HEADER PROTEIN TRANSPORT 09-MAY-11 3RWM TITLE CRYSTAL STRUCTURE OF YPT32 IN COMPLEX WITH GPPNHP COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTP-BINDING PROTEIN YPT32/YPT11; COMPND 3 CHAIN: B; COMPND 4 SYNONYM: RAB GTPASE YPT32; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: ATCC 204508 / S288C; SOURCE 6 GENE: YGL210W, YPT11, YPT32; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21 KEYWDS YPT32, RAB GTPASE, VESICLE TRAFFICKING, EFFECTORS, MYO2P, GPPNHP, KEYWDS 2 PROTEIN TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR A.SULTANA,C.DREGGER,Y.JIN,E.FRANKLIN,L.S.WEISMAN,A.R.KHAN REVDAT 4 28-FEB-24 3RWM 1 REMARK SEQADV LINK REVDAT 3 14-DEC-11 3RWM 1 JRNL REVDAT 2 09-NOV-11 3RWM 1 JRNL REVDAT 1 26-OCT-11 3RWM 0 JRNL AUTH A.SULTANA,Y.JIN,C.DREGGER,E.FRANKLIN,L.S.WEISMAN,A.R.KHAN JRNL TITL THE ACTIVATION CYCLE OF RAB GTPASE YPT32 REVEALS STRUCTURAL JRNL TITL 2 DETERMINANTS OF EFFECTOR RECRUITMENT AND GDI BINDING. JRNL REF FEBS LETT. V. 585 3520 2011 JRNL REFN ISSN 0014-5793 JRNL PMID 22024479 JRNL DOI 10.1016/J.FEBSLET.2011.10.013 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0044 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 14958 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) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 757 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1039 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2540 REMARK 3 BIN FREE R VALUE SET COUNT : 52 REMARK 3 BIN FREE R VALUE : 0.2920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1415 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 65 REMARK 3 SOLVENT ATOMS : 192 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.21 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.93 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.28000 REMARK 3 B22 (A**2) : 1.57000 REMARK 3 B33 (A**2) : -0.28000 REMARK 3 B12 (A**2) : 0.00000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.171 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.131 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.635 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.927 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; 0.011 ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; 2.014 ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; 5.268 ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ;37.081 ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ;15.803 ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ;20.262 ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; 0.207 ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; 0.004 ; NULL REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; 0.487 ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; 0.871 ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; 1.367 ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; 2.109 ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 6 B 11 REMARK 3 ORIGIN FOR THE GROUP (A): -5.3387 18.2640 28.3309 REMARK 3 T TENSOR REMARK 3 T11: 0.0878 T22: 0.0817 REMARK 3 T33: 0.0426 T12: -0.0492 REMARK 3 T13: 0.0285 T23: -0.0309 REMARK 3 L TENSOR REMARK 3 L11: 0.0849 L22: 11.7997 REMARK 3 L33: 0.5167 L12: -0.9314 REMARK 3 L13: -0.1955 L23: 2.4688 REMARK 3 S TENSOR REMARK 3 S11: 0.0245 S12: -0.0265 S13: 0.0132 REMARK 3 S21: 0.0761 S22: -0.0242 S23: -0.0251 REMARK 3 S31: 0.0164 S32: -0.0037 S33: -0.0003 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 12 B 35 REMARK 3 ORIGIN FOR THE GROUP (A): 9.6680 14.6411 14.8610 REMARK 3 T TENSOR REMARK 3 T11: 0.0590 T22: 0.1150 REMARK 3 T33: 0.0397 T12: -0.0594 REMARK 3 T13: -0.0180 T23: 0.0149 REMARK 3 L TENSOR REMARK 3 L11: 4.4298 L22: 0.6758 REMARK 3 L33: 1.6486 L12: 0.1457 REMARK 3 L13: -1.3110 L23: -0.0828 REMARK 3 S TENSOR REMARK 3 S11: 0.1082 S12: -0.3648 S13: 0.1666 REMARK 3 S21: 0.0496 S22: -0.1940 S23: -0.0397 REMARK 3 S31: -0.2602 S32: 0.3257 S33: 0.0858 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 36 B 47 REMARK 3 ORIGIN FOR THE GROUP (A): 16.1774 23.7190 9.7506 REMARK 3 T TENSOR REMARK 3 T11: 0.2994 T22: 0.3170 REMARK 3 T33: 0.2874 T12: -0.2399 REMARK 3 T13: 0.1234 T23: -0.1155 REMARK 3 L TENSOR REMARK 3 L11: 7.9882 L22: 3.4212 REMARK 3 L33: 2.2916 L12: 0.4388 REMARK 3 L13: 2.9049 L23: 1.1242 REMARK 3 S TENSOR REMARK 3 S11: 0.2140 S12: -0.2063 S13: 0.9172 REMARK 3 S21: -0.1198 S22: -0.2520 S23: -0.0295 REMARK 3 S31: -0.4421 S32: 0.3562 S33: 0.0380 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 : B 48 B 70 REMARK 3 ORIGIN FOR THE GROUP (A): 2.3384 14.9231 20.2179 REMARK 3 T TENSOR REMARK 3 T11: 0.0990 T22: 0.1031 REMARK 3 T33: 0.0788 T12: -0.0509 REMARK 3 T13: 0.0088 T23: -0.0716 REMARK 3 L TENSOR REMARK 3 L11: 6.8921 L22: 1.6771 REMARK 3 L33: 4.1438 L12: -0.0675 REMARK 3 L13: -3.6099 L23: -0.4818 REMARK 3 S TENSOR REMARK 3 S11: 0.2277 S12: -0.6197 S13: 0.2909 REMARK 3 S21: 0.2258 S22: -0.1960 S23: 0.2342 REMARK 3 S31: -0.2222 S32: 0.1705 S33: -0.0317 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 71 B 81 REMARK 3 ORIGIN FOR THE GROUP (A): 23.5681 10.0889 23.2501 REMARK 3 T TENSOR REMARK 3 T11: 0.0668 T22: 0.3021 REMARK 3 T33: 0.0812 T12: -0.0548 REMARK 3 T13: -0.0539 T23: 0.1362 REMARK 3 L TENSOR REMARK 3 L11: 3.9962 L22: 1.1801 REMARK 3 L33: 12.7304 L12: 1.8170 REMARK 3 L13: -5.6612 L23: -3.8643 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: -0.4858 S13: -0.1714 REMARK 3 S21: 0.0745 S22: -0.1820 S23: -0.0682 REMARK 3 S31: -0.2549 S32: 0.4992 S33: 0.1819 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 : B 82 B 97 REMARK 3 ORIGIN FOR THE GROUP (A): 14.3459 7.8282 13.8111 REMARK 3 T TENSOR REMARK 3 T11: 0.0236 T22: 0.1398 REMARK 3 T33: 0.0686 T12: -0.0141 REMARK 3 T13: -0.0124 T23: 0.0928 REMARK 3 L TENSOR REMARK 3 L11: 3.6842 L22: 0.6316 REMARK 3 L33: 3.4669 L12: 0.2774 REMARK 3 L13: -3.4270 L23: 0.1536 REMARK 3 S TENSOR REMARK 3 S11: -0.0473 S12: -0.4959 S13: -0.2375 REMARK 3 S21: -0.0298 S22: -0.1141 S23: -0.1174 REMARK 3 S31: 0.0225 S32: 0.4199 S33: 0.1614 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 : B 98 B 119 REMARK 3 ORIGIN FOR THE GROUP (A): 18.3111 1.2136 14.6627 REMARK 3 T TENSOR REMARK 3 T11: 0.0972 T22: 0.1794 REMARK 3 T33: 0.2100 T12: 0.0599 REMARK 3 T13: 0.0131 T23: 0.1730 REMARK 3 L TENSOR REMARK 3 L11: 3.7964 L22: 0.4110 REMARK 3 L33: 7.6057 L12: 1.1298 REMARK 3 L13: -2.9454 L23: -0.6504 REMARK 3 S TENSOR REMARK 3 S11: -0.1981 S12: -0.6099 S13: -0.6379 REMARK 3 S21: -0.0902 S22: -0.1477 S23: -0.1268 REMARK 3 S31: 0.4017 S32: 0.5464 S33: 0.3458 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 : B 120 B 131 REMARK 3 ORIGIN FOR THE GROUP (A): 11.3710 10.3083 3.2095 REMARK 3 T TENSOR REMARK 3 T11: 0.0220 T22: 0.0628 REMARK 3 T33: 0.0384 T12: -0.0154 REMARK 3 T13: 0.0064 T23: 0.0105 REMARK 3 L TENSOR REMARK 3 L11: 2.2688 L22: 4.5954 REMARK 3 L33: 4.5424 L12: 1.0620 REMARK 3 L13: -1.3618 L23: -4.1879 REMARK 3 S TENSOR REMARK 3 S11: 0.0104 S12: 0.1320 S13: -0.1123 REMARK 3 S21: 0.0439 S22: 0.0510 S23: 0.0217 REMARK 3 S31: -0.1227 S32: 0.0348 S33: -0.0614 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 : B 132 B 149 REMARK 3 ORIGIN FOR THE GROUP (A): 12.6013 0.2746 0.7220 REMARK 3 T TENSOR REMARK 3 T11: 0.1176 T22: 0.1431 REMARK 3 T33: 0.3875 T12: -0.0416 REMARK 3 T13: 0.0685 T23: -0.1305 REMARK 3 L TENSOR REMARK 3 L11: 4.1447 L22: 4.1493 REMARK 3 L33: 8.6037 L12: 2.6076 REMARK 3 L13: -5.6326 L23: -3.4381 REMARK 3 S TENSOR REMARK 3 S11: -0.6237 S12: 0.2639 S13: -0.7412 REMARK 3 S21: -0.4406 S22: 0.0338 S23: -0.2875 REMARK 3 S31: 0.8629 S32: -0.0873 S33: 0.5899 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 : B 150 B 175 REMARK 3 ORIGIN FOR THE GROUP (A): 2.8148 9.2066 8.5922 REMARK 3 T TENSOR REMARK 3 T11: 0.0617 T22: 0.0411 REMARK 3 T33: 0.0708 T12: 0.0046 REMARK 3 T13: 0.0005 T23: -0.0057 REMARK 3 L TENSOR REMARK 3 L11: 2.5583 L22: 0.2970 REMARK 3 L33: 1.3929 L12: -0.0639 REMARK 3 L13: -0.7023 L23: -0.0654 REMARK 3 S TENSOR REMARK 3 S11: -0.1110 S12: 0.0096 S13: -0.1413 REMARK 3 S21: -0.0972 S22: -0.0582 S23: 0.0586 REMARK 3 S31: 0.0748 S32: -0.0651 S33: 0.1693 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 : B 176 B 184 REMARK 3 ORIGIN FOR THE GROUP (A): -9.8640 -1.4512 21.6054 REMARK 3 T TENSOR REMARK 3 T11: 0.1801 T22: 0.2730 REMARK 3 T33: 0.0731 T12: 0.0771 REMARK 3 T13: 0.0338 T23: 0.1003 REMARK 3 L TENSOR REMARK 3 L11: 12.4361 L22: 10.7987 REMARK 3 L33: 1.1236 L12: 11.4702 REMARK 3 L13: 0.2609 L23: 0.6895 REMARK 3 S TENSOR REMARK 3 S11: -0.2071 S12: 0.6436 S13: 0.3171 REMARK 3 S21: -0.3329 S22: 0.3863 S23: 0.1981 REMARK 3 S31: -0.4207 S32: -0.2858 S33: -0.1792 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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: NULL REMARK 4 REMARK 4 3RWM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAY-11. REMARK 100 THE DEPOSITION ID IS D_1000065467. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUL-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978 REMARK 200 MONOCHROMATOR : SI (111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14958 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 45.330 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.5700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.44600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 6000, MGCL2, PH 7.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 23.54500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 45.33000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.94500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.33000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.54500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 24.94500 REMARK 290 SMTRY3 4 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 GLY B 4 REMARK 465 ALA B 5 REMARK 465 LEU B 185 REMARK 465 SER B 186 REMARK 465 GLY B 187 REMARK 465 SER B 188 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU B 73 OE1 OE2 REMARK 480 TYR B 75 CG CD1 CD2 CE1 CE2 CZ OH REMARK 480 ARG B 76 CD NE CZ NH1 NH2 REMARK 480 LYS B 142 CE NZ 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 340 O HOH B 348 2.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH B 339 O HOH B 348 4555 2.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU B 73 CD GLU B 73 OE1 -0.184 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 GLU B 73 OE1 - CD - OE2 ANGL. DEV. = 16.1 DEGREES REMARK 500 GLU B 73 CG - CD - OE1 ANGL. DEV. = -14.9 DEGREES REMARK 500 GLU B 73 CG - CD - OE2 ANGL. DEV. = -22.6 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 LEU B 130 31.82 -96.60 REMARK 500 SER B 160 -3.42 87.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 GLU B 73 0.13 SIDE CHAIN 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 MG B 1 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 27 OG REMARK 620 2 THR B 45 OG1 80.9 REMARK 620 3 GNP B 200 O2B 94.7 173.5 REMARK 620 4 GNP B 200 O2G 166.1 87.7 96.0 REMARK 620 5 HOH B 242 O 88.8 94.3 90.2 100.0 REMARK 620 6 HOH B 299 O 86.9 84.7 90.4 84.2 175.7 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GNP B 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GNP B 189 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3RWO RELATED DB: PDB DBREF 3RWM B 7 188 UNP P51996 YPT32_YEAST 7 188 SEQADV 3RWM GLY B 4 UNP P51996 EXPRESSION TAG SEQADV 3RWM ALA B 5 UNP P51996 EXPRESSION TAG SEQADV 3RWM MET B 6 UNP P51996 EXPRESSION TAG SEQADV 3RWM LEU B 72 UNP P51996 GLN 72 ENGINEERED MUTATION SEQRES 1 B 185 GLY ALA MET GLY TYR ASP TYR ASP TYR LEU PHE LYS ILE SEQRES 2 B 185 VAL LEU ILE GLY ASP SER GLY VAL GLY LYS SER ASN LEU SEQRES 3 B 185 LEU SER ARG PHE THR THR ASP GLU PHE ASN ILE GLU SER SEQRES 4 B 185 LYS SER THR ILE GLY VAL GLU PHE ALA THR ARG THR ILE SEQRES 5 B 185 GLU VAL GLU ASN LYS LYS ILE LYS ALA GLN ILE TRP ASP SEQRES 6 B 185 THR ALA GLY LEU GLU ARG TYR ARG ALA ILE THR SER ALA SEQRES 7 B 185 TYR TYR ARG GLY ALA VAL GLY ALA LEU ILE VAL TYR ASP SEQRES 8 B 185 ILE SER LYS SER SER SER TYR GLU ASN CYS ASN HIS TRP SEQRES 9 B 185 LEU THR GLU LEU ARG GLU ASN ALA ASP ASP ASN VAL ALA SEQRES 10 B 185 VAL GLY LEU ILE GLY ASN LYS SER ASP LEU ALA HIS LEU SEQRES 11 B 185 ARG ALA VAL PRO THR ASP GLU ALA LYS ASN PHE ALA MET SEQRES 12 B 185 GLU ASN GLN MET LEU PHE THR GLU THR SER ALA LEU ASN SEQRES 13 B 185 SER ASP ASN VAL ASP LYS ALA PHE ARG GLU LEU ILE VAL SEQRES 14 B 185 ALA ILE PHE GLN MET VAL SER LYS HIS GLN VAL ASP LEU SEQRES 15 B 185 SER GLY SER HET GNP B 200 32 HET MG B 1 1 HET GNP B 189 64 HETNAM GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER HETNAM MG MAGNESIUM ION FORMUL 2 GNP 2(C10 H17 N6 O13 P3) FORMUL 3 MG MG 2+ FORMUL 5 HOH *192(H2 O) HELIX 1 1 GLY B 25 ASP B 36 1 12 HELIX 2 2 TYR B 75 ARG B 84 1 10 HELIX 3 3 LYS B 97 ASN B 103 1 7 HELIX 4 4 ASN B 103 ALA B 115 1 13 HELIX 5 5 LYS B 127 ARG B 134 5 8 HELIX 6 6 PRO B 137 ASN B 148 1 12 HELIX 7 7 ASN B 162 SER B 179 1 18 SHEET 1 A 6 VAL B 48 VAL B 57 0 SHEET 2 A 6 LYS B 60 THR B 69 -1 O ILE B 62 N ILE B 55 SHEET 3 A 6 TYR B 12 ILE B 19 1 N ILE B 16 O TRP B 67 SHEET 4 A 6 GLY B 88 ASP B 94 1 O VAL B 92 N ILE B 19 SHEET 5 A 6 ALA B 120 ASN B 126 1 O ILE B 124 N ILE B 91 SHEET 6 A 6 LEU B 151 GLU B 154 1 O LEU B 151 N LEU B 123 LINK MG MG B 1 OG SER B 27 1555 1555 2.14 LINK MG MG B 1 OG1 THR B 45 1555 1555 2.14 LINK MG MG B 1 O2B GNP B 200 1555 1555 1.97 LINK MG MG B 1 O2G GNP B 200 1555 1555 2.10 LINK MG MG B 1 O HOH B 242 1555 1555 2.22 LINK MG MG B 1 O HOH B 299 1555 1555 2.07 SITE 1 AC1 27 MG B 1 SER B 22 GLY B 23 VAL B 24 SITE 2 AC1 27 GLY B 25 LYS B 26 SER B 27 ASN B 28 SITE 3 AC1 27 PHE B 38 ASN B 39 ILE B 40 SER B 42 SITE 4 AC1 27 SER B 44 THR B 45 ALA B 70 GLY B 71 SITE 5 AC1 27 ASN B 126 LYS B 127 ASP B 129 SER B 156 SITE 6 AC1 27 ALA B 157 LEU B 158 HOH B 242 HOH B 250 SITE 7 AC1 27 HOH B 263 HOH B 284 HOH B 299 SITE 1 AC2 5 SER B 27 THR B 45 GNP B 200 HOH B 242 SITE 2 AC2 5 HOH B 299 SITE 1 AC3 16 GLY B 7 ASP B 9 LYS B 61 LEU B 108 SITE 2 AC3 16 LEU B 111 ARG B 112 ALA B 115 ASP B 116 SITE 3 AC3 16 ASP B 117 ASN B 118 VAL B 119 VAL B 121 SITE 4 AC3 16 ASN B 148 GLN B 149 HOH B 197 HOH B 225 CRYST1 47.090 49.890 90.660 90.00 90.00 90.00 P 21 21 21 4 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 0.021236 0.000000 0.000000 0.00000 SCALE2 0.000000 0.020044 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011030 0.00000