HEADER MEMBRANE PROTEIN 14-JUL-21 7P57 TITLE VSG2 MUTANT STRUCTURE LACKING THE CALCIUM BINDING POCKET COMPND MOL_ID: 1; COMPND 2 MOLECULE: VARIANT SURFACE GLYCOPROTEIN MITAT 1.2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: VSG 221; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: VSG2 "AAA MUTANT" (D208, N209, AND D210 EACH MUTATED COMPND 7 TO ALANINE). SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI BRUCEI; SOURCE 3 ORGANISM_TAXID: 5702; SOURCE 4 EXPRESSION_SYSTEM: TRYPANOSOMA BRUCEI BRUCEI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 5702; SOURCE 6 EXPRESSION_SYSTEM_CELL_LINE: FAB 3.6.4 (VSG2-AAA) KEYWDS VARIANT SURFACE GLYCOPROTEIN, COAT, TRYPANOSOMA BRUCEI, AFRICAN KEYWDS 2 TRYPANOSOME, IMMUNE EVASION, ANTIGENIC VARIATION, CALCIUM BINDING, KEYWDS 3 CALCIUM, MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.GKEKA,F.ARESTA-BRANCO,C.E.STEBBINS,F.N.PAPAVASILIOU REVDAT 4 07-FEB-24 7P57 1 REMARK REVDAT 3 05-APR-23 7P57 1 JRNL REVDAT 2 08-FEB-23 7P57 1 JRNL REVDAT 1 27-JUL-22 7P57 0 JRNL AUTH A.GKEKA,F.ARESTA-BRANCO,G.TRILLER,E.P.VLACHOU, JRNL AUTH 2 M.VAN STRAATEN,M.LILIC,P.D.B.OLINARES,K.PEREZ,B.T.CHAIT, JRNL AUTH 3 R.BLATNIK,T.RUPPERT,J.P.VERDI,C.E.STEBBINS,F.N.PAPAVASILIOU JRNL TITL IMMUNODOMINANT SURFACE EPITOPES POWER IMMUNE EVASION IN THE JRNL TITL 2 AFRICAN TRYPANOSOME. JRNL REF CELL REP V. 42 12262 2023 JRNL REFN ESSN 2211-1247 JRNL PMID 36943866 JRNL DOI 10.1016/J.CELREP.2023.112262 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.GKEKA,F.ARESTA-BRANCO,G.TRILLER,E.P.VLACHOU,M.LILIC, REMARK 1 AUTH 2 P.D.B.OLINARES,K.PEREZ,B.T.CHAIT,R.BLATNIK,T.RUPPERT, REMARK 1 AUTH 3 C.E.STEBBINS,F.N.PAPAVASILIOU REMARK 1 TITL IMMUNODOMINANT SURFACE EPITOPES POWER IMMUNE EVASION IN THE REMARK 1 TITL 2 AFRICAN TRYPANOSOME REMARK 1 REF BIORXIV 2022 REMARK 1 REFN ISSN 2692-8205 REMARK 1 DOI 10.1101/2021.07.20.453071 REMARK 2 REMARK 2 RESOLUTION. 1.96 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 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) : 1.96 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.01 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 36675 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.194 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3400 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 48.0100 - 5.6537 1.00 2739 144 0.1433 0.1723 REMARK 3 2 5.6537 - 4.4886 1.00 2763 145 0.1404 0.1472 REMARK 3 3 4.4886 - 3.9215 1.00 2756 139 0.1229 0.1613 REMARK 3 4 3.9215 - 3.5631 1.00 2746 147 0.1449 0.1683 REMARK 3 5 3.5631 - 3.3077 1.00 2728 147 0.1674 0.1903 REMARK 3 6 3.3077 - 3.1128 1.00 2745 147 0.1795 0.2515 REMARK 3 7 3.1128 - 2.9569 1.00 2757 141 0.1757 0.2115 REMARK 3 8 2.9569 - 2.8282 1.00 2726 141 0.1661 0.2387 REMARK 3 9 2.8282 - 2.7193 1.00 2770 145 0.1537 0.1703 REMARK 3 10 2.7193 - 2.6255 1.00 2747 144 0.1437 0.2022 REMARK 3 11 2.6255 - 2.5434 1.00 2771 146 0.1458 0.1822 REMARK 3 12 2.5434 - 2.4707 1.00 2733 145 0.1502 0.1846 REMARK 3 13 2.4707 - 2.4057 1.00 2709 145 0.1528 0.1680 REMARK 3 14 2.4057 - 2.3470 1.00 2754 149 0.1456 0.2151 REMARK 3 15 2.3470 - 2.2936 1.00 2753 144 0.1566 0.1761 REMARK 3 16 2.2936 - 2.2448 1.00 2748 146 0.1702 0.2032 REMARK 3 17 2.2448 - 2.1999 1.00 2768 142 0.1667 0.1883 REMARK 3 18 2.1999 - 2.1584 1.00 2741 145 0.1807 0.2159 REMARK 3 19 2.1584 - 2.1198 1.00 2720 142 0.2035 0.2441 REMARK 3 20 2.1198 - 2.0839 1.00 2735 149 0.2232 0.2802 REMARK 3 21 2.0839 - 2.0503 0.99 2753 144 0.2655 0.2946 REMARK 3 22 2.0503 - 2.0188 0.97 2676 139 0.2778 0.2879 REMARK 3 23 2.0188 - 1.9891 0.90 2455 130 0.3130 0.3563 REMARK 3 24 1.9891 - 1.9610 0.66 1798 94 0.3575 0.3479 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.320 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.90 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 27:62) REMARK 3 ORIGIN FOR THE GROUP (A): -2.3456 -10.6864 20.1191 REMARK 3 T TENSOR REMARK 3 T11: 0.2981 T22: 0.3131 REMARK 3 T33: 0.2990 T12: -0.0169 REMARK 3 T13: -0.0537 T23: -0.0780 REMARK 3 L TENSOR REMARK 3 L11: 2.9789 L22: 6.8585 REMARK 3 L33: 0.7473 L12: -3.2781 REMARK 3 L13: -0.5106 L23: 1.1916 REMARK 3 S TENSOR REMARK 3 S11: 0.1565 S12: 0.3118 S13: -0.3089 REMARK 3 S21: -0.1233 S22: -0.0977 S23: -0.2597 REMARK 3 S31: 0.1332 S32: 0.0810 S33: -0.0610 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 63:111) REMARK 3 ORIGIN FOR THE GROUP (A): -30.8021 20.9997 24.9190 REMARK 3 T TENSOR REMARK 3 T11: 0.2436 T22: 0.2391 REMARK 3 T33: 0.2066 T12: -0.0370 REMARK 3 T13: 0.0026 T23: 0.0165 REMARK 3 L TENSOR REMARK 3 L11: 7.4673 L22: 4.7829 REMARK 3 L33: 1.4120 L12: -5.3172 REMARK 3 L13: 2.2721 L23: -1.9198 REMARK 3 S TENSOR REMARK 3 S11: -0.0899 S12: -0.2151 S13: -0.2621 REMARK 3 S21: 0.0976 S22: 0.1846 S23: 0.3291 REMARK 3 S31: -0.0348 S32: -0.2430 S33: -0.1073 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 112:178) REMARK 3 ORIGIN FOR THE GROUP (A): 4.9795 -11.5644 19.1615 REMARK 3 T TENSOR REMARK 3 T11: 0.3013 T22: 0.3133 REMARK 3 T33: 0.3329 T12: 0.0023 REMARK 3 T13: -0.0497 T23: -0.0962 REMARK 3 L TENSOR REMARK 3 L11: 2.5478 L22: 3.0194 REMARK 3 L33: 1.5357 L12: -1.2387 REMARK 3 L13: -0.6623 L23: 0.9831 REMARK 3 S TENSOR REMARK 3 S11: 0.1186 S12: 0.3325 S13: -0.3379 REMARK 3 S21: -0.1629 S22: 0.0370 S23: -0.3662 REMARK 3 S31: 0.1847 S32: 0.1304 S33: -0.1393 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 179:190) REMARK 3 ORIGIN FOR THE GROUP (A): -11.7525 -6.1872 18.9748 REMARK 3 T TENSOR REMARK 3 T11: 0.3174 T22: 0.3173 REMARK 3 T33: 0.3371 T12: 0.0126 REMARK 3 T13: -0.0268 T23: -0.0443 REMARK 3 L TENSOR REMARK 3 L11: 3.2318 L22: 8.8586 REMARK 3 L33: 5.8595 L12: 0.4145 REMARK 3 L13: 3.2692 L23: -3.3308 REMARK 3 S TENSOR REMARK 3 S11: 0.0571 S12: 0.3072 S13: 0.0833 REMARK 3 S21: -0.3588 S22: -0.0858 S23: 0.4640 REMARK 3 S31: -0.2002 S32: -0.1802 S33: -0.0987 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 191:256) REMARK 3 ORIGIN FOR THE GROUP (A): 8.4195 -25.1688 28.9931 REMARK 3 T TENSOR REMARK 3 T11: 0.5041 T22: 0.2914 REMARK 3 T33: 0.6353 T12: 0.0625 REMARK 3 T13: -0.1543 T23: -0.0440 REMARK 3 L TENSOR REMARK 3 L11: 2.9947 L22: 2.1250 REMARK 3 L33: 1.0935 L12: -1.2133 REMARK 3 L13: 0.3786 L23: 0.1828 REMARK 3 S TENSOR REMARK 3 S11: 0.1301 S12: 0.1634 S13: -1.0232 REMARK 3 S21: 0.2440 S22: 0.0931 S23: -0.3684 REMARK 3 S31: 0.4340 S32: 0.1986 S33: -0.2097 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 257:273) REMARK 3 ORIGIN FOR THE GROUP (A): -5.7779 -12.8385 35.6786 REMARK 3 T TENSOR REMARK 3 T11: 0.4422 T22: 0.3657 REMARK 3 T33: 0.2843 T12: -0.0464 REMARK 3 T13: -0.0195 T23: 0.0097 REMARK 3 L TENSOR REMARK 3 L11: 6.6626 L22: 2.2530 REMARK 3 L33: 3.2549 L12: 1.9962 REMARK 3 L13: 4.5019 L23: 1.9518 REMARK 3 S TENSOR REMARK 3 S11: 0.3007 S12: -1.1390 S13: -0.2114 REMARK 3 S21: 0.9749 S22: -0.1680 S23: 0.0597 REMARK 3 S31: 0.2743 S32: -0.3642 S33: -0.1356 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 274:287) REMARK 3 ORIGIN FOR THE GROUP (A): -18.7756 0.4886 28.5411 REMARK 3 T TENSOR REMARK 3 T11: 0.2761 T22: 0.3285 REMARK 3 T33: 0.3252 T12: -0.0221 REMARK 3 T13: -0.0139 T23: 0.0029 REMARK 3 L TENSOR REMARK 3 L11: 1.9782 L22: 2.0079 REMARK 3 L33: 0.1867 L12: 1.7362 REMARK 3 L13: 0.0969 L23: 0.3995 REMARK 3 S TENSOR REMARK 3 S11: -0.0294 S12: -0.1305 S13: -0.0961 REMARK 3 S21: -0.2739 S22: 0.1893 S23: 0.6616 REMARK 3 S31: -0.0664 S32: -0.0375 S33: -0.1678 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN A AND RESID 288:313) REMARK 3 ORIGIN FOR THE GROUP (A): -39.8272 16.4691 34.2070 REMARK 3 T TENSOR REMARK 3 T11: 0.3339 T22: 0.4391 REMARK 3 T33: 0.4396 T12: 0.0201 REMARK 3 T13: 0.0130 T23: 0.1899 REMARK 3 L TENSOR REMARK 3 L11: 8.0523 L22: 7.9866 REMARK 3 L33: 4.6016 L12: -3.6975 REMARK 3 L13: -4.1980 L23: 3.0446 REMARK 3 S TENSOR REMARK 3 S11: -0.4733 S12: -0.9189 S13: -0.7327 REMARK 3 S21: 0.9815 S22: 0.4066 S23: 0.7398 REMARK 3 S31: 0.4462 S32: 0.2257 S33: 0.1840 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN A AND RESID 314:375) REMARK 3 ORIGIN FOR THE GROUP (A): -37.0689 22.8362 18.7155 REMARK 3 T TENSOR REMARK 3 T11: 0.2390 T22: 0.2488 REMARK 3 T33: 0.3148 T12: 0.0387 REMARK 3 T13: -0.0658 T23: 0.0279 REMARK 3 L TENSOR REMARK 3 L11: 5.3589 L22: 4.5449 REMARK 3 L33: 4.7744 L12: 1.7704 REMARK 3 L13: -1.5652 L23: -1.7253 REMARK 3 S TENSOR REMARK 3 S11: -0.0792 S12: 0.1895 S13: -0.2762 REMARK 3 S21: -0.2269 S22: 0.1863 S23: 0.4387 REMARK 3 S31: 0.2504 S32: -0.4642 S33: -0.0996 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN A AND RESID 376:385) REMARK 3 ORIGIN FOR THE GROUP (A): -34.6737 41.5912 23.6614 REMARK 3 T TENSOR REMARK 3 T11: 0.5196 T22: 0.3781 REMARK 3 T33: 0.3981 T12: 0.0565 REMARK 3 T13: 0.0257 T23: 0.0749 REMARK 3 L TENSOR REMARK 3 L11: 3.7407 L22: 7.6680 REMARK 3 L33: 9.7675 L12: -2.1481 REMARK 3 L13: -5.4061 L23: 6.6911 REMARK 3 S TENSOR REMARK 3 S11: 0.5414 S12: 0.0853 S13: 0.4184 REMARK 3 S21: -0.4613 S22: -0.3220 S23: 0.3977 REMARK 3 S31: -1.2497 S32: -0.4267 S33: -0.3608 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 7P57 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-JUL-21. REMARK 100 THE DEPOSITION ID IS D_1292117011. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-OCT-19 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 : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : POINTLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36675 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.961 REMARK 200 RESOLUTION RANGE LOW (A) : 48.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 19.70 REMARK 200 R MERGE (I) : 0.09816 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.2700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.96 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.89340 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.840 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: 1VSG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS PH 8.0, 39% PEG400, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 295K 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 54.20900 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 48.00750 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 48.00750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 27.10450 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 48.00750 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 48.00750 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 81.31350 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 48.00750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 48.00750 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 27.10450 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 48.00750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 48.00750 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 81.31350 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 54.20900 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27430 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 350 BIOMT1 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 54.20900 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 A 573 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 MET A 1 REMARK 465 PRO A 2 REMARK 465 SER A 3 REMARK 465 ASN A 4 REMARK 465 GLN A 5 REMARK 465 GLU A 6 REMARK 465 ALA A 7 REMARK 465 ARG A 8 REMARK 465 LEU A 9 REMARK 465 PHE A 10 REMARK 465 LEU A 11 REMARK 465 ALA A 12 REMARK 465 VAL A 13 REMARK 465 LEU A 14 REMARK 465 VAL A 15 REMARK 465 LEU A 16 REMARK 465 ALA A 17 REMARK 465 GLN A 18 REMARK 465 VAL A 19 REMARK 465 LEU A 20 REMARK 465 PRO A 21 REMARK 465 ILE A 22 REMARK 465 LEU A 23 REMARK 465 VAL A 24 REMARK 465 ASP A 25 REMARK 465 SER A 26 REMARK 465 VAL A 386 REMARK 465 LEU A 387 REMARK 465 THR A 388 REMARK 465 GLN A 389 REMARK 465 LYS A 390 REMARK 465 HIS A 391 REMARK 465 LYS A 392 REMARK 465 PRO A 393 REMARK 465 ALA A 394 REMARK 465 GLU A 395 REMARK 465 SER A 396 REMARK 465 GLN A 397 REMARK 465 GLN A 398 REMARK 465 GLN A 399 REMARK 465 ALA A 400 REMARK 465 ALA A 401 REMARK 465 GLU A 402 REMARK 465 THR A 403 REMARK 465 GLU A 404 REMARK 465 GLY A 405 REMARK 465 SER A 406 REMARK 465 CYS A 407 REMARK 465 ASN A 408 REMARK 465 LYS A 409 REMARK 465 LYS A 410 REMARK 465 ASP A 411 REMARK 465 GLN A 412 REMARK 465 ASN A 413 REMARK 465 GLU A 414 REMARK 465 CYS A 415 REMARK 465 LYS A 416 REMARK 465 SER A 417 REMARK 465 PRO A 418 REMARK 465 CYS A 419 REMARK 465 LYS A 420 REMARK 465 TRP A 421 REMARK 465 HIS A 422 REMARK 465 ASN A 423 REMARK 465 ASP A 424 REMARK 465 ALA A 425 REMARK 465 GLU A 426 REMARK 465 ASN A 427 REMARK 465 LYS A 428 REMARK 465 LYS A 429 REMARK 465 CYS A 430 REMARK 465 THR A 431 REMARK 465 LEU A 432 REMARK 465 ASP A 433 REMARK 465 LYS A 434 REMARK 465 GLU A 435 REMARK 465 GLU A 436 REMARK 465 ALA A 437 REMARK 465 LYS A 438 REMARK 465 LYS A 439 REMARK 465 VAL A 440 REMARK 465 ALA A 441 REMARK 465 ASP A 442 REMARK 465 GLU A 443 REMARK 465 THR A 444 REMARK 465 ALA A 445 REMARK 465 LYS A 446 REMARK 465 ASP A 447 REMARK 465 GLY A 448 REMARK 465 LYS A 449 REMARK 465 THR A 450 REMARK 465 GLY A 451 REMARK 465 ASN A 452 REMARK 465 THR A 453 REMARK 465 ASN A 454 REMARK 465 THR A 455 REMARK 465 THR A 456 REMARK 465 GLY A 457 REMARK 465 SER A 458 REMARK 465 SER A 459 REMARK 465 ASN A 460 REMARK 465 SER A 461 REMARK 465 PHE A 462 REMARK 465 VAL A 463 REMARK 465 ILE A 464 REMARK 465 SER A 465 REMARK 465 LYS A 466 REMARK 465 THR A 467 REMARK 465 PRO A 468 REMARK 465 LEU A 469 REMARK 465 TRP A 470 REMARK 465 LEU A 471 REMARK 465 ALA A 472 REMARK 465 VAL A 473 REMARK 465 LEU A 474 REMARK 465 LEU A 475 REMARK 465 PHE A 476 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 LYS A 312 CG CD CE NZ REMARK 470 ASP A 313 CG OD1 OD2 REMARK 470 GLU A 315 CG CD OE1 OE2 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 289 O5 NAG B 1 2.18 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 THR A 112 -54.25 -130.40 REMARK 500 CYS A 171 75.78 -170.46 REMARK 500 THR A 186 -58.07 -133.23 REMARK 500 LEU A 196 71.51 -101.14 REMARK 500 CYS A 213 104.23 -166.68 REMARK 500 LYS A 226 -77.49 -98.29 REMARK 500 ASP A 313 61.97 60.91 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 739 DISTANCE = 6.00 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1VSG RELATED DB: PDB REMARK 900 OLDER VSG2WT STRUCTURE REMARK 900 RELATED ID: 7P59 RELATED DB: PDB REMARK 900 RELATED ID: 7P56 RELATED DB: PDB REMARK 900 RELATED ID: 7P5D RELATED DB: PDB REMARK 900 RELATED ID: 7P5B RELATED DB: PDB REMARK 900 RELATED ID: 7P5A RELATED DB: PDB DBREF 7P57 A 1 476 UNP P26332 VSM2_TRYBB 1 476 SEQADV 7P57 ALA A 208 UNP P26332 ASP 208 ENGINEERED MUTATION SEQADV 7P57 ALA A 209 UNP P26332 ASN 209 ENGINEERED MUTATION SEQADV 7P57 ALA A 210 UNP P26332 ASP 210 ENGINEERED MUTATION SEQRES 1 A 476 MET PRO SER ASN GLN GLU ALA ARG LEU PHE LEU ALA VAL SEQRES 2 A 476 LEU VAL LEU ALA GLN VAL LEU PRO ILE LEU VAL ASP SER SEQRES 3 A 476 ALA ALA GLU LYS GLY PHE LYS GLN ALA PHE TRP GLN PRO SEQRES 4 A 476 LEU CYS GLN VAL SER GLU GLU LEU ASP ASP GLN PRO LYS SEQRES 5 A 476 GLY ALA LEU PHE THR LEU GLN ALA ALA ALA SER LYS ILE SEQRES 6 A 476 GLN LYS MET ARG ASP ALA ALA LEU ARG ALA SER ILE TYR SEQRES 7 A 476 ALA GLU ILE ASN HIS GLY THR ASN ARG ALA LYS ALA ALA SEQRES 8 A 476 VAL ILE VAL ALA ASN HIS TYR ALA MET LYS ALA ASP SER SEQRES 9 A 476 GLY LEU GLU ALA LEU LYS GLN THR LEU SER SER GLN GLU SEQRES 10 A 476 VAL THR ALA THR ALA THR ALA SER TYR LEU LYS GLY ARG SEQRES 11 A 476 ILE ASP GLU TYR LEU ASN LEU LEU LEU GLN THR LYS GLU SEQRES 12 A 476 SER GLY THR SER GLY CYS MET MET ASP THR SER GLY THR SEQRES 13 A 476 ASN THR VAL THR LYS ALA GLY GLY THR ILE GLY GLY VAL SEQRES 14 A 476 PRO CYS LYS LEU GLN LEU SER PRO ILE GLN PRO LYS ARG SEQRES 15 A 476 PRO ALA ALA THR TYR LEU GLY LYS ALA GLY TYR VAL GLY SEQRES 16 A 476 LEU THR ARG GLN ALA ASP ALA ALA ASN ASN PHE HIS ALA SEQRES 17 A 476 ALA ALA ALA GLU CYS ARG LEU ALA SER GLY HIS ASN THR SEQRES 18 A 476 ASN GLY LEU GLY LYS SER GLY GLN LEU SER ALA ALA VAL SEQRES 19 A 476 THR MET ALA ALA GLY TYR VAL THR VAL ALA ASN SER GLN SEQRES 20 A 476 THR ALA VAL THR VAL GLN ALA LEU ASP ALA LEU GLN GLU SEQRES 21 A 476 ALA SER GLY ALA ALA HIS GLN PRO TRP ILE ASP ALA TRP SEQRES 22 A 476 LYS ALA LYS LYS ALA LEU THR GLY ALA GLU THR ALA GLU SEQRES 23 A 476 PHE ARG ASN GLU THR ALA GLY ILE ALA GLY LYS THR GLY SEQRES 24 A 476 VAL THR LYS LEU VAL GLU GLU ALA LEU LEU LYS LYS LYS SEQRES 25 A 476 ASP SER GLU ALA SER GLU ILE GLN THR GLU LEU LYS LYS SEQRES 26 A 476 TYR PHE SER GLY HIS GLU ASN GLU GLN TRP THR ALA ILE SEQRES 27 A 476 GLU LYS LEU ILE SER GLU GLN PRO VAL ALA GLN ASN LEU SEQRES 28 A 476 VAL GLY ASP ASN GLN PRO THR LYS LEU GLY GLU LEU GLU SEQRES 29 A 476 GLY ASN ALA LYS LEU THR THR ILE LEU ALA TYR TYR ARG SEQRES 30 A 476 MET GLU THR ALA GLY LYS PHE GLU VAL LEU THR GLN LYS SEQRES 31 A 476 HIS LYS PRO ALA GLU SER GLN GLN GLN ALA ALA GLU THR SEQRES 32 A 476 GLU GLY SER CYS ASN LYS LYS ASP GLN ASN GLU CYS LYS SEQRES 33 A 476 SER PRO CYS LYS TRP HIS ASN ASP ALA GLU ASN LYS LYS SEQRES 34 A 476 CYS THR LEU ASP LYS GLU GLU ALA LYS LYS VAL ALA ASP SEQRES 35 A 476 GLU THR ALA LYS ASP GLY LYS THR GLY ASN THR ASN THR SEQRES 36 A 476 THR GLY SER SER ASN SER PHE VAL ILE SER LYS THR PRO SEQRES 37 A 476 LEU TRP LEU ALA VAL LEU LEU PHE HET NAG B 1 14 HET NAG B 2 14 HET BMA B 3 11 HET MAN B 4 11 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-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 HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 2 NAG 2(C8 H15 N O6) FORMUL 2 BMA C6 H12 O6 FORMUL 2 MAN C6 H12 O6 FORMUL 3 HOH *239(H2 O) HELIX 1 AA1 LYS A 33 ASP A 48 1 16 HELIX 2 AA2 ASP A 49 ASN A 82 1 34 HELIX 3 AA3 THR A 85 THR A 112 1 28 HELIX 4 AA4 THR A 112 THR A 141 1 30 HELIX 5 AA5 ASP A 201 PHE A 206 1 6 HELIX 6 AA6 ARG A 214 SER A 217 5 4 HELIX 7 AA7 HIS A 266 ALA A 278 1 13 HELIX 8 AA8 THR A 284 ARG A 288 5 5 HELIX 9 AA9 GLY A 293 LYS A 297 5 5 HELIX 10 AB1 GLY A 299 LEU A 308 1 10 HELIX 11 AB2 GLU A 315 SER A 328 1 14 HELIX 12 AB3 GLU A 331 GLN A 345 1 15 HELIX 13 AB4 ALA A 348 VAL A 352 5 5 HELIX 14 AB5 LYS A 359 LEU A 363 5 5 HELIX 15 AB6 GLY A 365 GLU A 385 1 21 SHEET 1 AA1 2 LYS A 30 PHE A 32 0 SHEET 2 AA1 2 HIS A 207 GLU A 212 -1 O ALA A 208 N GLY A 31 SHEET 1 AA2 3 LYS A 161 ALA A 162 0 SHEET 2 AA2 3 THR A 165 ILE A 166 -1 O THR A 165 N ALA A 162 SHEET 3 AA2 3 VAL A 169 PRO A 170 -1 O VAL A 169 N ILE A 166 SHEET 1 AA3 3 VAL A 234 MET A 236 0 SHEET 2 AA3 3 VAL A 241 VAL A 243 -1 O VAL A 243 N VAL A 234 SHEET 3 AA3 3 THR A 251 VAL A 252 -1 O THR A 251 N THR A 242 SSBOND 1 CYS A 41 CYS A 171 1555 1555 2.08 SSBOND 2 CYS A 149 CYS A 213 1555 1555 2.05 LINK ND2 ASN A 289 C1 NAG B 1 1555 1555 1.43 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.46 LINK O4 NAG B 2 C1 BMA B 3 1555 1555 1.43 LINK O3 BMA B 3 C1 MAN B 4 1555 1555 1.45 CRYST1 96.015 96.015 108.418 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 0.010415 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010415 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009224 0.00000