0.015712 0.000000 0.000680 0.000000 0.011355 0.000000 0.000000 0.000000 0.011953 0.00000 0.00000 0.00000 Zhu, Y. Wilson, I.A. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 92.48 90.00 63.647 88.065 83.740 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 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 326 1157 1174 10.1016/S0022-2836(02)01437-7 12589760 Crystal structure of MHC class II I-Ab in complex with a human CLIP peptide: Prediction of an I-Ab peptide-binding motif 2003 95 1 IMAGE PLATE 2001-02-17 MAR scanner 300 mm plate SINGLE WAVELENGTH M x-ray 1 0.97 1.0 BL11-1 SSRL 0.97 SYNCHROTRON SSRL BEAMLINE BL11-1 21428.828 H-2 CLASS II HISTOCOMPATIBILITY ANTIGEN, A-B ALPHA CHAIN EXTRACELLULAR ALPHA-1 and EXTRACELLULAR ALPHA-2 domains 1 man polymer 23192.846 H-2 CLASS II HISTOCOMPATIBILITY ANTIGEN, A BETA CHAIN EXTRACELLULAR BETA-1 and EXTRACELLULAR BETA-2 domains 1 man polymer The peptide was covalently linked to the N-terminus of chain B. 3696.436 CLIP peptide 1 man polymer 221.208 2-acetamido-2-deoxy-beta-D-glucopyranose 2 man non-polymer 18.015 water 171 nat water no no EDDIEADHVGTYGISVYQSPGDIGQYTFEFDGDELFYVDLDKKETVWMLPEFGQLASFDPQGGLQNIAVVKHNLGVLTKR SNSTPATNEAPQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFHKLSYLTFIPS DDDIYDCKVEHWGLEEPVLKHWSSADLVPR EDDIEADHVGTYGISVYQSPGDIGQYTFEFDGDELFYVDLDKKETVWMLPEFGQLASFDPQGGLQNIAVVKHNLGVLTKR SNSTPATNEAPQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFHKLSYLTFIPS DDDIYDCKVEHWGLEEPVLKHWSSADLVPR A polypeptide(L) no no GDSERHFVYQFMGECYFTNGTQRIRYVTRYIYNREEYVRYDSDVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCR HNYEGPETHTSLRRLEQPNVVISLSRTEALNHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLV MLEMTPRRGEVYTCHVEHPSLKSPITVEWSSAELVPR GDSERHFVYQFMGECYFTNGTQRIRYVTRYIYNREEYVRYDSDVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCR HNYEGPETHTSLRRLEQPNVVISLSRTEALNHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLV MLEMTPRRGEVYTCHVEHPSLKSPITVEWSSAELVPR B polypeptide(L) no no GSHSRGLPKPPKPVSKMRMATPLLMQALPMGSGSGS GSHSRGLPKPPKPVSKMRMATPLLMQALPMGSGSGS C 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 house mouse Mus fruit fly Drosophila sample 10090 Mus musculus S2 7227 Drosophila melanogaster baculovirus house mouse Mus fruit fly Drosophila sample 10090 Mus musculus S2 7227 Drosophila melanogaster baculovirus human Homo fruit fly Drosophila sample 9606 Homo sapiens S2 7227 Drosophila melanogaster baculovirus 1 2.42 49.27 VAPOR DIFFUSION, SITTING DROP 7.5 PEG3000, Sodium Chloride, Tris, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 295.5K 295.5 chem_comp entity pdbx_chem_comp_identifier pdbx_entity_nonpoly pdbx_unobs_or_zero_occ_atoms struct_conn struct_ref_seq_dif struct_site struct_site_gen repository Initial release Carbohydrate remediation repository Remediation Version format compliance Non-polymer description Version format compliance Advisory Data collection Database references Derived calculations Structure summary 1 0 2003-02-18 1 1 2008-04-28 1 2 2011-07-13 1 3 2020-07-29 _chem_comp.name _chem_comp.type _entity.pdbx_description _pdbx_entity_nonpoly.name _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_role _struct_ref_seq_dif.details DGlcpNAcb N-acetyl-b-D-glucopyranosamine b-D-GlcpNAc GlcNAc RCSB Y RCSB 2002-09-23 REL REL NAG 2-acetamido-2-deoxy-beta-D-glucopyranose HOH water NAG 501 4 NAG NAG 501 A NAG 502 4 NAG NAG 502 B HOH 1 5 HOH HOH 502 A HOH 2 5 HOH HOH 503 A HOH 3 5 HOH HOH 504 A HOH 5 5 HOH HOH 505 A HOH 6 5 HOH HOH 506 A HOH 7 5 HOH HOH 507 A HOH 8 5 HOH HOH 508 A HOH 9 5 HOH HOH 509 A HOH 11 5 HOH HOH 510 A HOH 12 5 HOH HOH 511 A HOH 14 5 HOH HOH 512 A HOH 15 5 HOH HOH 513 A HOH 16 5 HOH HOH 514 A HOH 17 5 HOH HOH 515 A HOH 20 5 HOH HOH 516 A HOH 21 5 HOH HOH 517 A HOH 23 5 HOH HOH 518 A HOH 24 5 HOH HOH 519 A HOH 26 5 HOH HOH 520 A HOH 28 5 HOH HOH 521 A HOH 30 5 HOH HOH 522 A HOH 34 5 HOH HOH 523 A HOH 35 5 HOH HOH 524 A HOH 37 5 HOH HOH 525 A HOH 38 5 HOH HOH 526 A HOH 39 5 HOH HOH 527 A HOH 42 5 HOH HOH 528 A HOH 43 5 HOH HOH 529 A HOH 44 5 HOH HOH 530 A HOH 45 5 HOH HOH 531 A HOH 46 5 HOH HOH 532 A HOH 49 5 HOH HOH 533 A HOH 51 5 HOH HOH 534 A HOH 53 5 HOH HOH 535 A HOH 55 5 HOH HOH 536 A HOH 56 5 HOH HOH 537 A HOH 57 5 HOH HOH 538 A HOH 60 5 HOH HOH 539 A HOH 61 5 HOH HOH 540 A HOH 62 5 HOH HOH 541 A HOH 65 5 HOH HOH 542 A HOH 66 5 HOH HOH 543 A HOH 68 5 HOH HOH 544 A HOH 69 5 HOH HOH 545 A HOH 70 5 HOH HOH 546 A HOH 72 5 HOH HOH 547 A HOH 73 5 HOH HOH 548 A HOH 74 5 HOH HOH 549 A HOH 75 5 HOH HOH 550 A HOH 77 5 HOH HOH 551 A HOH 78 5 HOH HOH 552 A HOH 80 5 HOH HOH 553 A HOH 82 5 HOH HOH 554 A HOH 83 5 HOH HOH 555 A HOH 85 5 HOH HOH 556 A HOH 86 5 HOH HOH 557 A HOH 89 5 HOH HOH 558 A HOH 90 5 HOH HOH 559 A HOH 92 5 HOH HOH 560 A HOH 94 5 HOH HOH 561 A HOH 99 5 HOH HOH 562 A HOH 100 5 HOH HOH 563 A HOH 101 5 HOH HOH 564 A HOH 102 5 HOH HOH 565 A HOH 103 5 HOH HOH 566 A HOH 104 5 HOH HOH 567 A HOH 105 5 HOH HOH 568 A HOH 106 5 HOH HOH 569 A HOH 109 5 HOH HOH 570 A HOH 110 5 HOH HOH 571 A HOH 111 5 HOH HOH 572 A HOH 112 5 HOH HOH 573 A HOH 115 5 HOH HOH 574 A HOH 116 5 HOH HOH 575 A HOH 117 5 HOH HOH 576 A HOH 118 5 HOH HOH 577 A HOH 121 5 HOH HOH 578 A HOH 122 5 HOH HOH 579 A HOH 123 5 HOH HOH 580 A HOH 124 5 HOH HOH 581 A HOH 127 5 HOH HOH 582 A HOH 130 5 HOH HOH 583 A HOH 133 5 HOH HOH 584 A HOH 134 5 HOH HOH 585 A HOH 135 5 HOH HOH 586 A HOH 137 5 HOH HOH 587 A HOH 139 5 HOH HOH 588 A HOH 140 5 HOH HOH 589 A HOH 141 5 HOH HOH 590 A HOH 142 5 HOH HOH 591 A HOH 143 5 HOH HOH 592 A HOH 146 5 HOH HOH 593 A HOH 147 5 HOH HOH 594 A HOH 148 5 HOH HOH 595 A HOH 149 5 HOH HOH 596 A HOH 150 5 HOH HOH 597 A HOH 153 5 HOH HOH 598 A HOH 156 5 HOH HOH 599 A HOH 157 5 HOH HOH 600 A HOH 161 5 HOH HOH 601 A HOH 163 5 HOH HOH 602 A HOH 168 5 HOH HOH 603 A HOH 4 5 HOH HOH 503 B HOH 10 5 HOH HOH 504 B HOH 13 5 HOH HOH 505 B HOH 18 5 HOH HOH 506 B HOH 19 5 HOH HOH 507 B HOH 22 5 HOH HOH 508 B HOH 25 5 HOH HOH 509 B HOH 27 5 HOH HOH 510 B HOH 29 5 HOH HOH 511 B HOH 31 5 HOH HOH 512 B HOH 32 5 HOH HOH 513 B HOH 33 5 HOH HOH 514 B HOH 36 5 HOH HOH 515 B HOH 40 5 HOH HOH 516 B HOH 47 5 HOH HOH 517 B HOH 48 5 HOH HOH 518 B HOH 50 5 HOH HOH 519 B HOH 52 5 HOH HOH 520 B HOH 54 5 HOH HOH 521 B HOH 58 5 HOH HOH 522 B HOH 59 5 HOH HOH 523 B HOH 63 5 HOH HOH 524 B HOH 64 5 HOH HOH 525 B HOH 67 5 HOH HOH 526 B HOH 71 5 HOH HOH 527 B HOH 76 5 HOH HOH 528 B HOH 79 5 HOH HOH 529 B HOH 81 5 HOH HOH 530 B HOH 84 5 HOH HOH 531 B HOH 87 5 HOH HOH 532 B HOH 88 5 HOH HOH 533 B HOH 91 5 HOH HOH 534 B HOH 93 5 HOH HOH 535 B HOH 95 5 HOH HOH 536 B HOH 96 5 HOH HOH 537 B HOH 97 5 HOH HOH 538 B HOH 98 5 HOH HOH 539 B HOH 107 5 HOH HOH 540 B HOH 108 5 HOH HOH 541 B HOH 113 5 HOH HOH 542 B HOH 119 5 HOH HOH 543 B HOH 120 5 HOH HOH 544 B HOH 125 5 HOH HOH 545 B HOH 126 5 HOH HOH 546 B HOH 128 5 HOH HOH 547 B HOH 129 5 HOH HOH 548 B HOH 131 5 HOH HOH 549 B HOH 132 5 HOH HOH 550 B HOH 136 5 HOH HOH 551 B HOH 138 5 HOH HOH 552 B HOH 144 5 HOH HOH 553 B HOH 145 5 HOH HOH 554 B HOH 151 5 HOH HOH 555 B HOH 152 5 HOH HOH 556 B HOH 154 5 HOH HOH 557 B HOH 155 5 HOH HOH 558 B HOH 158 5 HOH HOH 559 B HOH 159 5 HOH HOH 560 B HOH 160 5 HOH HOH 561 B HOH 164 5 HOH HOH 562 B HOH 165 5 HOH HOH 563 B HOH 166 5 HOH HOH 564 B HOH 167 5 HOH HOH 565 B HOH 169 5 HOH HOH 566 B HOH 170 5 HOH HOH 567 B HOH 171 5 HOH HOH 568 B HOH 41 5 HOH HOH 41 C HOH 114 5 HOH HOH 114 C HOH 162 5 HOH HOH 162 C n 1 -2 A n 2 -1 A ASP 0 n 3 ASP 0 A ILE 1 n 4 ILE 1 A GLU 2 n 5 GLU 2 A ALA 3 n 6 ALA 3 A ASP 4 n 7 ASP 4 A HIS 5 n 8 HIS 5 A VAL 6 n 9 VAL 6 A GLY 7 n 10 GLY 7 A THR 8 n 11 THR 8 A TYR 9 n 12 A TYR 9 A GLY 9 n 13 GLY 9 A ILE 10 n 14 ILE 10 A SER 11 n 15 SER 11 A VAL 12 n 16 VAL 12 A TYR 13 n 17 TYR 13 A GLN 14 n 18 GLN 14 A SER 15 n 19 SER 15 A PRO 16 n 20 PRO 16 A GLY 17 n 21 GLY 17 A ASP 18 n 22 ASP 18 A ILE 19 n 23 ILE 19 A GLY 20 n 24 GLY 20 A GLN 21 n 25 GLN 21 A TYR 22 n 26 TYR 22 A THR 23 n 27 THR 23 A PHE 24 n 28 PHE 24 A GLU 25 n 29 GLU 25 A PHE 26 n 30 PHE 26 A ASP 27 n 31 ASP 27 A GLY 28 n 32 GLY 28 A ASP 29 n 33 ASP 29 A GLU 30 n 34 GLU 30 A LEU 31 n 35 LEU 31 A PHE 32 n 36 PHE 32 A TYR 33 n 37 TYR 33 A VAL 34 n 38 VAL 34 A ASP 35 n 39 ASP 35 A LEU 36 n 40 LEU 36 A ASP 37 n 41 ASP 37 A LYS 38 n 42 LYS 38 A LYS 39 n 43 LYS 39 A GLU 40 n 44 GLU 40 A THR 41 n 45 THR 41 A VAL 42 n 46 VAL 42 A TRP 43 n 47 TRP 43 A MET 44 n 48 MET 44 A LEU 45 n 49 LEU 45 A PRO 46 n 50 PRO 46 A GLU 47 n 51 GLU 47 A PHE 48 n 52 PHE 48 A GLY 49 n 53 GLY 49 A GLN 50 n 54 GLN 50 A LEU 51 n 55 LEU 51 A ALA 52 n 56 ALA 52 A SER 53 n 57 SER 53 A PHE 54 n 58 PHE 54 A ASP 55 n 59 ASP 55 A PRO 56 n 60 PRO 56 A GLN 57 n 61 GLN 57 A GLY 58 n 62 GLY 58 A GLY 59 n 63 GLY 59 A LEU 60 n 64 LEU 60 A GLN 61 n 65 GLN 61 A ASN 62 n 66 ASN 62 A ILE 63 n 67 ILE 63 A ALA 64 n 68 ALA 64 A VAL 65 n 69 VAL 65 A VAL 66 n 70 VAL 66 A LYS 67 n 71 LYS 67 A HIS 68 n 72 HIS 68 A ASN 69 n 73 ASN 69 A LEU 70 n 74 LEU 70 A GLY 71 n 75 GLY 71 A VAL 72 n 76 VAL 72 A LEU 73 n 77 LEU 73 A THR 74 n 78 THR 74 A LYS 75 n 79 LYS 75 A ARG 76 n 80 ARG 76 A SER 77 n 81 SER 77 A ASN 78 n 82 ASN 78 A SER 79 n 83 SER 79 A THR 80 n 84 THR 80 A PRO 81 n 85 PRO 81 A ALA 82 n 86 ALA 82 A THR 83 n 87 THR 83 A ASN 84 n 88 ASN 84 A GLU 85 n 89 GLU 85 A ALA 86 n 90 ALA 86 A PRO 87 n 91 PRO 87 A GLN 88 n 92 GLN 88 A ALA 89 n 93 ALA 89 A THR 90 n 94 THR 90 A VAL 91 n 95 VAL 91 A PHE 92 n 96 PHE 92 A PRO 93 n 97 PRO 93 A LYS 94 n 98 LYS 94 A SER 95 n 99 SER 95 A PRO 96 n 100 PRO 96 A VAL 97 n 101 VAL 97 A LEU 98 n 102 LEU 98 A LEU 99 n 103 LEU 99 A GLY 100 n 104 GLY 100 A GLN 101 n 105 GLN 101 A PRO 102 n 106 PRO 102 A ASN 103 n 107 ASN 103 A THR 104 n 108 THR 104 A LEU 105 n 109 LEU 105 A ILE 106 n 110 ILE 106 A CYS 107 n 111 CYS 107 A PHE 108 n 112 PHE 108 A VAL 109 n 113 VAL 109 A ASP 110 n 114 ASP 110 A ASN 111 n 115 ASN 111 A ILE 112 n 116 ILE 112 A PHE 113 n 117 PHE 113 A PRO 114 n 118 PRO 114 A PRO 115 n 119 PRO 115 A VAL 116 n 120 VAL 116 A ILE 117 n 121 ILE 117 A ASN 118 n 122 ASN 118 A ILE 119 n 123 ILE 119 A THR 120 n 124 THR 120 A TRP 121 n 125 TRP 121 A LEU 122 n 126 LEU 122 A ARG 123 n 127 ARG 123 A ASN 124 n 128 ASN 124 A SER 125 n 129 SER 125 A LYS 126 n 130 LYS 126 A SER 127 n 131 SER 127 A VAL 128 n 132 VAL 128 A ALA 129 n 133 ALA 129 A ASP 130 n 134 ASP 130 A GLY 131 n 135 GLY 131 A VAL 132 n 136 VAL 132 A TYR 133 n 137 TYR 133 A GLU 134 n 138 GLU 134 A THR 135 n 139 THR 135 A SER 136 n 140 SER 136 A PHE 137 n 141 PHE 137 A PHE 138 n 142 PHE 138 A VAL 139 n 143 VAL 139 A ASN 140 n 144 ASN 140 A ARG 141 n 145 ARG 141 A ASP 142 n 146 ASP 142 A TYR 143 n 147 TYR 143 A SER 144 n 148 SER 144 A PHE 145 n 149 PHE 145 A HIS 146 n 150 HIS 146 A LYS 147 n 151 LYS 147 A LEU 148 n 152 LEU 148 A SER 149 n 153 SER 149 A TYR 150 n 154 TYR 150 A LEU 151 n 155 LEU 151 A THR 152 n 156 THR 152 A PHE 153 n 157 PHE 153 A ILE 154 n 158 ILE 154 A PRO 155 n 159 PRO 155 A SER 156 n 160 SER 156 A ASP 157 n 161 ASP 157 A ASP 158 n 162 ASP 158 A ASP 159 n 163 ASP 159 A ILE 160 n 164 ILE 160 A TYR 161 n 165 TYR 161 A ASP 162 n 166 ASP 162 A CYS 163 n 167 CYS 163 A LYS 164 n 168 LYS 164 A VAL 165 n 169 VAL 165 A GLU 166 n 170 GLU 166 A HIS 167 n 171 HIS 167 A TRP 168 n 172 TRP 168 A GLY 169 n 173 GLY 169 A LEU 170 n 174 LEU 170 A GLU 171 n 175 GLU 171 A GLU 172 n 176 GLU 172 A PRO 173 n 177 PRO 173 A VAL 174 n 178 VAL 174 A LEU 175 n 179 LEU 175 A LYS 176 n 180 LYS 176 A HIS 177 n 181 HIS 177 A TRP 178 n 182 TRP 178 A SER 179 n 183 SER 179 A SER 180 n 184 SER 180 A ALA 181 n 185 ALA 181 A ASP 182 n 186 ASP 182 A LEU 183 n 187 LEU 183 A n 188 184 A n 189 185 A n 190 186 A n 1 1 B n 2 2 B SER 3 n 3 SER 3 B GLU 4 n 4 GLU 4 B ARG 5 n 5 ARG 5 B HIS 6 n 6 HIS 6 B PHE 7 n 7 PHE 7 B VAL 8 n 8 VAL 8 B TYR 9 n 9 TYR 9 B GLN 10 n 10 GLN 10 B PHE 11 n 11 PHE 11 B MET 12 n 12 MET 12 B GLY 13 n 13 GLY 13 B GLU 14 n 14 GLU 14 B CYS 15 n 15 CYS 15 B TYR 16 n 16 TYR 16 B PHE 17 n 17 PHE 17 B THR 18 n 18 THR 18 B ASN 19 n 19 ASN 19 B GLY 20 n 20 GLY 20 B THR 21 n 21 THR 21 B GLN 22 n 22 GLN 22 B ARG 23 n 23 ARG 23 B ILE 24 n 24 ILE 24 B ARG 25 n 25 ARG 25 B TYR 26 n 26 TYR 26 B VAL 27 n 27 VAL 27 B THR 28 n 28 THR 28 B ARG 29 n 29 ARG 29 B TYR 30 n 30 TYR 30 B ILE 31 n 31 ILE 31 B TYR 32 n 32 TYR 32 B ASN 33 n 33 ASN 33 B ARG 34 n 34 ARG 34 B GLU 35 n 35 GLU 35 B GLU 36 n 36 GLU 36 B TYR 37 n 37 TYR 37 B VAL 38 n 38 VAL 38 B ARG 39 n 39 ARG 39 B TYR 40 n 40 TYR 40 B ASP 41 n 41 ASP 41 B SER 42 n 42 SER 42 B ASP 43 n 43 ASP 43 B VAL 44 n 44 VAL 44 B GLY 45 n 45 GLY 45 B GLU 46 n 46 GLU 46 B HIS 47 n 47 HIS 47 B ARG 48 n 48 ARG 48 B ALA 49 n 49 ALA 49 B VAL 50 n 50 VAL 50 B THR 51 n 51 THR 51 B GLU 52 n 52 GLU 52 B LEU 53 n 53 LEU 53 B GLY 54 n 54 GLY 54 B ARG 55 n 55 ARG 55 B PRO 56 n 56 PRO 56 B ASP 57 n 57 ASP 57 B ALA 58 n 58 ALA 58 B GLU 59 n 59 GLU 59 B TYR 60 n 60 TYR 60 B TRP 61 n 61 TRP 61 B ASN 62 n 62 ASN 62 B SER 63 n 63 SER 63 B GLN 64 n 64 GLN 64 B PRO 65 n 65 PRO 65 B GLU 66 n 66 GLU 66 B ILE 67 n 67 ILE 67 B LEU 68 n 68 LEU 68 B GLU 69 n 69 GLU 69 B ARG 70 n 70 ARG 70 B THR 71 n 71 THR 71 B ARG 72 n 72 ARG 72 B ALA 73 n 73 ALA 73 B GLU 74 n 74 GLU 74 B LEU 75 n 75 LEU 75 B ASP 76 n 76 ASP 76 B THR 77 n 77 THR 77 B VAL 78 n 78 VAL 78 B CYS 79 n 79 CYS 79 B ARG 80 n 80 ARG 80 B HIS 81 n 81 HIS 81 B ASN 82 n 82 ASN 82 B TYR 83 n 83 TYR 83 B GLU 84 n 84 GLU 84 B GLY 84 n 85 A GLY 84 B PRO 85 n 86 PRO 85 B GLU 86 n 87 GLU 86 B THR 87 n 88 THR 87 B HIS 88 n 89 HIS 88 B THR 89 n 90 THR 89 B SER 90 n 91 SER 90 B LEU 91 n 92 LEU 91 B ARG 92 n 93 ARG 92 B ARG 93 n 94 ARG 93 B LEU 94 n 95 LEU 94 B GLU 95 n 96 GLU 95 B GLN 96 n 97 GLN 96 B PRO 97 n 98 PRO 97 B ASN 98 n 99 ASN 98 B VAL 99 n 100 VAL 99 B VAL 100 n 101 VAL 100 B ILE 101 n 102 ILE 101 B SER 102 n 103 SER 102 B LEU 103 n 104 LEU 103 B SER 104 n 105 SER 104 B n 106 105 B n 107 106 B n 108 107 B n 109 108 B n 110 109 B n 111 110 B n 112 111 B HIS 112 n 113 HIS 112 B ASN 113 n 114 ASN 113 B THR 114 n 115 THR 114 B LEU 115 n 116 LEU 115 B VAL 116 n 117 VAL 116 B CYS 117 n 118 CYS 117 B SER 118 n 119 SER 118 B VAL 119 n 120 VAL 119 B THR 120 n 121 THR 120 B ASP 121 n 122 ASP 121 B PHE 122 n 123 PHE 122 B TYR 123 n 124 TYR 123 B PRO 124 n 125 PRO 124 B ALA 125 n 126 ALA 125 B LYS 126 n 127 LYS 126 B ILE 127 n 128 ILE 127 B LYS 128 n 129 LYS 128 B VAL 129 n 130 VAL 129 B ARG 130 n 131 ARG 130 B TRP 131 n 132 TRP 131 B PHE 132 n 133 PHE 132 B ARG 133 n 134 ARG 133 B ASN 134 n 135 ASN 134 B GLY 135 n 136 GLY 135 B GLN 136 n 137 GLN 136 B GLU 137 n 138 GLU 137 B GLU 138 n 139 GLU 138 B THR 139 n 140 THR 139 B VAL 140 n 141 VAL 140 B GLY 141 n 142 GLY 141 B VAL 142 n 143 VAL 142 B SER 143 n 144 SER 143 B SER 144 n 145 SER 144 B THR 145 n 146 THR 145 B GLN 146 n 147 GLN 146 B LEU 147 n 148 LEU 147 B ILE 148 n 149 ILE 148 B ARG 149 n 150 ARG 149 B ASN 150 n 151 ASN 150 B GLY 151 n 152 GLY 151 B ASP 152 n 153 ASP 152 B TRP 153 n 154 TRP 153 B THR 154 n 155 THR 154 B PHE 155 n 156 PHE 155 B GLN 156 n 157 GLN 156 B VAL 157 n 158 VAL 157 B LEU 158 n 159 LEU 158 B VAL 159 n 160 VAL 159 B MET 160 n 161 MET 160 B LEU 161 n 162 LEU 161 B GLU 162 n 163 GLU 162 B MET 163 n 164 MET 163 B THR 164 n 165 THR 164 B PRO 165 n 166 PRO 165 B ARG 166 n 167 ARG 166 B ARG 167 n 168 ARG 167 B GLY 168 n 169 GLY 168 B GLU 169 n 170 GLU 169 B VAL 170 n 171 VAL 170 B TYR 171 n 172 TYR 171 B THR 172 n 173 THR 172 B CYS 173 n 174 CYS 173 B HIS 174 n 175 HIS 174 B VAL 175 n 176 VAL 175 B GLU 176 n 177 GLU 176 B HIS 177 n 178 HIS 177 B PRO 178 n 179 PRO 178 B SER 179 n 180 SER 179 B LEU 180 n 181 LEU 180 B LYS 181 n 182 LYS 181 B SER 182 n 183 SER 182 B PRO 183 n 184 PRO 183 B ILE 184 n 185 ILE 184 B THR 185 n 186 THR 185 B VAL 186 n 187 VAL 186 B GLU 187 n 188 GLU 187 B TRP 188 n 189 TRP 188 B SER 189 n 190 SER 189 B SER 190 n 191 SER 190 B ALA 191 n 192 ALA 191 B GLU 192 n 193 GLU 192 B n 194 193 B n 195 194 B n 196 195 B n 197 196 B n 1 75 C n 2 76 C n 3 77 C n 4 78 C n 5 79 C n 6 80 C n 7 81 C n 8 82 C n 9 83 C n 10 84 C n 11 85 C n 12 86 C PRO 87 n 13 PRO 87 C VAL 88 n 14 VAL 88 C SER 89 n 15 SER 89 C LYS 90 n 16 LYS 90 C MET 91 n 17 MET 91 C ARG 92 n 18 ARG 92 C MET 93 n 19 MET 93 C ALA 94 n 20 ALA 94 C THR 95 n 21 THR 95 C PRO 96 n 22 PRO 96 C LEU 97 n 23 LEU 97 C LEU 98 n 24 LEU 98 C MET 99 n 25 MET 99 C GLN 100 n 26 GLN 100 C ALA 101 n 27 ALA 101 C n 28 102 C n 29 103 C n 30 104 C n 31 105 C n 32 106 C n 33 107 C n 34 108 C n 35 109 C n 36 110 C author_and_software_defined_assembly PISA 3 trimeric 8170 -39 18570 A ASN 118 GLYCOSYLATION SITE A ASN 122 ASN B ASN 19 GLYCOSYLATION SITE B ASN 19 ASN 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 GLU 40 A O GLU 44 A N ASP 35 A N ASP 39 A O LEU 31 A O LEU 35 A N PHE 24 A N PHE 28 A O GLN 21 A O GLN 25 A N VAL 12 A N VAL 16 A N GLY 7 A N GLY 10 B O CYS 15 B O CYS 15 B N GLN 10 B N GLN 10 B O ILE 31 B O ILE 31 B N TYR 32 B N TYR 32 B O GLU 35 B O GLU 35 B N ARG 39 B N ARG 39 B O ARG 48 B O ARG 48 A N SER 53 A N SER 57 C O SER 89 C O SER 15 A N GLN 88 A N GLN 92 A O ASP 110 A O ASP 114 A N CYS 107 A N CYS 111 A O SER 149 A O SER 153 A O TYR 150 A O TYR 154 A N TYR 133 A N TYR 137 A N GLN 88 A N GLN 92 A O ASP 110 A O ASP 114 A N CYS 107 A N CYS 111 A O SER 149 A O SER 153 A O HIS 146 A O HIS 150 A N PHE 138 A N PHE 142 A N THR 120 A N THR 124 A O LYS 164 A O LYS 168 A N TYR 161 A N TYR 165 A O TRP 178 A O TRP 182 B N ASN 98 B N ASN 99 B O THR 120 B O THR 121 B N CYS 117 B N CYS 118 B O VAL 159 B O VAL 160 B O MET 160 B O MET 161 B N SER 143 B N SER 144 B N ASN 98 B N ASN 99 B O THR 120 B O THR 121 B N CYS 117 B N CYS 118 B O VAL 159 B O VAL 160 B O GLN 156 B O GLN 157 B N ILE 148 B N ILE 149 B O GLN 136 B O GLN 137 B N ARG 133 B N ARG 134 B N ARG 130 B N ARG 131 B O HIS 174 B O HIS 175 B N VAL 175 B N VAL 176 B O ILE 184 B O ILE 185 1 B CG LYS 126 B CG LYS 127 1 Y 1 B CD LYS 126 B CD LYS 127 1 Y 1 B CE LYS 126 B CE LYS 127 1 Y 1 B NZ LYS 126 B NZ LYS 127 1 Y 1 A GLU -2 A GLU 1 1 Y 1 A ASP -1 A ASP 2 1 Y 1 A VAL 184 A VAL 188 1 Y 1 A PRO 185 A PRO 189 1 Y 1 A ARG 186 A ARG 190 1 Y 1 B GLY 1 B GLY 1 1 Y 1 B ASP 2 B ASP 2 1 Y 1 B ARG 105 B ARG 106 1 Y 1 B THR 106 B THR 107 1 Y 1 B GLU 107 B GLU 108 1 Y 1 B ALA 108 B ALA 109 1 Y 1 B LEU 109 B LEU 110 1 Y 1 B ASN 110 B ASN 111 1 Y 1 B HIS 111 B HIS 112 1 Y 1 B LEU 193 B LEU 194 1 Y 1 B VAL 194 B VAL 195 1 Y 1 B PRO 195 B PRO 196 1 Y 1 B ARG 196 B ARG 197 1 Y 1 C GLY 75 C GLY 1 1 Y 1 C SER 76 C SER 2 1 Y 1 C HIS 77 C HIS 3 1 Y 1 C SER 78 C SER 4 1 Y 1 C ARG 79 C ARG 5 1 Y 1 C GLY 80 C GLY 6 1 Y 1 C LEU 81 C LEU 7 1 Y 1 C PRO 82 C PRO 8 1 Y 1 C LYS 83 C LYS 9 1 Y 1 C PRO 84 C PRO 10 1 Y 1 C PRO 85 C PRO 11 1 Y 1 C LYS 86 C LYS 12 1 Y 1 C LEU 102 C LEU 28 1 Y 1 C PRO 103 C PRO 29 1 Y 1 C MET 104 C MET 30 1 Y 1 C GLY 105 C GLY 31 1 Y 1 C SER 106 C SER 32 1 Y 1 C GLY 107 C GLY 33 1 Y 1 C SER 108 C SER 34 1 Y 1 C GLY 109 C GLY 35 1 Y 1 C SER 110 C SER 36 1 Y 1 A A OH OD1 TYR ASP 13 18 1.89 1 A PRO 56 -47.87 -16.07 1 A GLU 171 -76.60 22.00 1 A GLU 172 171.82 146.09 1 B SER 63 -96.84 31.19 1 B PRO 65 -14.63 -55.56 1 B VAL 78 -109.83 -67.90 1 B THR 89 -123.71 -85.59 1 B PRO 124 -67.75 -178.88 1 B PRO 165 -46.33 83.32 1 B PRO 183 -38.50 136.94 protein_rep.param protein.top carbohydrate.param carbohydrate.top water_rep.param 129.30 62.36 28.74 -12.48 0.00 1.35 10.06 0.00 2.42 0.246 0.007 0.22 0.22 0.22 2.15 33.06 1090 25144 22763 4.8 90.5 1.00 0.00 RANDOM 1 THROUGHOUT MOLECULAR REPLACEMENT Engh & Huber CNS bulk solvent model used 60.968 0.330054 0.40 0.33 5.00 0.55 0.49 2.15 2.15 33.06 171 3311 28 0 3112 0.008 1.4 26.4 0.79 1.4 26.4 0.397 0.037 0.397 2.25 117 2284 3113 2401 8 3.8 77.1 0.354 0.033 0.356 2.37 117 2395 3137 2512 8 3.7 80.1 0.32 0.028 0.323 2.51 128 2585 3125 2713 8 4.1 86.8 0.306 0.025 0.309 2.71 149 2705 3160 2854 8 4.7 90.3 0.264 0.022 0.264 2.98 142 2834 3127 2976 8 4.5 95.2 0.241 0.020 0.238 3.41 140 2931 3153 3071 8 4.4 97.4 0.192 0.017 0.188 4.30 134 2954 3145 3088 8 4.3 98.2 0.173 0.014 0.173 33.06 163 2985 3209 3148 8 5.1 98.1 32.6 2.150 33.06 1MUJ 31 -31 43 -31 41 0 24657 1792626.54 0.630000 0.0 -3 0.038 1 24.1 1.87 98.0 0.15723 2.15 2.23 1.65 2403 0.544 1 1.83 97.0 refinement Axel T. Brunger axel.brunger@yale.edu 1998 Fortran CNS package 1.0 data reduction DENZO data scaling SCALEPACK phasing MOLREP H-2 CLASS II HISTOCOMPATIBILITY ANTIGEN, A-B ALPHA CHAIN/H-2 CLASS II HISTOCOMPATIBILITY ANTIGEN, A BETA CHAIN/CLIP peptide Crystal structure of murine class II MHC I-Ab in complex with a human CLIP peptide 1 N N 2 N N 3 N N 4 N N 4 N N 5 N N 5 N N 5 N N A LEU 45 A LEU 49 HELX_P A GLN 50 A GLN 54 1 1 6 A ASP 55 A ASP 59 HELX_P A SER 77 A SER 81 1 2 23 A SER 179 A SER 183 HELX_P A LEU 183 A LEU 187 5 3 5 B THR 51 B THR 51 HELX_P B LEU 53 B LEU 53 5 4 3 B GLY 54 B GLY 54 HELX_P B SER 63 B SER 63 1 5 10 B GLN 64 B GLN 64 HELX_P B VAL 78 B VAL 78 1 6 15 B VAL 78 B VAL 78 HELX_P B GLY 84 B GLY 85 1 7 8 A B GLY 84 B GLY 85 HELX_P B THR 89 B THR 90 1 8 6 A B SER 90 B SER 91 HELX_P B ARG 93 B ARG 94 5 9 4 disulf 2.040 A CYS 107 A SG CYS 111 1_555 A CYS 163 A SG CYS 167 1_555 disulf 2.044 B CYS 15 B SG CYS 15 1_555 B CYS 79 B SG CYS 79 1_555 disulf 2.027 B CYS 117 B SG CYS 118 1_555 B CYS 173 B SG CYS 174 1_555 covale 1.448 one N-Glycosylation A ASN 118 A ND2 ASN 122 1_555 A NAG 501 D C1 NAG 1_555 covale 1.452 one N-Glycosylation B ASN 19 B ND2 ASN 19 1_555 B NAG 502 E C1 NAG 1_555 IMMUNE SYSTEM I-AB, CLIP, COMPLEX, ANTIGEN, IMMUNE SYSTEM A SER 15 A SER 19 1 A PRO 16 A PRO 20 -0.12 A PHE 113 A PHE 117 1 A PRO 114 A PRO 118 -0.06 B TYR 123 B TYR 124 1 B PRO 124 B PRO 125 0.01 HA2B_MOUSE UNP 1 24 P14434 EDDIEADHVGTYGISVYQSPGDIGQYTFEFDGDELFYVDLDKKETVWMLPEFGQLASFDPQGGLQNIAVVKHNLGVLTKR SNSTPATNEAPQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFHKLSYLTFIPS DDDIYDCKVEHWGLEEPVLKHW HB2A_MOUSE UNP 2 28 P14483 GDSERHFVYQFMGECYFTNGTQRIRYVTRYIYNREEYVRYDSDVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCR HNYEGPETHTSLRRLEQPNVVISLSRTEALNHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLV MLEMTPRRGEVYTCHVEHPSLKSPITVEW 1MUJ PDB 3 1MUJ 24 205 1MUJ -2 178 P14434 A 1 1 182 28 216 1MUJ 1 188 P14483 B 2 1 189 75 110 1MUJ 75 110 1MUJ C 3 1 36 1 cloning artifact SER 179 1MUJ A P14434 UNP 183 1 cloning artifact SER 180 1MUJ A P14434 UNP 184 1 cloning artifact ALA 181 1MUJ A P14434 UNP 185 1 cloning artifact ASP 182 1MUJ A P14434 UNP 186 1 cloning artifact LEU 183 1MUJ A P14434 UNP 187 1 cloning artifact VAL 184 1MUJ A P14434 UNP 188 1 cloning artifact PRO 185 1MUJ A P14434 UNP 189 1 cloning artifact ARG 186 1MUJ A P14434 UNP 190 2 cloning artifact SER 189 1MUJ B P14483 UNP 190 2 cloning artifact SER 190 1MUJ B P14483 UNP 191 2 cloning artifact ALA 191 1MUJ B P14483 UNP 192 2 cloning artifact GLU 192 1MUJ B P14483 UNP 193 2 cloning artifact LEU 193 1MUJ B P14483 UNP 194 2 cloning artifact VAL 194 1MUJ B P14483 UNP 195 2 cloning artifact PRO 195 1MUJ B P14483 UNP 196 2 cloning artifact ARG 196 1MUJ B P14483 UNP 197 8 2 4 4 3 4 4 4 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 anti-parallel anti-parallel A GLU 40 A GLU 44 A TRP 43 A TRP 47 A ASP 29 A ASP 33 A ASP 35 A ASP 39 A ILE 19 A ILE 23 A PHE 26 A PHE 30 A HIS 5 A HIS 8 A SER 15 A SER 19 B PHE 7 B PHE 7 B THR 18 B THR 18 B ARG 23 B ARG 23 B TYR 32 B TYR 32 B GLU 35 B GLU 35 B ASP 41 B ASP 41 B HIS 47 B HIS 47 B ARG 48 B ARG 48 A ALA 52 A ALA 56 A SER 53 A SER 57 C SER 89 C SER 15 C LYS 90 C LYS 16 A GLN 88 A GLN 92 A PRO 93 A PRO 97 A ASN 103 A ASN 107 A ILE 112 A ILE 116 A PHE 145 A PHE 149 A PHE 153 A PHE 157 A VAL 132 A VAL 136 A GLU 134 A GLU 138 A GLN 88 A GLN 92 A PRO 93 A PRO 97 A ASN 103 A ASN 107 A ILE 112 A ILE 116 A PHE 145 A PHE 149 A PHE 153 A PHE 157 A PHE 138 A PHE 142 A VAL 139 A VAL 143 A ASN 118 A ASN 122 A ARG 123 A ARG 127 A TYR 161 A TYR 165 A GLU 166 A GLU 170 A VAL 174 A VAL 178 A TRP 178 A TRP 182 B ASN 98 B ASN 99 B SER 104 B SER 105 B THR 114 B THR 115 B PHE 122 B PHE 123 B PHE 155 B PHE 156 B GLU 162 B GLU 163 B VAL 142 B VAL 143 B SER 144 B SER 145 B ASN 98 B ASN 99 B SER 104 B SER 105 B THR 114 B THR 115 B PHE 122 B PHE 123 B PHE 155 B PHE 156 B GLU 162 B GLU 163 B ILE 148 B ILE 149 B ARG 149 B ARG 150 B GLN 136 B GLN 137 B GLU 138 B GLU 139 B LYS 128 B LYS 129 B ARG 133 B ARG 134 B TYR 171 B TYR 172 B GLU 176 B GLU 177 B ILE 184 B ILE 185 B TRP 188 B TRP 189 5 C 1 2 1