0.018667 0.000000 0.002259 0.000000 0.016359 0.000000 0.000000 0.000000 0.023870 0.00000 0.00000 0.00000 Ramsland, P.A. Shan, L. Moomaw, C.R. Slaughter, C.A. Guddat, L.W. Edmundson, A.B. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 2 90.00 96.90 90.00 53.570 61.130 42.200 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 C5 H7 N O3 129.114 n PYROGLUTAMIC ACID 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 Mol.Immunol. MOIMD5 0921 0161-5890 37 295 310 10.1016/S0161-5890(00)00049-3 11000403 An unusual human IgM antibody with a protruding HCDR3 and high avidity for its peptide ligands. 2000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 288 1 AREA DETECTOR 1990-11-19 SIEMENS SINGLE WAVELENGTH M x-ray 1 1.5418 1.0 1.5418 ROTATING ANODE SIEMENS 11527.743 IGM MEZ IMMUNOGLOBULIN LIGHT CHAIN VARIABLE DOMAIN FRAGMENT 1 nat polymer 13214.604 IGM MEZ IMMUNOGLOBULIN HEAVY CHAIN VARIABLE DOMAIN FRAGMENT 1 nat polymer 18.015 water 18 nat water no no DIQMTQSPSSLSASVGDRVTITCRASQDIRNDLGWYQQKPGKAPKKLIYAASSLQSGVPSRFSGSGSGTDFTLTISSLQP EDFATYYCLQQNSNWTFGQGTKVDIK DIQMTQSPSSLSASVGDRVTITCRASQDIRNDLGWYQQKPGKAPKKLIYAASSLQSGVPSRFSGSGSGTDFTLTISSLQP EDFATYYCLQQNSNWTFGQGTKVDIK L polypeptide(L) no yes (PCA)VQLVESGGGLVQPGGSLRLSCAASGFTFSSYAMHWVRQAPGKGLEWVAVISSDGGNKYYTDSVKGRFTISRNDSK NTLYLQMNSLRTEDTAVFYCARGNPPYSSGWGGGDYWGQGTMVTVSS QVQLVESGGGLVQPGGSLRLSCAASGFTFSSYAMHWVRQAPGKGLEWVAVISSDGGNKYYTDSVKGRFTISRNDSKNTLY LQMNSLRTEDTAVFYCARGNPPYSSGWGGGDYWGQGTMVTVSS H 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 human Homo sample 9606 Homo sapiens human Homo sample 9606 Homo sapiens 1 2.72 55.20 MICROSEEDING, SITTING DROP 7.0 6-8% (W/V) PEG 8000, 0.05% (W/V) SODIUM AZIDE, pH 7.0, MICROSEEDING, SITTING DROP, temperature 295K 295 software entity_poly pdbx_struct_mod_residue struct_conn repository Initial release Version format compliance Version format compliance Refinement description Derived calculations Polymer sequence 1 0 2000-10-04 1 1 2008-04-27 1 2 2011-07-13 1 3 2017-10-04 2 0 2019-12-25 _entity_poly.pdbx_seq_one_letter_code_can _pdbx_struct_mod_residue.parent_comp_id _struct_conn.pdbx_leaving_atom_flag RCSB Y RCSB 2000-01-04 REL REL HOH water HOH 3 3 HOH HOH 107 L HOH 4 3 HOH HOH 108 L HOH 5 3 HOH HOH 109 L HOH 6 3 HOH HOH 110 L HOH 10 3 HOH HOH 111 L HOH 11 3 HOH HOH 112 L HOH 12 3 HOH HOH 113 L HOH 13 3 HOH HOH 114 L HOH 14 3 HOH HOH 115 L HOH 15 3 HOH HOH 116 L HOH 1 3 HOH HOH 124 H HOH 2 3 HOH HOH 125 H HOH 7 3 HOH HOH 126 H HOH 8 3 HOH HOH 127 H HOH 9 3 HOH HOH 128 H HOH 16 3 HOH HOH 129 H HOH 17 3 HOH HOH 130 H HOH 18 3 HOH HOH 131 H ASP 1 n 1 ASP 1 L ILE 2 n 2 ILE 2 L GLN 3 n 3 GLN 3 L MET 4 n 4 MET 4 L THR 5 n 5 THR 5 L GLN 6 n 6 GLN 6 L SER 7 n 7 SER 7 L PRO 8 n 8 PRO 8 L SER 9 n 9 SER 9 L SER 10 n 10 SER 10 L LEU 11 n 11 LEU 11 L SER 12 n 12 SER 12 L ALA 13 n 13 ALA 13 L SER 14 n 14 SER 14 L VAL 15 n 15 VAL 15 L GLY 16 n 16 GLY 16 L ASP 17 n 17 ASP 17 L ARG 18 n 18 ARG 18 L VAL 19 n 19 VAL 19 L THR 20 n 20 THR 20 L ILE 21 n 21 ILE 21 L THR 22 n 22 THR 22 L CYS 23 n 23 CYS 23 L ARG 24 n 24 ARG 24 L ALA 25 n 25 ALA 25 L SER 26 n 26 SER 26 L GLN 27 n 27 GLN 27 L ASP 28 n 28 ASP 28 L ILE 29 n 29 ILE 29 L ARG 30 n 30 ARG 30 L ASN 31 n 31 ASN 31 L ASP 32 n 32 ASP 32 L LEU 33 n 33 LEU 33 L GLY 34 n 34 GLY 34 L TRP 35 n 35 TRP 35 L TYR 36 n 36 TYR 36 L GLN 37 n 37 GLN 37 L GLN 38 n 38 GLN 38 L LYS 39 n 39 LYS 39 L PRO 40 n 40 PRO 40 L GLY 41 n 41 GLY 41 L LYS 42 n 42 LYS 42 L ALA 43 n 43 ALA 43 L PRO 44 n 44 PRO 44 L LYS 45 n 45 LYS 45 L LYS 46 n 46 LYS 46 L LEU 47 n 47 LEU 47 L ILE 48 n 48 ILE 48 L TYR 49 n 49 TYR 49 L ALA 50 n 50 ALA 50 L ALA 51 n 51 ALA 51 L SER 52 n 52 SER 52 L SER 53 n 53 SER 53 L LEU 54 n 54 LEU 54 L GLN 55 n 55 GLN 55 L SER 56 n 56 SER 56 L GLY 57 n 57 GLY 57 L VAL 58 n 58 VAL 58 L PRO 59 n 59 PRO 59 L SER 60 n 60 SER 60 L ARG 61 n 61 ARG 61 L PHE 62 n 62 PHE 62 L SER 63 n 63 SER 63 L GLY 64 n 64 GLY 64 L SER 65 n 65 SER 65 L GLY 66 n 66 GLY 66 L SER 67 n 67 SER 67 L GLY 68 n 68 GLY 68 L THR 69 n 69 THR 69 L ASP 70 n 70 ASP 70 L PHE 71 n 71 PHE 71 L THR 72 n 72 THR 72 L LEU 73 n 73 LEU 73 L THR 74 n 74 THR 74 L ILE 75 n 75 ILE 75 L SER 76 n 76 SER 76 L SER 77 n 77 SER 77 L LEU 78 n 78 LEU 78 L GLN 79 n 79 GLN 79 L PRO 80 n 80 PRO 80 L GLU 81 n 81 GLU 81 L ASP 82 n 82 ASP 82 L PHE 83 n 83 PHE 83 L ALA 84 n 84 ALA 84 L THR 85 n 85 THR 85 L TYR 86 n 86 TYR 86 L TYR 87 n 87 TYR 87 L CYS 88 n 88 CYS 88 L LEU 89 n 89 LEU 89 L GLN 90 n 90 GLN 90 L GLN 91 n 91 GLN 91 L ASN 92 n 92 ASN 92 L SER 93 n 93 SER 93 L ASN 94 n 94 ASN 94 L TRP 95 n 95 TRP 95 L THR 96 n 96 THR 96 L PHE 97 n 97 PHE 97 L GLY 98 n 98 GLY 98 L GLN 99 n 99 GLN 99 L GLY 100 n 100 GLY 100 L THR 101 n 101 THR 101 L LYS 102 n 102 LYS 102 L VAL 103 n 103 VAL 103 L ASP 104 n 104 ASP 104 L ILE 105 n 105 ILE 105 L LYS 106 n 106 LYS 106 L PCA 1 n 1 PCA 1 H VAL 2 n 2 VAL 2 H GLN 3 n 3 GLN 3 H LEU 4 n 4 LEU 4 H VAL 5 n 5 VAL 5 H GLU 6 n 6 GLU 6 H SER 7 n 7 SER 7 H GLY 8 n 8 GLY 8 H GLY 9 n 9 GLY 9 H GLY 10 n 10 GLY 10 H LEU 11 n 11 LEU 11 H VAL 12 n 12 VAL 12 H GLN 13 n 13 GLN 13 H PRO 14 n 14 PRO 14 H GLY 15 n 15 GLY 15 H GLY 16 n 16 GLY 16 H SER 17 n 17 SER 17 H LEU 18 n 18 LEU 18 H ARG 19 n 19 ARG 19 H LEU 20 n 20 LEU 20 H SER 21 n 21 SER 21 H CYS 22 n 22 CYS 22 H ALA 23 n 23 ALA 23 H ALA 24 n 24 ALA 24 H SER 25 n 25 SER 25 H GLY 26 n 26 GLY 26 H PHE 27 n 27 PHE 27 H THR 28 n 28 THR 28 H PHE 29 n 29 PHE 29 H SER 30 n 30 SER 30 H SER 31 n 31 SER 31 H TYR 32 n 32 TYR 32 H ALA 33 n 33 ALA 33 H MET 34 n 34 MET 34 H HIS 35 n 35 HIS 35 H TRP 36 n 36 TRP 36 H VAL 37 n 37 VAL 37 H ARG 38 n 38 ARG 38 H GLN 39 n 39 GLN 39 H ALA 40 n 40 ALA 40 H PRO 41 n 41 PRO 41 H GLY 42 n 42 GLY 42 H LYS 43 n 43 LYS 43 H GLY 44 n 44 GLY 44 H LEU 45 n 45 LEU 45 H GLU 46 n 46 GLU 46 H TRP 47 n 47 TRP 47 H VAL 48 n 48 VAL 48 H ALA 49 n 49 ALA 49 H VAL 50 n 50 VAL 50 H ILE 51 n 51 ILE 51 H SER 52 n 52 SER 52 H SER 53 n 53 SER 53 H ASP 54 n 54 ASP 54 H GLY 55 n 55 GLY 55 H GLY 56 n 56 GLY 56 H ASN 57 n 57 ASN 57 H LYS 58 n 58 LYS 58 H TYR 59 n 59 TYR 59 H TYR 60 n 60 TYR 60 H THR 61 n 61 THR 61 H ASP 62 n 62 ASP 62 H SER 63 n 63 SER 63 H VAL 64 n 64 VAL 64 H LYS 65 n 65 LYS 65 H GLY 66 n 66 GLY 66 H ARG 67 n 67 ARG 67 H PHE 68 n 68 PHE 68 H THR 69 n 69 THR 69 H ILE 70 n 70 ILE 70 H SER 71 n 71 SER 71 H ARG 72 n 72 ARG 72 H ASN 73 n 73 ASN 73 H ASP 74 n 74 ASP 74 H SER 75 n 75 SER 75 H LYS 76 n 76 LYS 76 H ASN 77 n 77 ASN 77 H THR 78 n 78 THR 78 H LEU 79 n 79 LEU 79 H TYR 80 n 80 TYR 80 H LEU 81 n 81 LEU 81 H GLN 82 n 82 GLN 82 H MET 83 n 83 MET 83 H ASN 84 n 84 ASN 84 H SER 85 n 85 SER 85 H LEU 86 n 86 LEU 86 H ARG 87 n 87 ARG 87 H THR 88 n 88 THR 88 H GLU 89 n 89 GLU 89 H ASP 90 n 90 ASP 90 H THR 91 n 91 THR 91 H ALA 92 n 92 ALA 92 H VAL 93 n 93 VAL 93 H PHE 94 n 94 PHE 94 H TYR 95 n 95 TYR 95 H CYS 96 n 96 CYS 96 H ALA 97 n 97 ALA 97 H ARG 98 n 98 ARG 98 H GLY 99 n 99 GLY 99 H ASN 100 n 100 ASN 100 H PRO 101 n 101 PRO 101 H PRO 102 n 102 PRO 102 H TYR 103 n 103 TYR 103 H SER 104 n 104 SER 104 H SER 105 n 105 SER 105 H GLY 106 n 106 GLY 106 H TRP 107 n 107 TRP 107 H GLY 108 n 108 GLY 108 H GLY 109 n 109 GLY 109 H GLY 110 n 110 GLY 110 H ASP 111 n 111 ASP 111 H TYR 112 n 112 TYR 112 H TRP 113 n 113 TRP 113 H GLY 114 n 114 GLY 114 H GLN 115 n 115 GLN 115 H GLY 116 n 116 GLY 116 H THR 117 n 117 THR 117 H MET 118 n 118 MET 118 H VAL 119 n 119 VAL 119 H THR 120 n 120 THR 120 H VAL 121 n 121 VAL 121 H SER 122 n 122 SER 122 H SER 123 n 123 SER 123 H author_and_software_defined_assembly PISA 2 dimeric 1380 -8 10640 H PCA 1 PYROGLUTAMIC ACID B PCA 1 GLN 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 L N SER 7 A N SER 7 L O THR 22 A O THR 22 L O CYS 23 A O CYS 23 L N PHE 71 A N PHE 71 L N THR 74 A N THR 74 L O SER 63 A O SER 63 L O SER 53 A O SER 53 L N TYR 49 A N TYR 49 L N LEU 47 A N LEU 47 L O TRP 35 A O TRP 35 L N GLN 38 A N GLN 38 L O THR 85 A O THR 85 L N GLN 90 A N GLN 90 L O THR 96 A O THR 96 L O SER 53 A O SER 53 L N TYR 49 A N TYR 49 L N LEU 47 A N LEU 47 L O TRP 35 A O TRP 35 L N GLN 38 A N GLN 38 L O THR 85 A O THR 85 L N TYR 86 A N TYR 86 L O THR 101 A O THR 101 L N ASP 104 A N ASP 104 L O LEU 11 A O LEU 11 H N SER 7 B N SER 7 H O SER 21 B O SER 21 H N CYS 22 B N CYS 22 H O LEU 79 B O LEU 79 H N GLN 82 B N GLN 82 H O THR 69 B O THR 69 H N VAL 12 B N VAL 12 H O THR 120 B O THR 120 H N VAL 119 B N VAL 119 H O ALA 92 B O ALA 92 H O ALA 97 B O ALA 97 H N HIS 35 B N HIS 35 H N ARG 38 B N ARG 38 H O GLU 46 B O GLU 46 H O VAL 50 B O VAL 50 H N TYR 59 B N TYR 59 1 L ARG 30 55.79 -118.29 1 L ALA 51 64.30 -43.90 1 L ALA 84 -179.21 -176.20 1 L SER 93 -137.25 -149.03 1 H ASP 74 -68.83 14.35 protein_rep.param protein.top pca.par pca.top water_rep.param 18.9 0.261 0.009 0.181 0.191 0.191 2.6 20.0 764 6963 6963 11.0 83.4 RANDOM 1 THROUGHOUT 0.0 0.0 ENGH & HUBER FLAT MODEL 14.31 0.252 0.41 0.28 5.00 0.57 0.38 2.6 20.0 18 1758 0 0 1740 0.007 1.35 27.80 0.78 0.379 0.047 0.286 2.76 65 502 6 11.5 40.6 13.1 2.58 20.0 1DQL 7111 7111 0.0 0.0 0.145 1 12.4 2.25 84.4 0.167 2.58 2.75 1.2 40.0 data scaling X-GEN data reduction X-GEN phasing AMoRE refinement CNS IGM MEZ IMMUNOGLOBULIN CRYSTAL STRUCTURE OF AN UNLIGANDED (NATIVE) FV FROM A HUMAN IGM ANTI-PEPTIDE ANTIBODY 1 N N 2 N N 3 N N 3 N N The Mez Fv is a non-covalent heterodimer of VL (chain L) and VH (chain H) H THR 28 B THR 28 HELX_P H TYR 32 B TYR 32 5 1 5 H ASP 62 B ASP 62 HELX_P H VAL 64 B VAL 64 5 2 3 H ARG 87 B ARG 87 HELX_P H THR 91 B THR 91 5 3 5 disulf 2.030 L CYS 23 A SG CYS 23 1_555 L CYS 88 A SG CYS 88 1_555 disulf 2.032 H CYS 22 B SG CYS 22 1_555 H CYS 96 B SG CYS 96 1_555 covale 1.323 both H PCA 1 B C PCA 1 1_555 H VAL 2 B N VAL 2 1_555 IMMUNE SYSTEM IMMUNOGLOBULIN FOLD, ANTIBODY, IgM, Fv, IMMUNE SYSTEM L SER 7 A SER 7 1 L PRO 8 A PRO 8 0.88 1DQL PDB 1 1DQL 1DQL PDB 2 1DQL 1 106 1DQL 1 106 1DQL L 1 1 106 1 123 1DQL 1 123 1DQL H 2 1 123 4 5 6 4 6 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 parallel anti-parallel anti-parallel anti-parallel anti-parallel L THR 5 A THR 5 L SER 7 A SER 7 L VAL 19 A VAL 19 L ARG 24 A ARG 24 L ASP 70 A ASP 70 L ILE 75 A ILE 75 L PHE 62 A PHE 62 L SER 67 A SER 67 L SER 53 A SER 53 L LEU 54 A LEU 54 L LYS 45 A LYS 45 L TYR 49 A TYR 49 L LEU 33 A LEU 33 L GLN 38 A GLN 38 L THR 85 A THR 85 L GLN 90 A GLN 90 L THR 96 A THR 96 L PHE 97 A PHE 97 L SER 53 A SER 53 L LEU 54 A LEU 54 L LYS 45 A LYS 45 L TYR 49 A TYR 49 L LEU 33 A LEU 33 L GLN 38 A GLN 38 L THR 85 A THR 85 L GLN 90 A GLN 90 L THR 101 A THR 101 L ILE 105 A ILE 105 L SER 10 A SER 10 L ALA 13 A ALA 13 H GLN 3 B GLN 3 H SER 7 B SER 7 H LEU 18 B LEU 18 H SER 25 B SER 25 H THR 78 B THR 78 H MET 83 B MET 83 H PHE 68 B PHE 68 H ASN 73 B ASN 73 H LEU 11 B LEU 11 H VAL 12 B VAL 12 H THR 117 B THR 117 H VAL 121 B VAL 121 H ALA 92 B ALA 92 H ARG 98 B ARG 98 H MET 34 B MET 34 H GLN 39 B GLN 39 H LEU 45 B LEU 45 H ILE 51 B ILE 51 H LYS 58 B LYS 58 H TYR 60 B TYR 60 4 P 1 21 1