HEADER VIRAL PROTEIN 29-SEP-06 2J6J OBSLTE 02-MAR-16 2J6J 5I2S TITLE PREFUSION FORM OF THE VESICULAR STOMATITIS VIRUS TITLE 2 GLYCOPROTEIN G ECTODOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPIKE GLYCOPROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ECTODOMAIN, RESIDUES 17-438; COMPND 5 SYNONYM: VSV GLYCOPROTEIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VESICULAR STOMATITIS INDIANA VIRUS; SOURCE 3 ORGANISM_COMMON: VSIV; SOURCE 4 ORGANISM_TAXID: 11277; SOURCE 5 STRAIN: MUDD-SUMMERS KEYWDS VIRION PROTEIN, MEMBRANE PROTEIN, ENVELOPE PROTEIN, TRANSMEMBRANE KEYWDS 2 FUSION, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.ROCHE,F.A.REY,S.BRESSANELLI REVDAT 5 02-MAR-16 2J6J 1 OBSLTE REVDAT 4 13-JUL-11 2J6J 1 VERSN REVDAT 3 24-FEB-09 2J6J 1 VERSN REVDAT 2 20-FEB-07 2J6J 1 JRNL REVDAT 1 06-FEB-07 2J6J 0 JRNL AUTH S.ROCHE,F.A.REY,Y.GAUDIN,S.BRESSANELLI JRNL TITL STRUCTURE OF THE PREFUSION FORM OF THE VESICULAR STOMATITIS JRNL TITL 2 VIRUS GLYCOPROTEIN G. JRNL REF SCIENCE V. 315 843 2007 JRNL REFN ISSN 0036-8075 JRNL PMID 17289996 JRNL DOI 10.1126/SCIENCE.1135710 REMARK 2 REMARK 2 RESOLUTION. 3.0 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 14.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 16107 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.282 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.160 REMARK 3 FREE R VALUE TEST SET COUNT : 816 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1028 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.324 REMARK 3 BIN FREE R VALUE SET COUNT : 62 REMARK 3 BIN FREE R VALUE : 0.406 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3263 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 44.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.78 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.06400 REMARK 3 B22 (A**2) : -0.06400 REMARK 3 B33 (A**2) : 0.09600 REMARK 3 B12 (A**2) : -0.03200 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.852 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.401 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.315 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 38.394 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.913 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.867 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3413 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4654 ; 1.271 ; 1.946 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 412 ; 6.010 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 150 ;35.625 ;24.267 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 534 ;18.265 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;12.008 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 499 ; 0.081 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2601 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1412 ; 0.217 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2327 ; 0.314 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 96 ; 0.160 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 36 ; 0.231 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 2 ; 0.184 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2101 ; 0.400 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3343 ; 0.729 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1521 ; 1.002 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1311 ; 1.752 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 11 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 17 REMARK 3 RESIDUE RANGE : A 310 A 382 REMARK 3 RESIDUE RANGE : A 1416 A 1416 REMARK 3 ORIGIN FOR THE GROUP (A): 4.5220 45.0560 58.9570 REMARK 3 T TENSOR REMARK 3 T11: -0.2065 T22: -0.2535 REMARK 3 T33: -0.0574 T12: 0.0215 REMARK 3 T13: 0.0617 T23: -0.0042 REMARK 3 L TENSOR REMARK 3 L11: 8.3644 L22: 2.4969 REMARK 3 L33: 2.2589 L12: 0.4340 REMARK 3 L13: 0.0434 L23: -1.7365 REMARK 3 S TENSOR REMARK 3 S11: -0.1795 S12: -0.1481 S13: -0.9513 REMARK 3 S21: -0.1490 S22: 0.0739 S23: -0.2547 REMARK 3 S31: 0.3937 S32: 0.3157 S33: 0.1056 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 36 A 46 REMARK 3 RESIDUE RANGE : A 181 A 258 REMARK 3 RESIDUE RANGE : A 1418 A 1418 REMARK 3 ORIGIN FOR THE GROUP (A): -13.8040 46.2380 83.4450 REMARK 3 T TENSOR REMARK 3 T11: -0.2318 T22: -0.0336 REMARK 3 T33: -0.2400 T12: -0.0063 REMARK 3 T13: 0.0403 T23: 0.0841 REMARK 3 L TENSOR REMARK 3 L11: 6.9669 L22: 3.9215 REMARK 3 L33: 4.7886 L12: 2.9311 REMARK 3 L13: -1.5156 L23: -0.5497 REMARK 3 S TENSOR REMARK 3 S11: 0.0600 S12: -0.3458 S13: -0.0650 REMARK 3 S21: 0.1206 S22: -0.1968 S23: 0.0838 REMARK 3 S31: -0.0092 S32: 0.0510 S33: 0.1367 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 53 A 59 REMARK 3 RESIDUE RANGE : A 130 A 172 REMARK 3 RESIDUE RANGE : A 1414 A 1415 REMARK 3 ORIGIN FOR THE GROUP (A): -18.5070 41.5350 53.8210 REMARK 3 T TENSOR REMARK 3 T11: -0.2752 T22: -0.1954 REMARK 3 T33: -0.0194 T12: -0.0588 REMARK 3 T13: 0.1659 T23: -0.0615 REMARK 3 L TENSOR REMARK 3 L11: 5.3115 L22: 3.0613 REMARK 3 L33: 16.3958 L12: 0.8164 REMARK 3 L13: 2.0558 L23: 2.6920 REMARK 3 S TENSOR REMARK 3 S11: -0.1465 S12: 0.4304 S13: -0.1156 REMARK 3 S21: -0.1920 S22: 0.1201 S23: -0.2360 REMARK 3 S31: 0.1108 S32: -0.6699 S33: 0.0264 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 60 A 129 REMARK 3 ORIGIN FOR THE GROUP (A): -20.5850 41.9350 26.3730 REMARK 3 T TENSOR REMARK 3 T11: 0.8278 T22: 0.8555 REMARK 3 T33: 0.1364 T12: -0.0347 REMARK 3 T13: 0.0735 T23: -0.1886 REMARK 3 L TENSOR REMARK 3 L11: 2.7695 L22: 3.3206 REMARK 3 L33: 16.4596 L12: -1.1387 REMARK 3 L13: 1.0138 L23: -4.7562 REMARK 3 S TENSOR REMARK 3 S11: 0.2405 S12: 1.3267 S13: 0.1986 REMARK 3 S21: -1.8580 S22: -0.3152 S23: 0.2564 REMARK 3 S31: 0.2657 S32: -0.6856 S33: 0.0748 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 18 A 25 REMARK 3 RESIDUE RANGE : A 274 A 309 REMARK 3 RESIDUE RANGE : A 1417 A 1417 REMARK 3 ORIGIN FOR THE GROUP (A): -4.1960 59.2490 54.7210 REMARK 3 T TENSOR REMARK 3 T11: -0.2576 T22: -0.1723 REMARK 3 T33: -0.2184 T12: 0.0229 REMARK 3 T13: 0.0245 T23: -0.0250 REMARK 3 L TENSOR REMARK 3 L11: 4.6309 L22: 4.4556 REMARK 3 L33: 1.5791 L12: 0.5736 REMARK 3 L13: -2.6122 L23: -0.3281 REMARK 3 S TENSOR REMARK 3 S11: -0.2369 S12: 0.3096 S13: 0.0153 REMARK 3 S21: -0.3036 S22: -0.0257 S23: 0.1810 REMARK 3 S31: -0.2653 S32: -0.0075 S33: 0.2627 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 47 A 52 REMARK 3 ORIGIN FOR THE GROUP (A): -10.5030 34.3780 67.4980 REMARK 3 T TENSOR REMARK 3 T11: 0.4790 T22: 0.1104 REMARK 3 T33: 0.2411 T12: 0.0818 REMARK 3 T13: 0.0488 T23: 0.1681 REMARK 3 L TENSOR REMARK 3 L11: 10.4005 L22: 31.6853 REMARK 3 L33: 0.0000 L12: 9.0721 REMARK 3 L13: 7.0820 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 1.8714 S12: -0.1090 S13: -2.7519 REMARK 3 S21: 2.3435 S22: -0.4167 S23: 0.1112 REMARK 3 S31: 2.3020 S32: 4.0302 S33: -1.4548 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 173 A 180 REMARK 3 ORIGIN FOR THE GROUP (A): -18.3310 29.2830 70.4510 REMARK 3 T TENSOR REMARK 3 T11: 0.8682 T22: 0.2711 REMARK 3 T33: 0.8408 T12: -0.1229 REMARK 3 T13: -0.1230 T23: -0.1325 REMARK 3 L TENSOR REMARK 3 L11: 0.0001 L22: 0.1427 REMARK 3 L33: 11.8977 L12: 0.0039 REMARK 3 L13: 0.0359 L23: 1.3029 REMARK 3 S TENSOR REMARK 3 S11: 0.6546 S12: 0.7370 S13: -2.8995 REMARK 3 S21: -0.6467 S22: -0.4854 S23: 0.3820 REMARK 3 S31: 2.5761 S32: 0.3221 S33: -0.1691 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 259 A 273 REMARK 3 ORIGIN FOR THE GROUP (A): -12.5530 54.8500 70.0950 REMARK 3 T TENSOR REMARK 3 T11: -0.0907 T22: -0.1738 REMARK 3 T33: -0.1459 T12: 0.0778 REMARK 3 T13: 0.0310 T23: -0.0111 REMARK 3 L TENSOR REMARK 3 L11: 4.0441 L22: 0.0032 REMARK 3 L33: 5.3261 L12: 0.0323 REMARK 3 L13: 4.5601 L23: 0.0598 REMARK 3 S TENSOR REMARK 3 S11: 0.3984 S12: -0.5032 S13: -0.0470 REMARK 3 S21: -0.1093 S22: -0.6037 S23: 0.1959 REMARK 3 S31: -0.1201 S32: 0.1202 S33: 0.2052 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 26 A 35 REMARK 3 ORIGIN FOR THE GROUP (A): -3.2140 58.5620 75.2850 REMARK 3 T TENSOR REMARK 3 T11: -0.2028 T22: -0.0501 REMARK 3 T33: -0.1837 T12: -0.1074 REMARK 3 T13: 0.0838 T23: -0.0856 REMARK 3 L TENSOR REMARK 3 L11: 4.7918 L22: 5.1914 REMARK 3 L33: 21.5596 L12: -0.9969 REMARK 3 L13: -3.5976 L23: -8.9465 REMARK 3 S TENSOR REMARK 3 S11: 0.4242 S12: -0.3171 S13: 1.0690 REMARK 3 S21: 0.4128 S22: -0.7068 S23: -0.8807 REMARK 3 S31: -0.1478 S32: 1.0769 S33: 0.2827 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 383 A 405 REMARK 3 ORIGIN FOR THE GROUP (A): 8.6100 56.8130 52.2240 REMARK 3 T TENSOR REMARK 3 T11: -0.1841 T22: -0.1444 REMARK 3 T33: -0.0451 T12: 0.0617 REMARK 3 T13: -0.0051 T23: 0.0209 REMARK 3 L TENSOR REMARK 3 L11: 9.9677 L22: 2.5921 REMARK 3 L33: 4.6059 L12: 3.2529 REMARK 3 L13: 3.5724 L23: 3.3429 REMARK 3 S TENSOR REMARK 3 S11: -0.2631 S12: 0.6874 S13: -0.1558 REMARK 3 S21: -0.2444 S22: 0.2044 S23: 0.0845 REMARK 3 S31: 0.1856 S32: 0.1191 S33: 0.0588 REMARK 3 REMARK 3 TLS GROUP : 11 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 406 A 413 REMARK 3 ORIGIN FOR THE GROUP (A): -11.4980 47.0770 36.3190 REMARK 3 T TENSOR REMARK 3 T11: 0.9054 T22: 0.9646 REMARK 3 T33: 0.2623 T12: -0.2065 REMARK 3 T13: -0.3062 T23: 0.2394 REMARK 3 L TENSOR REMARK 3 L11: 46.4202 L22: 98.1051 REMARK 3 L33: 0.0000 L12: 62.6625 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: -0.4319 S12: -2.4902 S13: -2.8498 REMARK 3 S21: -1.6643 S22: 0.0728 S23: -0.2232 REMARK 3 S31: -1.2136 S32: -0.0320 S33: 0.3591 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL PLUS MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. RESIDUES 63 TO 81 AND 111 TO 122 WERE REMARK 3 MODELLED AFTER PDB ENTRY 2CMZ, WITH MINIMAL REFINEMENT. REMARK 4 REMARK 4 2J6J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-SEP-06. REMARK 100 THE PDBE ID CODE IS EBI-30114. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JAN-05 REMARK 200 TEMPERATURE (KELVIN) : 120.0 REMARK 200 PH : 8.70 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.3861 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29096 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.0 REMARK 200 RESOLUTION RANGE LOW (A) : 45.0 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 2.0 REMARK 200 R MERGE (I) : 0.110 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.6 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.6 REMARK 200 DATA REDUNDANCY IN SHELL : 1.90 REMARK 200 R MERGE FOR SHELL (I) : 0.50 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.7 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: PDB ENTRY 2CMZ REMARK 200 REMARK 200 REMARK: STATISTICS ARE FOR PROCESSING WITH FRIEDEL MATES KEPT REMARK 200 SEPARATE. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.8 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS PH 8.7, NANO3 0.4M, REMARK 280 PEG 4000 24%. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 6 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z REMARK 290 6555 X-Y,X,Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 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 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 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: 6480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 56650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.8 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 -0.500000 0.866025 0.000000 -60.25500 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 104.36472 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 -0.866025 0.000000 60.25500 REMARK 350 BIOMT2 3 0.866025 -0.500000 0.000000 104.36472 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 YB YB A1417 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 ALA A 414 REMARK 465 SER A 415 REMARK 465 GLN A 416 REMARK 465 LEU A 417 REMARK 465 PRO A 418 REMARK 465 ASP A 419 REMARK 465 ASP A 420 REMARK 465 GLU A 421 REMARK 465 SER A 422 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 ASN A 13 70.16 -116.47 REMARK 500 ASN A 34 -122.02 58.21 REMARK 500 PRO A 75 126.31 -38.71 REMARK 500 PRO A 107 13.93 -67.87 REMARK 500 ASN A 150 8.68 56.43 REMARK 500 LYS A 174 -172.17 -63.25 REMARK 500 MET A 184 157.66 178.85 REMARK 500 ASN A 208 2.13 -68.63 REMARK 500 LYS A 225 -8.14 73.58 REMARK 500 PRO A 254 158.30 -46.10 REMARK 500 ASN A 320 -116.94 46.66 REMARK 500 TRP A 357 137.28 -170.16 REMARK 500 ASP A 358 43.32 -142.94 REMARK 500 GLU A 364 71.96 46.28 REMARK 500 ASP A 365 21.81 49.74 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 YB A1417 YB REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 286 OE1 REMARK 620 2 GLU A 286 OE1 119.8 REMARK 620 3 GLU A 286 OE2 48.3 151.6 REMARK 620 4 GLU A 286 OE2 84.1 48.3 103.5 REMARK 620 5 GLU A 286 OE1 119.2 119.1 83.5 151.0 REMARK 620 6 GLU A 286 OE2 151.1 83.8 102.9 103.3 48.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 YB A1418 YB REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 191 OE1 REMARK 620 2 GLU A 191 OE1 138.3 REMARK 620 N 1 REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAG A1416 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE YB A1417 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE YB A1418 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A REMARK 800 163 RESIDUES 1414 TO 1415 DBREF 2J6J A 1 422 UNP P03522 VGLG_VSVSJ 17 438 SEQRES 1 A 422 LYS PHE THR ILE VAL PHE PRO HIS ASN GLN LYS GLY ASN SEQRES 2 A 422 TRP LYS ASN VAL PRO SER ASN TYR HIS TYR CYS PRO SER SEQRES 3 A 422 SER SER ASP LEU ASN TRP HIS ASN ASP LEU ILE GLY THR SEQRES 4 A 422 ALA ILE GLN VAL LYS MET PRO LYS SER HIS LYS ALA ILE SEQRES 5 A 422 GLN ALA ASP GLY TRP MET CYS HIS ALA SER LYS TRP VAL SEQRES 6 A 422 THR THR CYS ASP PHE ARG TRP TYR GLY PRO LYS TYR ILE SEQRES 7 A 422 THR GLN SER ILE ARG SER PHE THR PRO SER VAL GLU GLN SEQRES 8 A 422 CYS LYS GLU SER ILE GLU GLN THR LYS GLN GLY THR TRP SEQRES 9 A 422 LEU ASN PRO GLY PHE PRO PRO GLN SER CYS GLY TYR ALA SEQRES 10 A 422 THR VAL THR ASP ALA GLU ALA VAL ILE VAL GLN VAL THR SEQRES 11 A 422 PRO HIS HIS VAL LEU VAL ASP GLU TYR THR GLY GLU TRP SEQRES 12 A 422 VAL ASP SER GLN PHE ILE ASN GLY LYS CYS SER ASN TYR SEQRES 13 A 422 ILE CYS PRO THR VAL HIS ASN SER THR THR TRP HIS SER SEQRES 14 A 422 ASP TYR LYS VAL LYS GLY LEU CYS ASP SER ASN LEU ILE SEQRES 15 A 422 SER MET ASP ILE THR PHE PHE SER GLU ASP GLY GLU LEU SEQRES 16 A 422 SER SER LEU GLY LYS GLU GLY THR GLY PHE ARG SER ASN SEQRES 17 A 422 TYR PHE ALA TYR GLU THR GLY GLY LYS ALA CYS LYS MET SEQRES 18 A 422 GLN TYR CYS LYS HIS TRP GLY VAL ARG LEU PRO SER GLY SEQRES 19 A 422 VAL TRP PHE GLU MET ALA ASP LYS ASP LEU PHE ALA ALA SEQRES 20 A 422 ALA ARG PHE PRO GLU CYS PRO GLU GLY SER SER ILE SER SEQRES 21 A 422 ALA PRO SER GLN THR SER VAL ASP VAL SER LEU ILE GLN SEQRES 22 A 422 ASP VAL GLU ARG ILE LEU ASP TYR SER LEU CYS GLN GLU SEQRES 23 A 422 THR TRP SER LYS ILE ARG ALA GLY LEU PRO ILE SER PRO SEQRES 24 A 422 VAL ASP LEU SER TYR LEU ALA PRO LYS ASN PRO GLY THR SEQRES 25 A 422 GLY PRO ALA PHE THR ILE ILE ASN GLY THR LEU LYS TYR SEQRES 26 A 422 PHE GLU THR ARG TYR ILE ARG VAL ASP ILE ALA ALA PRO SEQRES 27 A 422 ILE LEU SER ARG MET VAL GLY MET ILE SER GLY THR THR SEQRES 28 A 422 THR GLU ARG GLU LEU TRP ASP ASP TRP ALA PRO TYR GLU SEQRES 29 A 422 ASP VAL GLU ILE GLY PRO ASN GLY VAL LEU ARG THR SER SEQRES 30 A 422 SER GLY TYR LYS PHE PRO LEU TYR MET ILE GLY HIS GLY SEQRES 31 A 422 MET LEU ASP SER ASP LEU HIS LEU SER SER LYS ALA GLN SEQRES 32 A 422 VAL PHE GLU HIS PRO HIS ILE GLN ASP ALA ALA SER GLN SEQRES 33 A 422 LEU PRO ASP ASP GLU SER HET NAG A1414 14 HET NAG A1415 14 HET NAG A1416 14 HET YB A1417 1 HET YB A1418 1 HETNAM NAG N-ACETYL-D-GLUCOSAMINE HETNAM YB YTTERBIUM (III) ION HETSYN NAG NAG FORMUL 2 NAG 3(C8 H15 N O6) FORMUL 3 YB 2(YB 3+) HELIX 1 1 SER A 88 GLN A 101 1 14 HELIX 2 2 GLU A 194 LEU A 198 5 5 HELIX 3 3 ASP A 241 ARG A 249 1 9 HELIX 4 4 ASP A 268 ILE A 272 5 5 HELIX 5 5 GLN A 273 ALA A 293 1 21 HELIX 6 6 SER A 298 TYR A 304 1 7 HELIX 7 7 PRO A 370 GLY A 372 5 3 HELIX 8 8 PHE A 382 ILE A 387 1 6 HELIX 9 9 HIS A 407 ASP A 412 5 6 SHEET 1 AA 3 PHE A 2 PRO A 7 0 SHEET 2 AA 3 THR A 322 ILE A 335 -1 O ILE A 331 N PHE A 6 SHEET 3 AA 3 LYS A 15 ASN A 16 -1 O LYS A 15 N TYR A 325 SHEET 1 AB 3 PHE A 2 PRO A 7 0 SHEET 2 AB 3 THR A 322 ILE A 335 -1 O ILE A 331 N PHE A 6 SHEET 3 AB 3 GLY A 311 ILE A 319 -1 O GLY A 311 N TYR A 330 SHEET 1 AC 7 PHE A 210 GLU A 213 0 SHEET 2 AC 7 GLY A 204 SER A 207 -1 O PHE A 205 N GLU A 213 SHEET 3 AC 7 ILE A 182 PHE A 189 -1 O THR A 187 N ARG A 206 SHEET 4 AC 7 ALA A 40 MET A 45 -1 O ILE A 41 N ILE A 186 SHEET 5 AC 7 TRP A 236 MET A 239 -1 O GLU A 238 N LYS A 44 SHEET 6 AC 7 HIS A 226 ARG A 230 -1 O VAL A 229 N PHE A 237 SHEET 7 AC 7 CYS A 219 TYR A 223 -1 O CYS A 219 N ARG A 230 SHEET 1 AD 4 GLN A 53 ALA A 54 0 SHEET 2 AD 4 VAL A 134 VAL A 136 -1 O VAL A 134 N ALA A 54 SHEET 3 AD 4 TRP A 143 VAL A 144 -1 O VAL A 144 N LEU A 135 SHEET 4 AD 4 LYS A 152 CYS A 153 -1 O CYS A 153 N TRP A 143 SHEET 1 AE 4 LYS A 76 PHE A 85 0 SHEET 2 AE 4 GLY A 56 PHE A 70 -1 O ALA A 61 N PHE A 85 SHEET 3 AE 4 THR A 166 SER A 169 -1 O THR A 166 N CYS A 59 SHEET 4 AE 4 ILE A 157 PRO A 159 -1 O CYS A 158 N TRP A 167 SHEET 1 AF 3 LYS A 76 PHE A 85 0 SHEET 2 AF 3 GLY A 56 PHE A 70 -1 O ALA A 61 N PHE A 85 SHEET 3 AF 3 VAL A 119 PRO A 131 -1 O THR A 120 N CYS A 68 SHEET 1 AG 5 ILE A 339 LEU A 340 0 SHEET 2 AG 5 GLY A 379 LYS A 381 -1 O TYR A 380 N LEU A 340 SHEET 3 AG 5 LEU A 374 THR A 376 -1 O LEU A 374 N LYS A 381 SHEET 4 AG 5 VAL A 366 ILE A 368 -1 O GLU A 367 N ARG A 375 SHEET 5 AG 5 ALA A 361 TYR A 363 -1 O ALA A 361 N ILE A 368 SSBOND 1 CYS A 24 CYS A 284 1555 1555 2.04 SSBOND 2 CYS A 59 CYS A 92 1555 1555 2.03 SSBOND 3 CYS A 68 CYS A 114 1555 1555 2.04 SSBOND 4 CYS A 153 CYS A 158 1555 1555 2.05 SSBOND 5 CYS A 177 CYS A 224 1555 1555 2.04 SSBOND 6 CYS A 219 CYS A 253 1555 1555 2.05 LINK ND2 ASN A 163 C1 NAG A1414 1555 1555 1.44 LINK ND2 ASN A 320 C1 NAG A1416 1555 1555 1.47 LINK O4 NAG A1414 C1 NAG A1415 1555 1555 1.44 LINK YB YB A1417 OE1 GLU A 286 1555 3565 2.94 LINK YB YB A1417 OE1 GLU A 286 1555 2665 2.92 LINK YB YB A1417 OE2 GLU A 286 1555 1555 2.25 LINK YB YB A1417 OE2 GLU A 286 1555 2665 2.24 LINK YB YB A1417 OE2 GLU A 286 1555 3565 2.25 LINK YB YB A1417 OE1 GLU A 286 1555 1555 2.92 LINK YB YB A1418 OE1 GLU A 191 1555 1555 2.64 LINK YB YB A1418 OE1 GLU A 191 1555 12566 2.95 SITE 1 AC1 1 ASN A 320 SITE 1 AC2 1 GLU A 286 SITE 1 AC3 1 GLU A 191 SITE 1 AC4 1 ASN A 163 CRYST1 120.510 120.510 183.130 90.00 90.00 120.00 P 6 2 2 12 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 0.008298 0.004791 0.000000 0.00000 SCALE2 0.000000 0.009582 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005461 0.00000