HEADER IMMUNE SYSTEM 22-AUG-13 4MD0 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 59-71; 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 64,69 AND 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 4MD0 1 REMARK REVDAT 5 27-DEC-23 4MD0 1 LINK REVDAT 4 15-NOV-23 4MD0 1 HETSYN LINK ATOM REVDAT 3 29-JUL-20 4MD0 1 COMPND REMARK SEQADV HETNAM REVDAT 3 2 1 LINK SITE ATOM REVDAT 2 11-DEC-13 4MD0 1 JRNL REVDAT 1 04-DEC-13 4MD0 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. 2.19 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) : 2.19 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.44 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.3 REMARK 3 NUMBER OF REFLECTIONS : 23207 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 1164 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 39.4448 - 4.3869 0.87 2709 125 0.1566 0.1712 REMARK 3 2 4.3869 - 3.4827 0.91 2693 155 0.1433 0.1665 REMARK 3 3 3.4827 - 3.0426 0.93 2729 159 0.1656 0.2098 REMARK 3 4 3.0426 - 2.7645 0.94 2744 158 0.1821 0.2262 REMARK 3 5 2.7645 - 2.5664 0.96 2795 145 0.1970 0.2480 REMARK 3 6 2.5664 - 2.4151 0.96 2806 155 0.2041 0.2314 REMARK 3 7 2.4151 - 2.2942 0.96 2820 115 0.2103 0.2674 REMARK 3 8 2.2942 - 2.1943 0.95 2747 152 0.2244 0.2624 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) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.250 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 : 0.005 3354 REMARK 3 ANGLE : 1.212 4563 REMARK 3 CHIRALITY : 0.051 490 REMARK 3 PLANARITY : 0.005 594 REMARK 3 DIHEDRAL : 14.689 1237 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): 41.8312 26.5059 -4.0986 REMARK 3 T TENSOR REMARK 3 T11: 0.0965 T22: 0.1295 REMARK 3 T33: 0.0816 T12: 0.0212 REMARK 3 T13: -0.0064 T23: -0.0105 REMARK 3 L TENSOR REMARK 3 L11: 1.1824 L22: 2.8098 REMARK 3 L33: 0.4986 L12: -0.0520 REMARK 3 L13: -0.4403 L23: -0.3321 REMARK 3 S TENSOR REMARK 3 S11: -0.0807 S12: -0.0881 S13: -0.0097 REMARK 3 S21: 0.1594 S22: 0.0402 S23: 0.1021 REMARK 3 S31: -0.0776 S32: -0.0092 S33: 0.0292 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 27 THROUGH 55 ) REMARK 3 ORIGIN FOR THE GROUP (A): 41.3224 18.5607 5.7517 REMARK 3 T TENSOR REMARK 3 T11: 0.2341 T22: 0.2205 REMARK 3 T33: 0.1657 T12: 0.0218 REMARK 3 T13: -0.0118 T23: 0.0761 REMARK 3 L TENSOR REMARK 3 L11: 2.1894 L22: 1.0940 REMARK 3 L33: 1.6579 L12: -0.1606 REMARK 3 L13: 0.5783 L23: -0.0943 REMARK 3 S TENSOR REMARK 3 S11: -0.0242 S12: -0.6031 S13: -0.2940 REMARK 3 S21: 0.4449 S22: -0.0070 S23: -0.0289 REMARK 3 S31: 0.0395 S32: 0.0798 S33: 0.0486 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 56 THROUGH 76 ) REMARK 3 ORIGIN FOR THE GROUP (A): 51.6868 35.7673 -4.7580 REMARK 3 T TENSOR REMARK 3 T11: 0.1328 T22: 0.1753 REMARK 3 T33: 0.1351 T12: -0.0172 REMARK 3 T13: -0.0131 T23: -0.0727 REMARK 3 L TENSOR REMARK 3 L11: 1.4367 L22: 3.2531 REMARK 3 L33: 3.6584 L12: -0.3704 REMARK 3 L13: 0.1846 L23: -2.2236 REMARK 3 S TENSOR REMARK 3 S11: 0.0891 S12: -0.1586 S13: 0.0227 REMARK 3 S21: 0.0742 S22: -0.0327 S23: -0.3018 REMARK 3 S31: -0.1525 S32: 0.2172 S33: -0.0283 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 77 THROUGH 101 ) REMARK 3 ORIGIN FOR THE GROUP (A): 24.5256 31.4244 -1.5207 REMARK 3 T TENSOR REMARK 3 T11: 0.0970 T22: 0.1908 REMARK 3 T33: 0.0435 T12: 0.0692 REMARK 3 T13: 0.1220 T23: 0.0062 REMARK 3 L TENSOR REMARK 3 L11: 2.3130 L22: 1.6892 REMARK 3 L33: 0.9101 L12: 1.2326 REMARK 3 L13: -0.8766 L23: -0.4061 REMARK 3 S TENSOR REMARK 3 S11: -0.3788 S12: -0.2622 S13: -0.0885 REMARK 3 S21: 0.1188 S22: 0.0686 S23: 0.0262 REMARK 3 S31: -0.1315 S32: -0.1899 S33: 0.0502 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 102 THROUGH 123 ) REMARK 3 ORIGIN FOR THE GROUP (A): 24.6631 31.3669 3.1035 REMARK 3 T TENSOR REMARK 3 T11: 0.0281 T22: 0.1306 REMARK 3 T33: -0.5429 T12: 0.1468 REMARK 3 T13: 0.3704 T23: -0.0925 REMARK 3 L TENSOR REMARK 3 L11: 0.7813 L22: 0.9346 REMARK 3 L33: 0.4051 L12: 0.4023 REMARK 3 L13: -0.3017 L23: -0.2540 REMARK 3 S TENSOR REMARK 3 S11: -0.0680 S12: -0.0989 S13: -0.1605 REMARK 3 S21: -0.0303 S22: 0.2302 S23: 0.3337 REMARK 3 S31: 0.0163 S32: -0.0819 S33: -0.0296 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 124 THROUGH 154 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.2845 28.6458 3.4800 REMARK 3 T TENSOR REMARK 3 T11: 0.1615 T22: 0.0984 REMARK 3 T33: 0.0467 T12: 0.0245 REMARK 3 T13: 0.0439 T23: 0.0078 REMARK 3 L TENSOR REMARK 3 L11: 0.7971 L22: 0.4558 REMARK 3 L33: 0.0818 L12: -0.0534 REMARK 3 L13: -0.1316 L23: -0.1318 REMARK 3 S TENSOR REMARK 3 S11: -0.1077 S12: -0.2118 S13: -0.0647 REMARK 3 S21: 0.2279 S22: 0.0860 S23: 0.0919 REMARK 3 S31: 0.0144 S32: 0.0831 S33: 0.0143 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 155 THROUGH 166 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.5284 32.2721 9.3974 REMARK 3 T TENSOR REMARK 3 T11: 0.2577 T22: 0.1708 REMARK 3 T33: 0.1991 T12: 0.0199 REMARK 3 T13: 0.1482 T23: -0.0232 REMARK 3 L TENSOR REMARK 3 L11: 2.2675 L22: 3.4318 REMARK 3 L33: 1.9597 L12: 1.3710 REMARK 3 L13: -0.4876 L23: -0.9356 REMARK 3 S TENSOR REMARK 3 S11: 0.1415 S12: -0.4055 S13: 0.1222 REMARK 3 S21: 0.4021 S22: -0.0909 S23: 0.4251 REMARK 3 S31: -0.1368 S32: 0.0475 S33: -0.0978 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 167 THROUGH 181 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.9023 36.6944 1.4208 REMARK 3 T TENSOR REMARK 3 T11: 0.2082 T22: 0.1666 REMARK 3 T33: 0.2449 T12: 0.0840 REMARK 3 T13: 0.0057 T23: -0.0086 REMARK 3 L TENSOR REMARK 3 L11: 4.2178 L22: 2.8578 REMARK 3 L33: 1.6876 L12: 2.3875 REMARK 3 L13: -1.8873 L23: -1.4220 REMARK 3 S TENSOR REMARK 3 S11: 0.1721 S12: 0.3311 S13: 0.2940 REMARK 3 S21: -0.0244 S22: 0.2446 S23: 0.6237 REMARK 3 S31: -0.1684 S32: -0.3728 S33: -0.1956 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2 THROUGH 86 ) REMARK 3 ORIGIN FOR THE GROUP (A): 48.8512 25.7110 -14.2972 REMARK 3 T TENSOR REMARK 3 T11: 0.0819 T22: 0.0958 REMARK 3 T33: 0.0897 T12: 0.0097 REMARK 3 T13: 0.0078 T23: -0.0253 REMARK 3 L TENSOR REMARK 3 L11: 1.1462 L22: 1.0942 REMARK 3 L33: 0.9198 L12: 0.1496 REMARK 3 L13: -0.2294 L23: -0.0058 REMARK 3 S TENSOR REMARK 3 S11: -0.0622 S12: 0.0446 S13: -0.1071 REMARK 3 S21: -0.1224 S22: 0.0381 S23: -0.1167 REMARK 3 S31: -0.0192 S32: 0.0358 S33: 0.0170 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 87 THROUGH 133 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.6013 11.9652 -5.0025 REMARK 3 T TENSOR REMARK 3 T11: 0.1746 T22: 0.1538 REMARK 3 T33: 0.2229 T12: 0.0304 REMARK 3 T13: 0.0754 T23: 0.0588 REMARK 3 L TENSOR REMARK 3 L11: 3.0777 L22: 0.6032 REMARK 3 L33: 1.1477 L12: 0.1029 REMARK 3 L13: 0.5625 L23: -0.1346 REMARK 3 S TENSOR REMARK 3 S11: -0.0074 S12: -0.2566 S13: -0.1284 REMARK 3 S21: -0.1107 S22: 0.0468 S23: 0.0368 REMARK 3 S31: -0.0661 S32: -0.2282 S33: -0.0086 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 134 THROUGH 190 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.9093 9.8377 -8.1341 REMARK 3 T TENSOR REMARK 3 T11: 0.1440 T22: 0.1519 REMARK 3 T33: 0.2987 T12: 0.0141 REMARK 3 T13: 0.0383 T23: 0.0630 REMARK 3 L TENSOR REMARK 3 L11: 1.2964 L22: 0.3049 REMARK 3 L33: 0.5456 L12: -0.3340 REMARK 3 L13: 0.3853 L23: -0.0462 REMARK 3 S TENSOR REMARK 3 S11: -0.1021 S12: -0.0845 S13: -0.4359 REMARK 3 S21: -0.0728 S22: 0.1309 S23: 0.2291 REMARK 3 S31: -0.0282 S32: -0.0752 S33: -0.0287 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 12 ) REMARK 3 ORIGIN FOR THE GROUP (A): 52.9105 25.0366 -6.2279 REMARK 3 T TENSOR REMARK 3 T11: 0.1613 T22: 0.1610 REMARK 3 T33: 0.1789 T12: -0.0460 REMARK 3 T13: 0.0343 T23: 0.0151 REMARK 3 L TENSOR REMARK 3 L11: 1.4141 L22: 5.7940 REMARK 3 L33: 2.4923 L12: 1.4599 REMARK 3 L13: -0.7098 L23: -2.4790 REMARK 3 S TENSOR REMARK 3 S11: 0.1136 S12: -0.1322 S13: -0.0060 REMARK 3 S21: -0.0104 S22: 0.0394 S23: -0.1671 REMARK 3 S31: -0.0541 S32: 0.0302 S33: -0.1337 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 4MD0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1000081756. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-FEB-12; NULL REMARK 200 TEMPERATURE (KELVIN) : 100; NULL REMARK 200 PH : 7.3 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; N REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON; NULL REMARK 200 BEAMLINE : MX2; MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.95369; NULL REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; NULL REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R; NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23984 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.190 REMARK 200 RESOLUTION RANGE LOW (A) : 91.260 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.15500 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) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.60000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; NULL 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 (%): 54.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 24% 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 38.65600 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 38.65600 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 33.56350 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 91.70650 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 33.56350 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 91.70650 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 38.65600 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 33.56350 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 91.70650 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 38.65600 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 33.56350 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 91.70650 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: 7910 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 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 701 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: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 ND2 ASN A 118 C2 NAG D 1 2.12 REMARK 500 O4 NAG D 1 O5 NAG D 2 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 CIR C 6 CA - C - N ANGL. DEV. = 24.3 DEGREES REMARK 500 CIR C 6 O - C - N ANGL. DEV. = -21.3 DEGREES REMARK 500 LEU C 12 O - C - N ANGL. DEV. = 10.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 ARG A 100 28.21 47.98 REMARK 500 HIS B 33 -113.42 60.01 REMARK 500 THR B 90 -71.84 -123.72 REMARK 500 LEU B 109 -29.06 65.77 REMARK 500 PRO B 124 -168.59 -78.73 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: 4MD4 RELATED DB: PDB REMARK 900 RELATED ID: 4MD5 RELATED DB: PDB REMARK 900 RELATED ID: 4MDI RELATED DB: PDB REMARK 900 RELATED ID: 4MDJ RELATED DB: PDB DBREF 4MD0 A 1 181 UNP P01903 DRA_HUMAN 26 206 DBREF 4MD0 B 1 190 UNP P13760 2B14_HUMAN 30 219 DBREF 4MD0 C 1 13 UNP P08670 VIME_HUMAN 59 71 SEQADV 4MD0 THR A 182 UNP P01903 EXPRESSION TAG SEQADV 4MD0 SER A 183 UNP P01903 EXPRESSION TAG SEQADV 4MD0 GLY A 184 UNP P01903 EXPRESSION TAG SEQADV 4MD0 ASP A 185 UNP P01903 EXPRESSION TAG SEQADV 4MD0 ASP A 186 UNP P01903 EXPRESSION TAG SEQADV 4MD0 ASP A 187 UNP P01903 EXPRESSION TAG SEQADV 4MD0 ASP A 188 UNP P01903 EXPRESSION TAG SEQADV 4MD0 LYS A 189 UNP P01903 EXPRESSION TAG SEQADV 4MD0 GLY B -1 UNP P13760 EXPRESSION TAG SEQADV 4MD0 SER B 0 UNP P13760 EXPRESSION TAG SEQADV 4MD0 THR B 191 UNP P13760 EXPRESSION TAG SEQADV 4MD0 GLY B 192 UNP P13760 EXPRESSION TAG SEQADV 4MD0 GLY B 193 UNP P13760 EXPRESSION TAG SEQADV 4MD0 ASP B 194 UNP P13760 EXPRESSION TAG SEQADV 4MD0 ASP B 195 UNP P13760 EXPRESSION TAG SEQADV 4MD0 ASP B 196 UNP P13760 EXPRESSION TAG SEQADV 4MD0 ASP B 197 UNP P13760 EXPRESSION TAG SEQADV 4MD0 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 LEU LEU GLU GLN LYS ARG ALA ALA VAL ASP SEQRES 7 B 200 THR TYR CYS ARG HIS ASN TYR GLY VAL GLY 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 GLY VAL TYR ALA THR CIR SER SER ALA VAL CIR LEU CIR MODRES 4MD0 ASN B 19 ASN GLYCOSYLATION SITE MODRES 4MD0 ASN A 118 ASN GLYCOSYLATION SITE MODRES 4MD0 ASN A 78 ASN GLYCOSYLATION SITE MODRES 4MD0 CIR C 6 ARG CITRULLINE MODRES 4MD0 CIR C 11 ARG CITRULLINE MODRES 4MD0 CIR C 13 ARG CITRULLINE HET CIR C 6 11 HET CIR C 11 19 HET CIR C 13 11 HET NAG D 1 14 HET NAG D 2 14 HET NAG A 500 14 HET NAG B 500 14 HETNAM CIR CITRULLINE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE 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 FORMUL 3 CIR 3(C6 H13 N3 O3) FORMUL 4 NAG 4(C8 H15 N O6) FORMUL 7 HOH *354(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 SER B 63 1 10 HELIX 5 5 GLN B 64 ALA B 73 1 10 HELIX 6 6 ALA B 73 TYR B 78 1 6 HELIX 7 7 TYR B 78 GLU B 87 1 10 HELIX 8 8 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 ASP A 35 O GLU A 40 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 PHE B 31 N GLN B 10 SHEET 7 A 8 GLU B 35 ASP B 41 -1 O GLU B 35 N TYR B 32 SHEET 8 A 8 TYR B 47 ALA B 49 -1 O ARG B 48 N ARG B 39 SHEET 1 B 2 SER A 53 PHE A 54 0 SHEET 2 B 2 VAL C 2 TYR C 3 1 O TYR C 3 N SER A 53 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 LEU A 151 N LEU A 105 SHEET 4 C 4 SER A 133 GLU A 134 -1 N SER A 133 O TYR A 150 SHEET 1 D 4 GLU A 88 THR A 93 0 SHEET 2 D 4 ASN A 103 PHE A 112 -1 O ILE A 106 N LEU A 92 SHEET 3 D 4 PHE A 145 PHE A 153 -1 O LEU A 151 N LEU A 105 SHEET 4 D 4 LEU A 138 PRO A 139 -1 N LEU A 138 O ARG A 146 SHEET 1 E 4 LYS A 126 VAL A 128 0 SHEET 2 E 4 ASN A 118 ARG A 123 -1 N ARG A 123 O LYS A 126 SHEET 3 E 4 TYR A 161 GLU A 166 -1 O ARG A 164 N THR A 120 SHEET 4 E 4 LEU A 174 TRP A 178 -1 O LEU A 174 N VAL A 165 SHEET 1 F 4 GLU B 98 ALA B 104 0 SHEET 2 F 4 LEU B 114 PHE B 122 -1 O SER B 118 N THR B 100 SHEET 3 F 4 PHE B 155 GLU B 162 -1 O THR B 157 N VAL B 119 SHEET 4 F 4 VAL B 142 SER B 144 -1 N VAL B 143 O MET B 160 SHEET 1 G 4 GLU B 98 ALA B 104 0 SHEET 2 G 4 LEU B 114 PHE B 122 -1 O SER B 118 N THR B 100 SHEET 3 G 4 PHE B 155 GLU B 162 -1 O THR B 157 N VAL B 119 SHEET 4 G 4 ILE B 148 GLN B 149 -1 N ILE B 148 O GLN B 156 SHEET 1 H 4 GLN B 136 GLU B 138 0 SHEET 2 H 4 GLU B 128 ARG B 133 -1 N ARG B 133 O GLN B 136 SHEET 3 H 4 VAL B 170 GLU B 176 -1 O GLN B 174 N ARG B 130 SHEET 4 H 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 2.03 SSBOND 2 CYS B 15 CYS B 79 1555 1555 2.04 SSBOND 3 CYS B 117 CYS B 173 1555 1555 2.02 LINK ND2 ASN A 78 C1 NAG A 500 1555 1555 1.45 LINK ND2 ASN A 118 C1 NAG D 1 1555 1555 1.45 LINK ND2 ASN B 19 C1 NAG B 500 1555 1555 1.44 LINK C THR C 5 N CIR C 6 1555 1555 1.32 LINK C CIR C 6 N SER C 7 1555 1555 1.35 LINK C VAL C 10 N CIR C 11 1555 1555 1.32 LINK C CIR C 11 N LEU C 12 1555 1555 1.35 LINK C LEU C 12 N CIR C 13 1555 1555 1.35 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.44 CISPEP 1 ASN A 15 PRO A 16 0 4.03 CISPEP 2 THR A 113 PRO A 114 0 -0.55 CISPEP 3 TYR B 123 PRO B 124 0 1.05 CRYST1 67.127 183.413 77.312 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 0.014897 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005452 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012935 0.00000