HEADER VIRAL PROTEIN 23-MAR-24 8YSH TITLE MERS-COV RBD IN COMPLEX WITH NANOBODY NB14 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPIKE GLYCOPROTEIN; COMPND 3 CHAIN: B; COMPND 4 SYNONYM: S GLYCOPROTEIN,E2,PEPLOMER PROTEIN; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: SEQUENCE REFERENCE FOR VIRUS-ASSOCIATED RNAS (TAX ID COMPND 7 1425366) IS NOT AVAILABLE IN UNIPROT AT THE TIME OF BIOCURATION. COMPND 8 CURRENT SEQUENCE REFERENCE IS FROM UNIPROT ID R9UQ53 WITH TAX ID COMPND 9 1335626 (MIDDLE EAST RESPIRATORY SYNDROME-RELATED CORONAVIRUS) WHICH COMPND 10 MATCHES THE ENTRY TITLE.; COMPND 11 MOL_ID: 2; COMPND 12 MOLECULE: NB14; COMPND 13 CHAIN: A; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MIDDLE EAST RESPIRATORY SYNDROME-RELATED SOURCE 3 CORONAVIRUS; SOURCE 4 ORGANISM_COMMON: MERS-COV; SOURCE 5 ORGANISM_TAXID: 1335626; SOURCE 6 EXPRESSION_SYSTEM: INSECTA ENVIRONMENTAL SAMPLE; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 2588572; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: VICUGNA PACOS; SOURCE 10 ORGANISM_TAXID: 30538; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 561 KEYWDS MERS-COV NANOBODY NB14, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.X.WANG,S.MA REVDAT 1 11-SEP-24 8YSH 0 JRNL AUTH S.MA,D.ZHANG,Q.WANG,L.ZHU,X.WU,S.YE,Y.WANG JRNL TITL STRUCTURE DEFINING OF ULTRAPOTENT NEUTRALIZING NANOBODIES JRNL TITL 2 AGAINST MERS-COV WITH NOVEL EPITOPES ON RECEPTOR BINDING JRNL TITL 3 DOMAIN. JRNL REF PLOS PATHOG. V. 20 12438 2024 JRNL REFN ESSN 1553-7374 JRNL PMID 39141662 JRNL DOI 10.1371/JOURNAL.PPAT.1012438 REMARK 2 REMARK 2 RESOLUTION. 1.99 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.99 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.11 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 43744 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.229 REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.950 REMARK 3 FREE R VALUE TEST SET COUNT : 2165 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 38.1100 - 4.9000 1.00 3061 168 0.2003 0.2065 REMARK 3 2 4.8900 - 3.8900 1.00 2885 148 0.1832 0.1671 REMARK 3 3 3.8900 - 3.4000 1.00 2839 141 0.2302 0.2760 REMARK 3 4 3.4000 - 3.0900 1.00 2768 145 0.2549 0.2651 REMARK 3 5 3.0900 - 2.8600 1.00 2795 152 0.2737 0.2956 REMARK 3 6 2.8600 - 2.7000 1.00 2770 136 0.2682 0.3164 REMARK 3 7 2.7000 - 2.5600 1.00 2728 145 0.2688 0.2917 REMARK 3 8 2.5600 - 2.4500 1.00 2723 145 0.2708 0.2906 REMARK 3 9 2.4500 - 2.3500 1.00 2732 146 0.2743 0.2737 REMARK 3 10 2.3500 - 2.2700 1.00 2732 151 0.2612 0.2690 REMARK 3 11 2.2700 - 2.2000 1.00 2716 146 0.2620 0.2820 REMARK 3 12 2.2000 - 2.1400 1.00 2707 150 0.2757 0.2955 REMARK 3 13 2.1400 - 2.0800 1.00 2681 132 0.2824 0.2882 REMARK 3 14 2.0800 - 2.0300 1.00 2735 123 0.3230 0.3367 REMARK 3 15 2.0300 - 1.9900 1.00 2707 137 0.3288 0.3417 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.213 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.340 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 48.87 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 74.37 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 : 0.010 2599 REMARK 3 ANGLE : 1.092 3538 REMARK 3 CHIRALITY : 0.070 416 REMARK 3 PLANARITY : 0.015 449 REMARK 3 DIHEDRAL : 14.051 925 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 14 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 381 THROUGH 439 ) REMARK 3 ORIGIN FOR THE GROUP (A): 28.1401 21.5738 -15.1997 REMARK 3 T TENSOR REMARK 3 T11: 0.4687 T22: 0.9912 REMARK 3 T33: 0.6058 T12: 0.0391 REMARK 3 T13: -0.0898 T23: 0.1155 REMARK 3 L TENSOR REMARK 3 L11: 0.4584 L22: 1.0561 REMARK 3 L33: 2.0218 L12: 0.2616 REMARK 3 L13: 0.8322 L23: 0.5658 REMARK 3 S TENSOR REMARK 3 S11: -0.1372 S12: 0.2426 S13: -0.0890 REMARK 3 S21: 0.4027 S22: 0.2162 S23: -0.2272 REMARK 3 S31: -0.0774 S32: 0.6748 S33: -0.1096 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 440 THROUGH 484 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.9000 17.4453 -16.3522 REMARK 3 T TENSOR REMARK 3 T11: 0.5126 T22: 1.0548 REMARK 3 T33: 0.4682 T12: 0.0922 REMARK 3 T13: 0.0596 T23: 0.1351 REMARK 3 L TENSOR REMARK 3 L11: 2.1836 L22: 3.6651 REMARK 3 L33: 5.3202 L12: 0.7372 REMARK 3 L13: 3.3185 L23: 1.8151 REMARK 3 S TENSOR REMARK 3 S11: -0.0144 S12: -0.2644 S13: -0.0358 REMARK 3 S21: 0.6171 S22: -0.0056 S23: 0.2557 REMARK 3 S31: 0.3760 S32: -0.6890 S33: 0.0657 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 485 THROUGH 528 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.8648 7.0038 -23.5271 REMARK 3 T TENSOR REMARK 3 T11: 0.2686 T22: 1.0826 REMARK 3 T33: 0.4849 T12: 0.0619 REMARK 3 T13: 0.0223 T23: 0.1549 REMARK 3 L TENSOR REMARK 3 L11: 2.8991 L22: 6.5309 REMARK 3 L33: 3.9491 L12: 2.0056 REMARK 3 L13: -0.7009 L23: -1.0259 REMARK 3 S TENSOR REMARK 3 S11: -0.0587 S12: -0.0827 S13: -0.2496 REMARK 3 S21: 0.5454 S22: 0.0262 S23: 0.0418 REMARK 3 S31: 0.5467 S32: -0.0837 S33: 0.0899 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 529 THROUGH 562 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.5535 -0.2773 -28.5795 REMARK 3 T TENSOR REMARK 3 T11: 0.3403 T22: 1.1083 REMARK 3 T33: 0.6840 T12: 0.0227 REMARK 3 T13: -0.0113 T23: 0.1287 REMARK 3 L TENSOR REMARK 3 L11: 0.5727 L22: 3.2326 REMARK 3 L33: 2.5828 L12: -0.0537 REMARK 3 L13: 1.0170 L23: -0.9430 REMARK 3 S TENSOR REMARK 3 S11: 0.0158 S12: 0.2579 S13: -0.1187 REMARK 3 S21: -0.1846 S22: 0.3392 S23: 0.2973 REMARK 3 S31: 0.5253 S32: -0.1489 S33: -0.4037 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 563 THROUGH 576 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.3350 21.8703 -22.2621 REMARK 3 T TENSOR REMARK 3 T11: 0.4176 T22: 1.0775 REMARK 3 T33: 0.5335 T12: 0.0689 REMARK 3 T13: -0.0332 T23: 0.0987 REMARK 3 L TENSOR REMARK 3 L11: 1.9350 L22: 2.7992 REMARK 3 L33: 7.2392 L12: -0.2989 REMARK 3 L13: 2.6193 L23: -0.5464 REMARK 3 S TENSOR REMARK 3 S11: -0.4490 S12: 0.3813 S13: 0.2136 REMARK 3 S21: 0.3361 S22: 0.3754 S23: -0.3516 REMARK 3 S31: -0.4339 S32: 0.2257 S33: 0.0122 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 577 THROUGH 589 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.9342 21.4473 -2.2060 REMARK 3 T TENSOR REMARK 3 T11: 0.8988 T22: 1.4301 REMARK 3 T33: 0.8524 T12: 0.0540 REMARK 3 T13: -0.2933 T23: -0.1246 REMARK 3 L TENSOR REMARK 3 L11: 7.4439 L22: 2.3114 REMARK 3 L33: 5.7601 L12: 2.6733 REMARK 3 L13: -5.6383 L23: -3.1231 REMARK 3 S TENSOR REMARK 3 S11: -0.0604 S12: -1.4991 S13: -0.4495 REMARK 3 S21: 1.6549 S22: -0.1903 S23: -1.6700 REMARK 3 S31: -0.7310 S32: 0.1778 S33: 0.3817 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 7 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.3434 7.7431 -46.7752 REMARK 3 T TENSOR REMARK 3 T11: 0.3540 T22: 1.1603 REMARK 3 T33: 0.8381 T12: -0.0124 REMARK 3 T13: 0.0670 T23: 0.1080 REMARK 3 L TENSOR REMARK 3 L11: 2.6088 L22: 2.6342 REMARK 3 L33: 2.8345 L12: 2.2117 REMARK 3 L13: -1.5104 L23: -1.5715 REMARK 3 S TENSOR REMARK 3 S11: -0.0549 S12: 0.2748 S13: -0.4475 REMARK 3 S21: -0.0457 S22: -0.5542 S23: -0.9731 REMARK 3 S31: 0.2314 S32: -0.0206 S33: 0.5741 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 8 THROUGH 17 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.4488 26.1215 -58.1249 REMARK 3 T TENSOR REMARK 3 T11: 0.4257 T22: 1.2340 REMARK 3 T33: 0.6748 T12: 0.1048 REMARK 3 T13: -0.0744 T23: 0.2233 REMARK 3 L TENSOR REMARK 3 L11: 2.5952 L22: 3.5855 REMARK 3 L33: 0.3999 L12: -2.7626 REMARK 3 L13: 0.5308 L23: -0.1390 REMARK 3 S TENSOR REMARK 3 S11: 0.0446 S12: 0.8469 S13: 0.3744 REMARK 3 S21: -0.5955 S22: -0.3799 S23: -0.1875 REMARK 3 S31: -0.3477 S32: -0.3301 S33: 0.2626 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 18 THROUGH 24 ) REMARK 3 ORIGIN FOR THE GROUP (A): 28.1795 11.9655 -53.6245 REMARK 3 T TENSOR REMARK 3 T11: 0.3402 T22: 1.4219 REMARK 3 T33: 0.5574 T12: 0.0429 REMARK 3 T13: 0.0414 T23: 0.1555 REMARK 3 L TENSOR REMARK 3 L11: 5.6497 L22: 7.0911 REMARK 3 L33: 4.2149 L12: -1.4287 REMARK 3 L13: 0.4857 L23: -2.8827 REMARK 3 S TENSOR REMARK 3 S11: -0.0243 S12: 0.4724 S13: -0.6065 REMARK 3 S21: -0.3640 S22: -0.2107 S23: -0.6702 REMARK 3 S31: 0.3500 S32: 0.0961 S33: 0.2779 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 25 THROUGH 44 ) REMARK 3 ORIGIN FOR THE GROUP (A): 28.2339 11.5737 -43.5099 REMARK 3 T TENSOR REMARK 3 T11: 0.3030 T22: 1.2132 REMARK 3 T33: 0.7105 T12: -0.1020 REMARK 3 T13: -0.0585 T23: 0.1310 REMARK 3 L TENSOR REMARK 3 L11: 0.5653 L22: 2.5382 REMARK 3 L33: 2.3112 L12: 0.3930 REMARK 3 L13: -0.9325 L23: 0.0614 REMARK 3 S TENSOR REMARK 3 S11: 0.0595 S12: -0.1121 S13: -0.3718 REMARK 3 S21: 0.0875 S22: -0.1300 S23: -0.4554 REMARK 3 S31: 0.0057 S32: 0.1433 S33: 0.0632 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 45 THROUGH 51 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.0789 15.0795 -40.8383 REMARK 3 T TENSOR REMARK 3 T11: 0.3126 T22: 1.1315 REMARK 3 T33: 0.5960 T12: -0.0433 REMARK 3 T13: -0.0347 T23: 0.1549 REMARK 3 L TENSOR REMARK 3 L11: 3.0403 L22: 9.2377 REMARK 3 L33: 2.0178 L12: 3.1118 REMARK 3 L13: 0.5578 L23: 1.3356 REMARK 3 S TENSOR REMARK 3 S11: 0.0050 S12: 0.0680 S13: -0.2291 REMARK 3 S21: 0.2715 S22: 0.0735 S23: -0.3713 REMARK 3 S31: -0.2106 S32: 0.3968 S33: -0.1228 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 52 THROUGH 72 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.1293 11.5589 -46.7958 REMARK 3 T TENSOR REMARK 3 T11: 0.1265 T22: 1.3570 REMARK 3 T33: 0.6908 T12: -0.1396 REMARK 3 T13: -0.0162 T23: 0.1311 REMARK 3 L TENSOR REMARK 3 L11: 2.2896 L22: 1.1872 REMARK 3 L33: 0.3812 L12: -0.0292 REMARK 3 L13: 0.8236 L23: -0.0084 REMARK 3 S TENSOR REMARK 3 S11: 0.0483 S12: 0.3933 S13: 0.0451 REMARK 3 S21: -0.1651 S22: -0.0418 S23: 0.4201 REMARK 3 S31: 0.1189 S32: -0.0438 S33: 0.1355 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 73 THROUGH 109 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.4783 14.8231 -46.9383 REMARK 3 T TENSOR REMARK 3 T11: 0.3251 T22: 1.2711 REMARK 3 T33: 0.5850 T12: 0.0304 REMARK 3 T13: 0.0163 T23: 0.0997 REMARK 3 L TENSOR REMARK 3 L11: 3.0484 L22: 1.2162 REMARK 3 L33: 0.4846 L12: 0.3841 REMARK 3 L13: 0.4685 L23: -0.6332 REMARK 3 S TENSOR REMARK 3 S11: 0.1020 S12: 0.2015 S13: -0.0334 REMARK 3 S21: 0.0277 S22: -0.3035 S23: 0.0187 REMARK 3 S31: 0.0068 S32: 0.1653 S33: 0.1280 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 110 THROUGH 116 ) REMARK 3 ORIGIN FOR THE GROUP (A): 29.4509 27.2737 -53.3808 REMARK 3 T TENSOR REMARK 3 T11: 0.3728 T22: 1.4333 REMARK 3 T33: 0.7053 T12: 0.0271 REMARK 3 T13: 0.0118 T23: 0.2044 REMARK 3 L TENSOR REMARK 3 L11: 5.7722 L22: 3.2156 REMARK 3 L33: 2.7432 L12: -0.1726 REMARK 3 L13: 0.1664 L23: 2.3246 REMARK 3 S TENSOR REMARK 3 S11: -0.0156 S12: 0.4898 S13: 0.8190 REMARK 3 S21: -0.2023 S22: -0.3514 S23: -0.0340 REMARK 3 S31: -0.2877 S32: 0.0302 S33: 0.2694 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 8YSH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 26-MAR-24. REMARK 100 THE DEPOSITION ID IS D_1300046290. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-AUG-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL02U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 S 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43747 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.990 REMARK 200 RESOLUTION RANGE LOW (A) : 87.910 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 24.90 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.99 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.09 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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 (%): 70.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% W/V PEG 6000, 8% ETHYLENE GLYCOL, REMARK 280 0.1 M CITRIC ACID PH 3.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 175.81250 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 29.24400 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 29.24400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 87.90625 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 29.24400 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 29.24400 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 263.71875 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 29.24400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 29.24400 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 87.90625 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 29.24400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 29.24400 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 263.71875 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 175.81250 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 6.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, A, C 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 736 LIES ON A SPECIAL POSITION. 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 O HOH B 702 O HOH B 729 1.96 REMARK 500 O3 NAG C 2 O5 BMA C 3 2.13 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 VAL A 5 CA - C - N ANGL. DEV. = -17.9 DEGREES REMARK 500 VAL A 5 O - C - N ANGL. DEV. = 17.4 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 SER B 459 41.56 -89.05 REMARK 500 LYS B 496 -178.64 -176.61 REMARK 500 SER A 27 -149.67 67.26 REMARK 500 SER A 30 6.48 -67.22 REMARK 500 LYS A 43 -166.51 -111.30 REMARK 500 REMARK 500 REMARK: NULL DBREF 8YSH B 381 589 UNP R9UQ53 R9UQ53_MERS 381 589 DBREF 8YSH A 1 116 PDB 8YSH 8YSH 1 116 SEQRES 1 B 209 VAL GLU CYS ASP PHE SER PRO LEU LEU SER GLY THR PRO SEQRES 2 B 209 PRO GLN VAL TYR ASN PHE LYS ARG LEU VAL PHE THR ASN SEQRES 3 B 209 CYS ASN TYR ASN LEU THR LYS LEU LEU SER LEU PHE SER SEQRES 4 B 209 VAL ASN ASP PHE THR CYS SER GLN ILE SER PRO ALA ALA SEQRES 5 B 209 ILE ALA SER ASN CYS TYR SER SER LEU ILE LEU ASP TYR SEQRES 6 B 209 PHE SER TYR PRO LEU SER MET LYS SER ASP LEU SER VAL SEQRES 7 B 209 SER SER ALA GLY PRO ILE SER GLN PHE ASN TYR LYS GLN SEQRES 8 B 209 SER PHE SER ASN PRO THR CYS LEU ILE LEU ALA THR VAL SEQRES 9 B 209 PRO HIS ASN LEU THR THR ILE THR LYS PRO LEU LYS TYR SEQRES 10 B 209 SER TYR ILE ASN LYS CYS SER ARG LEU LEU SER ASP ASP SEQRES 11 B 209 ARG THR GLU VAL PRO GLN LEU VAL ASN ALA ASN GLN TYR SEQRES 12 B 209 SER PRO CYS VAL SER ILE VAL PRO SER THR VAL TRP GLU SEQRES 13 B 209 ASP GLY ASP TYR TYR ARG LYS GLN LEU SER PRO LEU GLU SEQRES 14 B 209 GLY GLY GLY TRP LEU VAL ALA SER GLY SER THR VAL ALA SEQRES 15 B 209 MET THR GLU GLN LEU GLN MET GLY PHE GLY ILE THR VAL SEQRES 16 B 209 GLN TYR GLY THR ASP THR ASN SER VAL CYS PRO LYS LEU SEQRES 17 B 209 GLU SEQRES 1 A 116 ASP VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 A 116 PRO GLY GLY SER LEU ARG LEU SER CYS THR THR SER GLY SEQRES 3 A 116 SER ILE PHE SER GLN LEU THR ILE GLY TRP ALA ARG GLN SEQRES 4 A 116 PRO PRO GLY LYS GLN ARG GLU LEU LEU ALA ARG ILE ASN SEQRES 5 A 116 PRO SER GLY ARG THR ASP TYR THR VAL SER VAL LYS GLY SEQRES 6 A 116 ARG PHE THR ILE SER ARG ASP ASN ALA LYS ASN THR VAL SEQRES 7 A 116 TYR LEU GLN MET ASN SER LEU LYS PRO GLU ASP THR GLY SEQRES 8 A 116 VAL TYR TYR CYS HIS LEU ASP GLY SER ASP ALA LYS GLY SEQRES 9 A 116 ASP TRP GLY GLN GLY THR GLN VAL THR VAL SER SER HET NAG C 1 14 HET NAG C 2 14 HET BMA C 3 11 HET NAG B 601 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE 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 BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 3 NAG 3(C8 H15 N O6) FORMUL 3 BMA C6 H12 O6 FORMUL 5 HOH *74(H2 O) HELIX 1 AA1 PHE B 385 SER B 390 5 6 HELIX 2 AA2 GLN B 395 PHE B 399 5 5 HELIX 3 AA3 ASN B 410 SER B 416 1 7 HELIX 4 AA4 SER B 429 ALA B 434 1 6 HELIX 5 AA5 PRO B 449 SER B 457 5 9 HELIX 6 AA6 GLY B 462 ASN B 468 1 7 HELIX 7 AA7 SER B 524 ILE B 529 5 6 HELIX 8 AA8 SER B 546 GLY B 550 5 5 HELIX 9 AA9 ILE A 28 LEU A 32 5 5 HELIX 10 AB1 LYS A 86 THR A 90 5 5 HELIX 11 AB2 ALA A 102 TRP A 106 5 5 SHEET 1 AA1 5 LYS B 400 PHE B 404 0 SHEET 2 AA1 5 SER B 440 SER B 447 -1 O LEU B 443 N LEU B 402 SHEET 3 AA1 5 GLN B 568 GLN B 576 -1 O GLY B 572 N ASP B 444 SHEET 4 AA1 5 THR B 477 THR B 483 -1 N ILE B 480 O PHE B 571 SHEET 5 AA1 5 SER B 419 SER B 426 -1 N SER B 426 O THR B 477 SHEET 1 AA2 2 CYS B 407 TYR B 409 0 SHEET 2 AA2 2 VAL B 584 PRO B 586 1 O CYS B 585 N TYR B 409 SHEET 1 AA3 4 GLU B 513 PRO B 515 0 SHEET 2 AA3 4 LYS B 496 LEU B 506 -1 N ARG B 505 O VAL B 514 SHEET 3 AA3 4 TRP B 553 ALA B 562 -1 O TRP B 553 N LEU B 506 SHEET 4 AA3 4 TYR B 540 GLN B 544 -1 N LYS B 543 O LEU B 554 SHEET 1 AA4 4 LEU A 4 SER A 7 0 SHEET 2 AA4 4 LEU A 18 THR A 24 -1 O THR A 23 N VAL A 5 SHEET 3 AA4 4 THR A 77 MET A 82 -1 O MET A 82 N LEU A 18 SHEET 4 AA4 4 PHE A 67 ASP A 72 -1 N THR A 68 O GLN A 81 SHEET 1 AA5 6 GLY A 10 VAL A 12 0 SHEET 2 AA5 6 THR A 110 VAL A 114 1 O THR A 113 N VAL A 12 SHEET 3 AA5 6 GLY A 91 LEU A 97 -1 N TYR A 93 O THR A 110 SHEET 4 AA5 6 ILE A 34 GLN A 39 -1 N ALA A 37 O TYR A 94 SHEET 5 AA5 6 GLU A 46 ILE A 51 -1 O LEU A 48 N TRP A 36 SHEET 6 AA5 6 THR A 57 TYR A 59 -1 O ASP A 58 N ARG A 50 SSBOND 1 CYS B 383 CYS B 407 1555 1555 2.04 SSBOND 2 CYS B 425 CYS B 478 1555 1555 2.04 SSBOND 3 CYS B 437 CYS B 585 1555 1555 2.05 SSBOND 4 CYS B 503 CYS B 526 1555 1555 2.05 SSBOND 5 CYS A 22 CYS A 95 1555 1555 2.05 LINK ND2 ASN B 410 C1 NAG B 601 1555 1555 1.43 LINK ND2 ASN B 487 C1 NAG C 1 1555 1555 1.44 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.43 LINK O4 NAG C 2 C1 BMA C 3 1555 1555 1.44 CRYST1 58.488 58.488 351.625 90.00 90.00 90.00 P 41 21 2 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 0.017098 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017098 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002844 0.00000