HEADER IMMUNE SYSTEM 22-AUG-13 4MDI TITLE IMMUNE RECEPTOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DR ALPHA CHAIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: EXTRACELLULAR DOMAIN, UNP RESIDUES 26-206; COMPND 5 SYNONYM: MHC CLASS II ANTIGEN DRA; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DRB1-4 BETA CHAIN; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: EXTRACELLULAR DOMAIN, UNP RESIDUES 30-219; COMPND 11 SYNONYM: MHC CLASS II ANTIGEN DRB1*4, DR-4, DR4; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: CITRULLINATED VIMENTIN; COMPND 15 CHAIN: C; COMPND 16 FRAGMENT: RESIDUES 66-78; COMPND 17 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: HLA-DRA, HLA-DRA1; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: HLA-DRB1; SOURCE 13 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 18 ORGANISM_TAXID: 9606; SOURCE 19 OTHER_DETAILS: THIS SEQUENCE IS FROM HUMAN VIMENTIN AND CONTAINS SOURCE 20 CITRULLINE AT POSITION 71 KEYWDS HLA-DR, ANTIGEN PRESENTATION, T-CELL RECEPTOR, CITRULLINATION, KEYWDS 2 MEMBRANE, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR S.W.SCALLY,J.ROSSJOHN REVDAT 6 20-NOV-24 4MDI 1 REMARK REVDAT 5 27-DEC-23 4MDI 1 LINK REVDAT 4 15-NOV-23 4MDI 1 HETSYN LINK ATOM REVDAT 3 29-JUL-20 4MDI 1 COMPND REMARK SEQADV HETNAM REVDAT 3 2 1 LINK SITE ATOM REVDAT 2 11-DEC-13 4MDI 1 JRNL REVDAT 1 04-DEC-13 4MDI 0 JRNL AUTH S.W.SCALLY,J.PETERSEN,S.C.LAW,N.L.DUDEK,H.J.NEL,K.L.LOH, JRNL AUTH 2 L.C.WIJEYEWICKREMA,S.B.ECKLE,J.VAN HEEMST,R.N.PIKE, JRNL AUTH 3 J.MCCLUSKEY,R.E.TOES,N.L.LA GRUTA,A.W.PURCELL,H.H.REID, JRNL AUTH 4 R.THOMAS,J.ROSSJOHN JRNL TITL A MOLECULAR BASIS FOR THE ASSOCIATION OF THE HLA-DRB1 LOCUS, JRNL TITL 2 CITRULLINATION, AND RHEUMATOID ARTHRITIS. JRNL REF J.EXP.MED. V. 210 2569 2013 JRNL REFN ISSN 0022-1007 JRNL PMID 24190431 JRNL DOI 10.1084/JEM.20131241 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.1_1168) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.37 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 32597 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.163 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.170 REMARK 3 FREE R VALUE TEST SET COUNT : 1684 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 39.3777 - 4.5767 1.00 2728 148 0.1627 0.1984 REMARK 3 2 4.5767 - 3.6335 1.00 2630 145 0.1345 0.1657 REMARK 3 3 3.6335 - 3.1744 1.00 2593 132 0.1495 0.1935 REMARK 3 4 3.1744 - 2.8843 1.00 2551 161 0.1668 0.1991 REMARK 3 5 2.8843 - 2.6776 1.00 2569 140 0.1681 0.2348 REMARK 3 6 2.6776 - 2.5198 1.00 2558 136 0.1682 0.2090 REMARK 3 7 2.5198 - 2.3936 1.00 2565 123 0.1683 0.2005 REMARK 3 8 2.3936 - 2.2894 1.00 2575 125 0.1665 0.2184 REMARK 3 9 2.2894 - 2.2013 1.00 2551 143 0.1692 0.2209 REMARK 3 10 2.2013 - 2.1253 1.00 2539 129 0.1696 0.2410 REMARK 3 11 2.1253 - 2.0589 1.00 2541 147 0.1792 0.2138 REMARK 3 12 2.0589 - 2.0000 1.00 2513 155 0.1971 0.2450 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.100 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.007 3380 REMARK 3 ANGLE : 1.141 4608 REMARK 3 CHIRALITY : 0.081 497 REMARK 3 PLANARITY : 0.005 604 REMARK 3 DIHEDRAL : 17.217 1264 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 12 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 3 THROUGH 26 ) REMARK 3 ORIGIN FOR THE GROUP (A): 41.5777 26.7896 -3.8059 REMARK 3 T TENSOR REMARK 3 T11: 0.1406 T22: 0.1710 REMARK 3 T33: 0.0645 T12: 0.0194 REMARK 3 T13: -0.0193 T23: 0.0185 REMARK 3 L TENSOR REMARK 3 L11: 3.3746 L22: 5.0438 REMARK 3 L33: 0.5149 L12: -0.0488 REMARK 3 L13: -1.2281 L23: -0.5853 REMARK 3 S TENSOR REMARK 3 S11: -0.0559 S12: -0.2423 S13: -0.1412 REMARK 3 S21: 0.2283 S22: 0.0501 S23: -0.0759 REMARK 3 S31: -0.0339 S32: 0.0855 S33: 0.0361 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 27 THROUGH 45 ) REMARK 3 ORIGIN FOR THE GROUP (A): 40.5605 21.6874 5.3987 REMARK 3 T TENSOR REMARK 3 T11: 0.2096 T22: 0.2354 REMARK 3 T33: 0.1354 T12: 0.0266 REMARK 3 T13: 0.0095 T23: 0.0470 REMARK 3 L TENSOR REMARK 3 L11: 4.7103 L22: 5.1410 REMARK 3 L33: 6.4330 L12: 1.2582 REMARK 3 L13: 0.7347 L23: 1.3668 REMARK 3 S TENSOR REMARK 3 S11: 0.0877 S12: -0.7142 S13: -0.1404 REMARK 3 S21: 0.5792 S22: -0.0602 S23: -0.1777 REMARK 3 S31: -0.0881 S32: 0.1311 S33: 0.0316 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 46 THROUGH 55 ) REMARK 3 ORIGIN FOR THE GROUP (A): 40.9521 12.2789 7.0733 REMARK 3 T TENSOR REMARK 3 T11: 0.3434 T22: 0.3608 REMARK 3 T33: 0.3380 T12: 0.0469 REMARK 3 T13: 0.0345 T23: 0.1650 REMARK 3 L TENSOR REMARK 3 L11: 3.7501 L22: 7.7783 REMARK 3 L33: 6.4391 L12: -0.1126 REMARK 3 L13: -1.0258 L23: -2.8772 REMARK 3 S TENSOR REMARK 3 S11: -0.0998 S12: -1.1289 S13: -0.9335 REMARK 3 S21: 0.7181 S22: 0.1234 S23: 0.2195 REMARK 3 S31: 0.4131 S32: -0.3934 S33: 0.0270 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 56 THROUGH 112 ) REMARK 3 ORIGIN FOR THE GROUP (A): 33.7490 32.0489 -1.9237 REMARK 3 T TENSOR REMARK 3 T11: 0.1893 T22: 0.1217 REMARK 3 T33: 0.0652 T12: 0.0239 REMARK 3 T13: -0.0144 T23: -0.0492 REMARK 3 L TENSOR REMARK 3 L11: 2.3489 L22: 1.5285 REMARK 3 L33: 1.3470 L12: 0.4660 REMARK 3 L13: -0.8078 L23: -0.3942 REMARK 3 S TENSOR REMARK 3 S11: -0.0536 S12: -0.0380 S13: 0.0344 REMARK 3 S21: 0.1637 S22: 0.0723 S23: 0.0489 REMARK 3 S31: -0.0147 S32: -0.0494 S33: -0.0021 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 113 THROUGH 133 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.6494 34.0700 9.2845 REMARK 3 T TENSOR REMARK 3 T11: 0.2508 T22: 0.2286 REMARK 3 T33: 0.1246 T12: 0.0406 REMARK 3 T13: 0.0366 T23: -0.0070 REMARK 3 L TENSOR REMARK 3 L11: 3.2636 L22: 1.1328 REMARK 3 L33: 0.6255 L12: -1.4814 REMARK 3 L13: -1.0916 L23: 0.8379 REMARK 3 S TENSOR REMARK 3 S11: -0.1227 S12: -0.6497 S13: -0.1096 REMARK 3 S21: 0.4511 S22: 0.0433 S23: 0.1306 REMARK 3 S31: -0.0646 S32: 0.2983 S33: 0.0602 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 134 THROUGH 153 ) REMARK 3 ORIGIN FOR THE GROUP (A): 29.8932 27.5921 -1.0285 REMARK 3 T TENSOR REMARK 3 T11: 0.1488 T22: 0.1165 REMARK 3 T33: 0.1015 T12: 0.0093 REMARK 3 T13: -0.0160 T23: -0.0188 REMARK 3 L TENSOR REMARK 3 L11: 5.2594 L22: 1.9784 REMARK 3 L33: 6.3705 L12: 1.4442 REMARK 3 L13: -4.8670 L23: -2.8478 REMARK 3 S TENSOR REMARK 3 S11: -0.0263 S12: -0.2329 S13: -0.0943 REMARK 3 S21: 0.1892 S22: -0.0341 S23: 0.0138 REMARK 3 S31: 0.0868 S32: 0.1043 S33: 0.0940 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 154 THROUGH 166 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.1695 31.1769 9.9421 REMARK 3 T TENSOR REMARK 3 T11: 0.2849 T22: 0.2480 REMARK 3 T33: 0.2583 T12: 0.0661 REMARK 3 T13: 0.1320 T23: -0.0290 REMARK 3 L TENSOR REMARK 3 L11: 1.3791 L22: 2.0256 REMARK 3 L33: 3.5417 L12: -0.5736 REMARK 3 L13: -0.6363 L23: -0.4862 REMARK 3 S TENSOR REMARK 3 S11: 0.1681 S12: -0.2730 S13: 0.3293 REMARK 3 S21: 0.6597 S22: 0.1393 S23: 0.7766 REMARK 3 S31: -0.2361 S32: -0.2009 S33: -0.2429 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 167 THROUGH 181 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.4611 36.5041 1.5835 REMARK 3 T TENSOR REMARK 3 T11: 0.2303 T22: 0.1840 REMARK 3 T33: 0.2171 T12: 0.0588 REMARK 3 T13: -0.0232 T23: -0.0073 REMARK 3 L TENSOR REMARK 3 L11: 3.5259 L22: 7.1221 REMARK 3 L33: 5.6726 L12: 1.8404 REMARK 3 L13: -4.1625 L23: -4.3535 REMARK 3 S TENSOR REMARK 3 S11: -0.0653 S12: 0.4559 S13: 1.1254 REMARK 3 S21: 0.0236 S22: 0.7339 S23: 1.3437 REMARK 3 S31: -0.0101 S32: -0.5495 S33: -0.6447 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2 THROUGH 64 ) REMARK 3 ORIGIN FOR THE GROUP (A): 47.3529 28.5769 -15.0912 REMARK 3 T TENSOR REMARK 3 T11: 0.1321 T22: 0.1400 REMARK 3 T33: 0.1000 T12: 0.0013 REMARK 3 T13: -0.0438 T23: -0.0169 REMARK 3 L TENSOR REMARK 3 L11: 2.0054 L22: 3.6516 REMARK 3 L33: 1.5896 L12: -0.5205 REMARK 3 L13: -0.8640 L23: 0.6330 REMARK 3 S TENSOR REMARK 3 S11: -0.0202 S12: 0.0645 S13: -0.0350 REMARK 3 S21: -0.1658 S22: -0.0518 S23: 0.0056 REMARK 3 S31: -0.0820 S32: 0.0218 S33: 0.0678 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 65 THROUGH 122 ) REMARK 3 ORIGIN FOR THE GROUP (A): 28.9338 13.8255 -5.8415 REMARK 3 T TENSOR REMARK 3 T11: 0.1822 T22: 0.1220 REMARK 3 T33: 0.1839 T12: 0.0241 REMARK 3 T13: 0.0435 T23: -0.0215 REMARK 3 L TENSOR REMARK 3 L11: 4.9802 L22: 0.7073 REMARK 3 L33: 0.7124 L12: 1.1242 REMARK 3 L13: -0.3839 L23: -0.5074 REMARK 3 S TENSOR REMARK 3 S11: -0.1201 S12: -0.2944 S13: -0.3891 REMARK 3 S21: 0.0718 S22: 0.0547 S23: -0.0017 REMARK 3 S31: -0.0093 S32: -0.0875 S33: 0.0852 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 123 THROUGH 190 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.6273 9.5437 -8.8909 REMARK 3 T TENSOR REMARK 3 T11: 0.1869 T22: 0.1759 REMARK 3 T33: 0.3043 T12: -0.0082 REMARK 3 T13: 0.0623 T23: 0.0498 REMARK 3 L TENSOR REMARK 3 L11: 2.8300 L22: 0.8044 REMARK 3 L33: 1.3105 L12: -0.7188 REMARK 3 L13: 1.1108 L23: -0.1812 REMARK 3 S TENSOR REMARK 3 S11: 0.0012 S12: -0.0274 S13: -0.6407 REMARK 3 S21: -0.0731 S22: 0.0941 S23: 0.1560 REMARK 3 S31: 0.0953 S32: -0.1426 S33: -0.0909 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 13 ) REMARK 3 ORIGIN FOR THE GROUP (A): 54.0037 24.9355 -5.6114 REMARK 3 T TENSOR REMARK 3 T11: 0.1513 T22: 0.2471 REMARK 3 T33: 0.1583 T12: -0.0272 REMARK 3 T13: -0.0630 T23: -0.0134 REMARK 3 L TENSOR REMARK 3 L11: 4.3533 L22: 5.9618 REMARK 3 L33: 4.5975 L12: 0.4517 REMARK 3 L13: -1.7859 L23: -3.2269 REMARK 3 S TENSOR REMARK 3 S11: 0.0516 S12: -0.3605 S13: -0.2286 REMARK 3 S21: 0.5916 S22: -0.2043 S23: -0.9036 REMARK 3 S31: -0.3281 S32: 0.4135 S33: 0.1918 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4MDI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1000081773. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-NOV-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95370 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32616 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 62.930 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.12200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.10 REMARK 200 R MERGE FOR SHELL (I) : 0.47200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 3350, 0.2M POTASSIUM NITRATE, REMARK 280 0.1M BIS-TRIS-PROPANE PH 7.3, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 38.68850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 38.68850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 33.51050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 91.46500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 33.51050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 91.46500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 38.68850 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 33.51050 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 91.46500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 38.68850 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 33.51050 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 91.46500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B 435 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 444 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ILE A 1 REMARK 465 LYS A 2 REMARK 465 THR A 182 REMARK 465 SER A 183 REMARK 465 GLY A 184 REMARK 465 ASP A 185 REMARK 465 ASP A 186 REMARK 465 ASP A 187 REMARK 465 ASP A 188 REMARK 465 LYS A 189 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 GLY B 1 REMARK 465 THR B 191 REMARK 465 GLY B 192 REMARK 465 GLY B 193 REMARK 465 ASP B 194 REMARK 465 ASP B 195 REMARK 465 ASP B 196 REMARK 465 ASP B 197 REMARK 465 LYS B 198 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LEU B 109 CG CD1 CD2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 HIS B 33 -114.17 59.60 REMARK 500 THR B 90 -71.30 -121.94 REMARK 500 GLN B 110 -175.61 -66.17 REMARK 500 ASN B 113 24.49 -142.97 REMARK 500 PRO B 124 -166.20 -77.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4MCY RELATED DB: PDB REMARK 900 RELATED ID: 4MCZ RELATED DB: PDB REMARK 900 RELATED ID: 4MD0 RELATED DB: PDB REMARK 900 RELATED ID: 4MD4 RELATED DB: PDB REMARK 900 RELATED ID: 4MD5 RELATED DB: PDB REMARK 900 RELATED ID: 4MDJ RELATED DB: PDB DBREF 4MDI A 1 181 UNP P01903 DRA_HUMAN 26 206 DBREF 4MDI B 1 190 UNP P13760 2B14_HUMAN 30 219 DBREF 4MDI C 1 13 UNP P08670 VIME_HUMAN 66 78 SEQADV 4MDI THR A 182 UNP P01903 EXPRESSION TAG SEQADV 4MDI SER A 183 UNP P01903 EXPRESSION TAG SEQADV 4MDI GLY A 184 UNP P01903 EXPRESSION TAG SEQADV 4MDI ASP A 185 UNP P01903 EXPRESSION TAG SEQADV 4MDI ASP A 186 UNP P01903 EXPRESSION TAG SEQADV 4MDI ASP A 187 UNP P01903 EXPRESSION TAG SEQADV 4MDI ASP A 188 UNP P01903 EXPRESSION TAG SEQADV 4MDI LYS A 189 UNP P01903 EXPRESSION TAG SEQADV 4MDI GLY B -1 UNP P13760 EXPRESSION TAG SEQADV 4MDI SER B 0 UNP P13760 EXPRESSION TAG SEQADV 4MDI ILE B 67 UNP P13760 LEU 96 VARIANT SEQADV 4MDI ASP B 70 UNP P13760 GLN 99 VARIANT SEQADV 4MDI GLU B 71 UNP P13760 LYS 100 VARIANT SEQADV 4MDI VAL B 86 UNP P13760 GLY 115 VARIANT SEQADV 4MDI THR B 191 UNP P13760 EXPRESSION TAG SEQADV 4MDI GLY B 192 UNP P13760 EXPRESSION TAG SEQADV 4MDI GLY B 193 UNP P13760 EXPRESSION TAG SEQADV 4MDI ASP B 194 UNP P13760 EXPRESSION TAG SEQADV 4MDI ASP B 195 UNP P13760 EXPRESSION TAG SEQADV 4MDI ASP B 196 UNP P13760 EXPRESSION TAG SEQADV 4MDI ASP B 197 UNP P13760 EXPRESSION TAG SEQADV 4MDI LYS B 198 UNP P13760 EXPRESSION TAG SEQRES 1 A 189 ILE LYS GLU GLU HIS VAL ILE ILE GLN ALA GLU PHE TYR SEQRES 2 A 189 LEU ASN PRO ASP GLN SER GLY GLU PHE MET PHE ASP PHE SEQRES 3 A 189 ASP GLY ASP GLU ILE PHE HIS VAL ASP MET ALA LYS LYS SEQRES 4 A 189 GLU THR VAL TRP ARG LEU GLU GLU PHE GLY ARG PHE ALA SEQRES 5 A 189 SER PHE GLU ALA GLN GLY ALA LEU ALA ASN ILE ALA VAL SEQRES 6 A 189 ASP LYS ALA ASN LEU GLU ILE MET THR LYS ARG SER ASN SEQRES 7 A 189 TYR THR PRO ILE THR ASN VAL PRO PRO GLU VAL THR VAL SEQRES 8 A 189 LEU THR ASN SER PRO VAL GLU LEU ARG GLU PRO ASN VAL SEQRES 9 A 189 LEU ILE CYS PHE ILE ASP LYS PHE THR PRO PRO VAL VAL SEQRES 10 A 189 ASN VAL THR TRP LEU ARG ASN GLY LYS PRO VAL THR THR SEQRES 11 A 189 GLY VAL SER GLU THR VAL PHE LEU PRO ARG GLU ASP HIS SEQRES 12 A 189 LEU PHE ARG LYS PHE HIS TYR LEU PRO PHE LEU PRO SER SEQRES 13 A 189 THR GLU ASP VAL TYR ASP CYS ARG VAL GLU HIS TRP GLY SEQRES 14 A 189 LEU ASP GLU PRO LEU LEU LYS HIS TRP GLU PHE ASP THR SEQRES 15 A 189 SER GLY ASP ASP ASP ASP LYS SEQRES 1 B 200 GLY SER GLY ASP THR ARG PRO ARG PHE LEU GLU GLN VAL SEQRES 2 B 200 LYS HIS GLU CYS HIS PHE PHE ASN GLY THR GLU ARG VAL SEQRES 3 B 200 ARG PHE LEU ASP ARG TYR PHE TYR HIS GLN GLU GLU TYR SEQRES 4 B 200 VAL ARG PHE ASP SER ASP VAL GLY GLU TYR ARG ALA VAL SEQRES 5 B 200 THR GLU LEU GLY ARG PRO ASP ALA GLU TYR TRP ASN SER SEQRES 6 B 200 GLN LYS ASP ILE LEU GLU ASP GLU ARG ALA ALA VAL ASP SEQRES 7 B 200 THR TYR CYS ARG HIS ASN TYR GLY VAL VAL GLU SER PHE SEQRES 8 B 200 THR VAL GLN ARG ARG VAL TYR PRO GLU VAL THR VAL TYR SEQRES 9 B 200 PRO ALA LYS THR GLN PRO LEU GLN HIS HIS ASN LEU LEU SEQRES 10 B 200 VAL CYS SER VAL ASN GLY PHE TYR PRO GLY SER ILE GLU SEQRES 11 B 200 VAL ARG TRP PHE ARG ASN GLY GLN GLU GLU LYS THR GLY SEQRES 12 B 200 VAL VAL SER THR GLY LEU ILE GLN ASN GLY ASP TRP THR SEQRES 13 B 200 PHE GLN THR LEU VAL MET LEU GLU THR VAL PRO ARG SER SEQRES 14 B 200 GLY GLU VAL TYR THR CYS GLN VAL GLU HIS PRO SER LEU SEQRES 15 B 200 THR SER PRO LEU THR VAL GLU TRP ARG ALA THR GLY GLY SEQRES 16 B 200 ASP ASP ASP ASP LYS SEQRES 1 C 13 SER ALA VAL ARG LEU CIR SER SER VAL PRO GLY VAL ARG MODRES 4MDI ASN A 118 ASN GLYCOSYLATION SITE MODRES 4MDI ASN A 78 ASN GLYCOSYLATION SITE MODRES 4MDI ASN B 19 ASN GLYCOSYLATION SITE MODRES 4MDI CIR C 6 ARG CITRULLINE HET CIR C 6 11 HET NAG D 1 14 HET NAG D 2 14 HET NAG A 500 14 HET NAG B 201 14 HET EDO B 202 4 HETNAM CIR CITRULLINE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM EDO 1,2-ETHANEDIOL HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 CIR C6 H13 N3 O3 FORMUL 4 NAG 4(C8 H15 N O6) FORMUL 7 EDO C2 H6 O2 FORMUL 8 HOH *397(H2 O) HELIX 1 1 GLU A 47 ALA A 52 1 6 HELIX 2 2 ALA A 56 SER A 77 1 22 HELIX 3 3 THR B 51 LEU B 53 5 3 HELIX 4 4 GLY B 54 ASN B 62 1 9 HELIX 5 5 GLN B 64 TYR B 78 1 15 HELIX 6 6 TYR B 78 GLU B 87 1 10 HELIX 7 7 SER B 88 THR B 90 5 3 SHEET 1 A 8 GLU A 40 TRP A 43 0 SHEET 2 A 8 ASP A 29 ASP A 35 -1 N HIS A 33 O VAL A 42 SHEET 3 A 8 SER A 19 PHE A 26 -1 N PHE A 26 O ASP A 29 SHEET 4 A 8 HIS A 5 ASN A 15 -1 N ILE A 8 O ASP A 25 SHEET 5 A 8 PHE B 7 PHE B 18 -1 O PHE B 17 N HIS A 5 SHEET 6 A 8 ARG B 23 TYR B 32 -1 O ARG B 25 N HIS B 16 SHEET 7 A 8 GLU B 35 ASP B 41 -1 O PHE B 40 N ASP B 28 SHEET 8 A 8 TYR B 47 ALA B 49 -1 O ARG B 48 N ARG B 39 SHEET 1 B 4 GLU A 88 THR A 93 0 SHEET 2 B 4 ASN A 103 PHE A 112 -1 O ILE A 106 N LEU A 92 SHEET 3 B 4 PHE A 145 PHE A 153 -1 O LYS A 147 N ILE A 109 SHEET 4 B 4 SER A 133 GLU A 134 -1 N SER A 133 O TYR A 150 SHEET 1 C 4 GLU A 88 THR A 93 0 SHEET 2 C 4 ASN A 103 PHE A 112 -1 O ILE A 106 N LEU A 92 SHEET 3 C 4 PHE A 145 PHE A 153 -1 O LYS A 147 N ILE A 109 SHEET 4 C 4 LEU A 138 PRO A 139 -1 N LEU A 138 O ARG A 146 SHEET 1 D 4 LYS A 126 VAL A 128 0 SHEET 2 D 4 ASN A 118 ARG A 123 -1 N ARG A 123 O LYS A 126 SHEET 3 D 4 TYR A 161 GLU A 166 -1 O ARG A 164 N THR A 120 SHEET 4 D 4 LEU A 174 TRP A 178 -1 O LEU A 174 N VAL A 165 SHEET 1 E 4 GLU B 98 ALA B 104 0 SHEET 2 E 4 LEU B 114 PHE B 122 -1 O VAL B 116 N TYR B 102 SHEET 3 E 4 PHE B 155 GLU B 162 -1 O THR B 157 N VAL B 119 SHEET 4 E 4 VAL B 142 SER B 144 -1 N VAL B 143 O MET B 160 SHEET 1 F 4 GLU B 98 ALA B 104 0 SHEET 2 F 4 LEU B 114 PHE B 122 -1 O VAL B 116 N TYR B 102 SHEET 3 F 4 PHE B 155 GLU B 162 -1 O THR B 157 N VAL B 119 SHEET 4 F 4 ILE B 148 GLN B 149 -1 N ILE B 148 O GLN B 156 SHEET 1 G 4 GLN B 136 GLU B 138 0 SHEET 2 G 4 GLU B 128 ARG B 133 -1 N ARG B 133 O GLN B 136 SHEET 3 G 4 VAL B 170 GLU B 176 -1 O GLN B 174 N ARG B 130 SHEET 4 G 4 LEU B 184 ARG B 189 -1 O LEU B 184 N VAL B 175 SSBOND 1 CYS A 107 CYS A 163 1555 1555 2.02 SSBOND 2 CYS B 15 CYS B 79 1555 1555 2.05 SSBOND 3 CYS B 117 CYS B 173 1555 1555 2.03 LINK ND2 ASN A 78 C1 NAG A 500 1555 1555 1.45 LINK ND2 ASN A 118 C1 NAG D 1 1555 1555 1.44 LINK ND2 ASN B 19 C1 NAG B 201 1555 1555 1.45 LINK C LEU C 5 N CIR C 6 1555 1555 1.32 LINK C CIR C 6 N SER C 7 1555 1555 1.34 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.45 CISPEP 1 ASN A 15 PRO A 16 0 3.99 CISPEP 2 THR A 113 PRO A 114 0 0.44 CISPEP 3 TYR B 123 PRO B 124 0 1.03 CRYST1 67.021 182.930 77.377 90.00 90.00 90.00 C 2 2 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.014921 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005467 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012924 0.00000