N GLN 81 B N GLN 84 B O THR 68 B O THR 71 B O HIS 58 B O HIS 61 B N GLU 50 B N GLU 50 B N ILE 51 B N ILE 51 B O MET 34 B O MET 34 B N GLN 39 B N GLN 39 B O ILE 89 B O ILE 95 B O ARG 94 B O ARG 100 B N ASP 101 B N ASP 108 B O TYR 102 B O TYR 109 B N ARG 94 B N ARG 100 B N TYR 90 B N TYR 96 B O THR 107 B O THR 114 B O THR 110 B O THR 117 B N VAL 12 B N VAL 12 B N GLN 171 B N GLN 178 B O PHE 174 B O PHE 181 B O LEU 180 B O LEU 187 B N ARG 164 B N ARG 171 B N ARG 164 B N ARG 171 B O LEU 180 B O LEU 187 B N VAL 183 B N VAL 190 B O VAL 136 B O VAL 143 B O LYS 143 B O LYS 150 B N SER 120 B N SER 127 B O LYS 153 B O LYS 160 B N ASN 196 B N ASN 203 B N HIS 199 B N HIS 206 B O VAL 204 B O VAL 211 1 B B O N GLN PRO 13 14 0.53 1 B B O CA GLN PRO 13 14 0.91 1 B B CA N PRO GLY 126 127 0.95 1 B B C CA PRO GLY 126 127 1.31 1 B B O N PRO GLY 14 15 1.37 1 B B O N SER SER 134 135 1.48 1 B B O CD GLN PRO 13 14 1.72 1 B B O C GLN PRO 13 14 1.74 1 B B C CA GLN PRO 13 14 1.75 1 B B CG2 O THR HOH 131 244 1.94 1 B GLN 13 -49.39 1 B PRO 14 54.18 1 B PRO 126 13.89 1 B B PRO GLY 14 15 92.88 1 B B C N GLN PRO 13 14 1.07 1 B B C N PRO GLY 14 15 1.03 1 B B C N SER SER 134 135 2.11 1 -16.80 2.80 117.10 100.30 B B B CA C N GLN GLN PRO 13 13 14 Y 1 -95.93 1.90 121.10 25.17 B B B O C N GLN GLN PRO 13 13 14 Y 1 -26.93 1.50 119.30 92.37 B B B C N CA GLN PRO PRO 13 14 14 Y 1 16.56 2.10 128.40 144.96 B B B C N CD GLN PRO PRO 13 14 14 Y 1 10.83 1.40 111.70 122.53 B B B CA N CD PRO PRO PRO 14 14 14 N 1 37.39 2.00 116.20 153.59 B B B CA C N PRO PRO GLY 14 14 15 Y 1 -51.11 1.70 123.20 72.09 B B B O C N PRO PRO GLY 14 14 15 Y 1 -17.22 2.10 122.30 105.08 B B B C N CA PRO GLY GLY 14 15 15 Y 1 -78.16 2.00 116.20 38.04 B B B CA C N PRO PRO GLY 126 126 127 Y 1 25.54 1.70 123.20 148.74 B B B O C N PRO PRO GLY 126 126 127 Y 1 -64.08 2.10 122.30 58.22 B B B C N CA PRO GLY GLY 126 127 127 Y 1 B B C N GLN PRO 13 14 -0.270 0.019 1.338 1.068 Y 1 B B N CA PRO PRO 14 14 -0.124 0.017 1.468 1.344 N 1 B B C N PRO GLY 14 15 -0.304 0.023 1.336 1.032 Y 1 A VAL 51 67.47 -54.77 1 A HIS 93 -129.18 -147.72 1 A ASN 138 42.70 72.63 1 A ASN 190 -135.41 -31.81 1 A THR 200 -69.67 15.89 1 A SER 201 -172.59 134.16 1 B VAL 2 -37.07 125.66 1 B PRO 14 -62.42 45.01 1 B THR 28 -66.01 94.56 1 B VAL 48 -98.16 -63.90 1 B ARG 52 -105.37 -162.46 A 1 B MET 100 -60.30 95.69 1 B CYS 128 0.99 95.75 1 B THR 131 -60.35 94.45 1 B SER 132 -148.58 56.08 1 B PHE 146 -171.79 134.56 1 B PRO 147 -84.90 -139.91 1 B LEU 177 -170.07 -174.24 PROTEIN_REP.PARAM PROTEIN.TOP WATER_REP.PARAM WATER_REP.TOP PARAM1NKV.CHO TOPH1NKV.CHO 35.6 4.36 0.00 0.00 4.36 0.00 -8.72 Author states residues 127-135 of chain B is part of a disordered segment. 0.282 0.010 0.22 0.22 0.22 2.50 20.00 737 14764 14375 5.0 79.5 RANDOM 1 RESTRAINED THROUGHOUT 0.0 1.5 MOLECULAR REPLACEMENT PDB ENTRY 1MCP Engh & Huber FLAT MODEL 32.142 0.302051 0.45 0.35 5.0 0.53 0.50 2.50 20.00 170 3549 56 0 3323 0.019 3.1 26.5 2.68 0.41 0.048 0.389 2.66 74 0 1569 6 55.2 14.4 2.50 20.00 1M7I 14764 14375 1.5 0.097 0.075 1 10. 6.5 79.6 2.50 2.66 737 1 55.2 data collection Weissenberg data reduction WEIS data reduction Protein phasing MERLOT refinement CNS 1.0 data reduction WEISSENBERG data scaling WEIS data scaling PROTEIN light chain of the monoclonal antibody Fab SYA/J6,heavy chain of the monoclonal antibody Fab SYA/J6 CRYSTAL STRUCTURE OF A MONOCLONAL FAB SPECIFIC FOR SHIGELLA FLEXNERI Y LIPOPOLYSACCHARIDE COMPLEXED WITH A PENTASACCHARIDE 1 N N 2 N N 3 N N 4 N N 4 N N A GLU 79 A GLU 84 HELX_P A LEU 83 A LEU 88 5 1 5 A GLN 124 A GLN 128 HELX_P A SER 127 A SER 131 5 2 4 A LYS 183 A LYS 187 HELX_P A ARG 188 A ARG 192 1 3 6 B THR 28 B THR 28 HELX_P B TYR 32 B TYR 32 5 4 5 B GLU 61 B GLU 64 HELX_P B LYS 64 B LYS 67 5 5 4 B ARG 83 B ARG 89 HELX_P B THR 87 B THR 93 5 6 5 B TYR 156 B TYR 163 HELX_P B ALA 158 B ALA 165 5 7 3 B PRO 200 B PRO 207 HELX_P B LYS 203 B LYS 210 5 8 4 disulf 2.494 A CYS 23 A SG CYS 23 1_555 A CYS 88 A SG CYS 93 1_555 disulf 2.644 A CYS 134 A SG CYS 138 1_555 A CYS 194 A SG CYS 198 1_555 disulf 2.494 B CYS 22 B SG CYS 22 1_555 B CYS 92 B SG CYS 98 1_555 disulf 2.035 B CYS 140 B SG CYS 147 1_555 B CYS 195 B SG CYS 202 1_555 covale 1.438 both C RAO 1 C O2 RAO 1_555 C NAG 2 C C1 NAG 1_555 covale 1.444 both C NAG 2 C O3 NAG 1_555 C RAM 3 C C1 RAM 1_555 covale 1.445 both C RAM 3 C O3 RAM 1_555 C RAM 4 C C1 RAM 1_555 covale 1.434 both C RAM 4 C O2 RAM 1_555 C RAM 5 C C1 RAM 1_555 IMMUNE SYSTEM Fab-carbohydrate interactions; Shigella O-antigen; and anti-carbohydrate antibody, IMMUNE SYSTEM A THR 7 A THR 7 1 A PRO 8 A PRO 8 0.18 A TYR 140 A TYR 144 1 A PRO 141 A PRO 145 1.18 B PHE 146 B PHE 153 1 B PRO 147 B PRO 154 0.66 B GLU 148 B GLU 155 1 B PRO 149 B PRO 156 0.00 B TRP 188 B TRP 195 1 B PRO 189 B PRO 196 0.04 1M7I PDB 1 1M7I 1M7I PDB 2 1M7I 1 211 1M7I 1 211 1M7I A 1 1 215 1 213 1M7I 1 213 1M7I B 2 1 220 4 8 4 4 4 8 6 3 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A LEU 4 A LEU 4 A THR 7 A THR 7 A ALA 19 A ALA 19 A SER 25 A SER 25 A ASP 70 A ASP 75 A ILE 75 A ILE 80 A PHE 62 A PHE 67 A SER 67 A SER 72 A ASN 53 A ASN 58 A ARG 54 A ARG 59 A LYS 45 A LYS 50 A TYR 49 A TYR 54 A LEU 33 A LEU 38 A GLN 38 A GLN 43 A GLY 84 A GLY 89 A GLN 90 A GLN 95 A THR 97 A THR 101 A PHE 98 A PHE 102 A GLY 84 A GLY 89 A GLN 90 A GLN 95 A THR 102 A THR 106 A LYS 107 A LYS 111 A SER 10 A SER 10 A ARG 14 A ARG 14 A THR 114 A THR 118 A PHE 118 A PHE 122 A GLY 129 A GLY 133 A PHE 139 A PHE 143 A TYR 173 A TYR 177 A THR 182 A THR 186 A VAL 159 A VAL 163 A TRP 163 A TRP 167 A ILE 205 A ILE 209 A ASN 210 A ASN 214 A SER 191 A SER 195 A THR 197 A THR 201 A ASN 145 A ASN 149 A ILE 150 A ILE 154 A SER 153 A SER 157 A ARG 155 A ARG 159 B LYS 3 B LYS 3 B SER 7 B SER 7 B MET 18 B MET 18 B SER 25 B SER 25 B SER 77 B SER 80 B MET 82 B MET 85 B PHE 67 B PHE 70 B ASP 72 B ASP 75 B THR 57 B THR 60 B TYR 59 B TYR 62 B GLY 44 B GLY 44 B ILE 51 B ILE 51 B TRP 33 B TRP 33 B SER 40 B SER 40 B GLY 88 B GLY 94 B GLY 95 B GLY 101 B MET 100 B MET 107 B TRP 103 B TRP 110 A B GLY 88 B GLY 94 B GLY 95 B GLY 101 B THR 107 B THR 114 B VAL 111 B VAL 118 B LEU 11 B LEU 11 B VAL 12 B VAL 12 B VAL 169 B VAL 176 B GLN 171 B GLN 178 B PHE 174 B PHE 181 B VAL 183 B VAL 190 B ARG 164 B ARG 171 B THR 165 B THR 172 B PHE 174 B PHE 181 B VAL 183 B VAL 190 B VAL 136 B VAL 143 B TYR 145 B TYR 152 B SER 120 B SER 127 B LEU 124 B LEU 131 B THR 151 B THR 158 B TRP 154 B TRP 161 B CYS 195 B CYS 202 B HIS 199 B HIS 206 B VAL 204 B VAL 211 B LYS 208 B LYS 215 96 P 43 21 2