HEADER TRANSPORT PROTEIN 29-NOV-05 2F6M TITLE STRUCTURE OF A VPS23-C:VPS28-N SUBCOMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUPPRESSOR PROTEIN STP22 OF TEMPERATURE-SENSITIVE ALPHA- COMPND 3 FACTOR RECEPTOR AND ARGININE PERMEASE; COMPND 4 CHAIN: A, C; COMPND 5 FRAGMENT: VPS23C-TERMINAL DOMAIN (322-385); COMPND 6 SYNONYM: VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN VPS23; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN VPS28; COMPND 11 CHAIN: B, D; COMPND 12 FRAGMENT: VPS28N-TERMINAL DOMAIN (13-118); COMPND 13 ENGINEERED: YES; COMPND 14 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: STP22, VPS23; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PST39; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 13 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 14 ORGANISM_TAXID: 4932; SOURCE 15 GENE: VPS28, VPT28; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PST39 KEYWDS ENDOSOMES, TRAFFICKING COMPLEX, VPS23, VPS28, VACUOLE PROTEIN KEYWDS 2 SORTING, ESCRT PROTEIN COMPLEXES, ENDOSOMAL SORTING COMPLEX REQUIRED KEYWDS 3 FOR TRANSPORT, ESCRT-I, UBIQUITIN, TSG101, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.S.KOSTELANSKY,S.LEE,J.KIM,J.H.HURLEY REVDAT 4 20-OCT-21 2F6M 1 REMARK SEQADV REVDAT 3 13-JUL-11 2F6M 1 VERSN REVDAT 2 24-FEB-09 2F6M 1 VERSN REVDAT 1 18-APR-06 2F6M 0 JRNL AUTH M.S.KOSTELANSKY,J.SUN,S.LEE,J.KIM,R.GHIRLANDO,A.HIERRO, JRNL AUTH 2 S.D.EMR,J.H.HURLEY JRNL TITL STRUCTURAL AND FUNCTIONAL ORGANIZATION OF THE ESCRT-I JRNL TITL 2 TRAFFICKING COMPLEX. JRNL REF CELL(CAMBRIDGE,MASS.) V. 125 113 2006 JRNL REFN ISSN 0092-8674 JRNL PMID 16615894 JRNL DOI 10.1016/J.CELL.2006.01.049 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.51 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 25067 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) : 0.242 REMARK 3 R VALUE (WORKING SET) : 0.241 REMARK 3 FREE R VALUE : 0.261 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1332 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1477 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2340 REMARK 3 BIN FREE R VALUE SET COUNT : 74 REMARK 3 BIN FREE R VALUE : 0.2920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2760 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 113 REMARK 3 SOLVENT ATOMS : 40 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 59.11 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.62000 REMARK 3 B22 (A**2) : 0.44000 REMARK 3 B33 (A**2) : -2.06000 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): 0.240 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.190 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.136 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.451 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2909 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3918 ; 0.946 ; 1.985 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 333 ; 3.907 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 145 ;39.978 ;25.034 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 518 ;14.436 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;15.560 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 452 ; 0.059 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2094 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1267 ; 0.193 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2031 ; 0.292 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 83 ; 0.146 ; 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): 49 ; 0.201 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.112 ; 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): 1741 ; 0.408 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2746 ; 0.675 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1296 ; 1.106 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1172 ; 1.797 ; 4.500 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 : 12 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 : A 321 A 385 REMARK 3 ORIGIN FOR THE GROUP (A): 18.2261 10.6247 52.0683 REMARK 3 T TENSOR REMARK 3 T11: -0.3321 T22: -0.2280 REMARK 3 T33: -0.2364 T12: -0.0605 REMARK 3 T13: -0.0205 T23: -0.0274 REMARK 3 L TENSOR REMARK 3 L11: 3.5788 L22: 9.3596 REMARK 3 L33: 2.5266 L12: -4.4225 REMARK 3 L13: 0.7638 L23: -2.2709 REMARK 3 S TENSOR REMARK 3 S11: 0.0300 S12: 0.0479 S13: 0.0581 REMARK 3 S21: 0.1603 S22: -0.0633 S23: -0.1378 REMARK 3 S31: -0.1257 S32: 0.1854 S33: 0.0333 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 30 REMARK 3 ORIGIN FOR THE GROUP (A): 9.9026 28.0668 45.8802 REMARK 3 T TENSOR REMARK 3 T11: 0.0361 T22: -0.1666 REMARK 3 T33: 0.0130 T12: 0.0623 REMARK 3 T13: -0.0047 T23: -0.0439 REMARK 3 L TENSOR REMARK 3 L11: 15.5515 L22: 4.2162 REMARK 3 L33: 18.8679 L12: -4.8693 REMARK 3 L13: -16.2147 L23: 2.7791 REMARK 3 S TENSOR REMARK 3 S11: 0.5479 S12: -0.5422 S13: 1.1625 REMARK 3 S21: -0.5560 S22: 0.4401 S23: 0.1423 REMARK 3 S31: -1.1025 S32: 0.5872 S33: -0.9880 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 31 B 58 REMARK 3 ORIGIN FOR THE GROUP (A): 28.3608 9.3302 44.5775 REMARK 3 T TENSOR REMARK 3 T11: -0.2770 T22: -0.0792 REMARK 3 T33: -0.1442 T12: -0.0127 REMARK 3 T13: 0.0834 T23: -0.0261 REMARK 3 L TENSOR REMARK 3 L11: 5.9737 L22: 11.2751 REMARK 3 L33: 15.8200 L12: -6.0036 REMARK 3 L13: 7.1235 L23: -9.0867 REMARK 3 S TENSOR REMARK 3 S11: 0.2246 S12: 0.2059 S13: -0.0657 REMARK 3 S21: -0.5289 S22: -0.2055 S23: -0.4812 REMARK 3 S31: 0.1316 S32: 0.7685 S33: -0.0191 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 59 B 82 REMARK 3 ORIGIN FOR THE GROUP (A): 35.5161 -1.0420 44.9846 REMARK 3 T TENSOR REMARK 3 T11: -0.1421 T22: 0.2656 REMARK 3 T33: 0.1156 T12: 0.2385 REMARK 3 T13: 0.1108 T23: -0.0759 REMARK 3 L TENSOR REMARK 3 L11: 7.8127 L22: 19.7429 REMARK 3 L33: 19.7396 L12: -5.4620 REMARK 3 L13: 2.9255 L23: -13.4583 REMARK 3 S TENSOR REMARK 3 S11: -0.2548 S12: -0.0863 S13: -0.6231 REMARK 3 S21: -0.3806 S22: -0.0512 S23: -1.0455 REMARK 3 S31: 1.0006 S32: 1.2081 S33: 0.3060 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 83 B 100 REMARK 3 ORIGIN FOR THE GROUP (A): 31.3092 20.6750 39.9200 REMARK 3 T TENSOR REMARK 3 T11: 0.4542 T22: 0.6068 REMARK 3 T33: 0.3861 T12: -0.2551 REMARK 3 T13: 0.3259 T23: 0.0443 REMARK 3 L TENSOR REMARK 3 L11: 5.5800 L22: 14.8043 REMARK 3 L33: 38.0133 L12: -2.6785 REMARK 3 L13: -4.7509 L23: 0.2914 REMARK 3 S TENSOR REMARK 3 S11: 0.7575 S12: 0.8814 S13: 0.6946 REMARK 3 S21: -2.4435 S22: -0.5130 S23: -2.4965 REMARK 3 S31: -1.8858 S32: 3.1111 S33: -0.2445 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 101 B 118 REMARK 3 ORIGIN FOR THE GROUP (A): 35.2073 12.7048 52.0626 REMARK 3 T TENSOR REMARK 3 T11: -0.2086 T22: 0.1861 REMARK 3 T33: 0.0692 T12: -0.1397 REMARK 3 T13: -0.0431 T23: -0.0254 REMARK 3 L TENSOR REMARK 3 L11: 15.3539 L22: 20.0954 REMARK 3 L33: 9.4966 L12: -14.9692 REMARK 3 L13: -6.1662 L23: 6.6111 REMARK 3 S TENSOR REMARK 3 S11: 0.0422 S12: -0.1592 S13: 0.5967 REMARK 3 S21: 0.1930 S22: -0.0571 S23: -1.0683 REMARK 3 S31: -0.5180 S32: 1.0353 S33: 0.0149 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 : C 321 C 383 REMARK 3 ORIGIN FOR THE GROUP (A): 11.3241 -7.8005 53.5996 REMARK 3 T TENSOR REMARK 3 T11: -0.1978 T22: -0.2420 REMARK 3 T33: -0.2488 T12: -0.0900 REMARK 3 T13: -0.0539 T23: -0.0049 REMARK 3 L TENSOR REMARK 3 L11: 3.8355 L22: 6.4748 REMARK 3 L33: 2.7779 L12: -3.1591 REMARK 3 L13: 0.5915 L23: -0.6674 REMARK 3 S TENSOR REMARK 3 S11: 0.0359 S12: 0.1108 S13: 0.0375 REMARK 3 S21: -0.2389 S22: 0.0484 S23: 0.1432 REMARK 3 S31: 0.5459 S32: -0.0721 S33: -0.0844 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 : D 16 D 30 REMARK 3 ORIGIN FOR THE GROUP (A): 21.3843 -24.5746 48.8428 REMARK 3 T TENSOR REMARK 3 T11: 0.6092 T22: -0.0418 REMARK 3 T33: -0.0531 T12: 0.1833 REMARK 3 T13: -0.0758 T23: -0.0685 REMARK 3 L TENSOR REMARK 3 L11: 4.5956 L22: 3.2114 REMARK 3 L33: 18.1419 L12: -2.2186 REMARK 3 L13: 9.1282 L23: -4.2541 REMARK 3 S TENSOR REMARK 3 S11: 0.0671 S12: 0.1857 S13: -0.3668 REMARK 3 S21: 0.2742 S22: 0.5798 S23: -0.3736 REMARK 3 S31: 1.2881 S32: 0.4104 S33: -0.6470 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 : D 31 D 58 REMARK 3 ORIGIN FOR THE GROUP (A): 2.5497 -8.9243 45.1588 REMARK 3 T TENSOR REMARK 3 T11: -0.1321 T22: -0.0483 REMARK 3 T33: -0.1241 T12: -0.1605 REMARK 3 T13: -0.1665 T23: -0.0161 REMARK 3 L TENSOR REMARK 3 L11: 7.5717 L22: 18.2028 REMARK 3 L33: 8.9853 L12: -9.8722 REMARK 3 L13: -7.5867 L23: 9.3664 REMARK 3 S TENSOR REMARK 3 S11: 0.2033 S12: 0.2268 S13: -0.0856 REMARK 3 S21: -0.6085 S22: -0.2430 S23: 0.7055 REMARK 3 S31: 0.1123 S32: -0.4004 S33: 0.0397 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 : D 59 D 82 REMARK 3 ORIGIN FOR THE GROUP (A): -5.4450 0.4490 43.0393 REMARK 3 T TENSOR REMARK 3 T11: -0.1938 T22: 0.1561 REMARK 3 T33: 0.0553 T12: -0.0457 REMARK 3 T13: -0.1766 T23: 0.0462 REMARK 3 L TENSOR REMARK 3 L11: 9.2110 L22: 22.7941 REMARK 3 L33: 12.7086 L12: -7.5952 REMARK 3 L13: -1.4560 L23: 11.5338 REMARK 3 S TENSOR REMARK 3 S11: 0.6427 S12: 0.6852 S13: -0.1276 REMARK 3 S21: -0.9094 S22: -0.8644 S23: 1.1532 REMARK 3 S31: 0.0813 S32: -0.8687 S33: 0.2217 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 : D 83 D 93 REMARK 3 ORIGIN FOR THE GROUP (A): 1.3471 -20.7070 35.0853 REMARK 3 T TENSOR REMARK 3 T11: 0.5024 T22: 0.4203 REMARK 3 T33: 0.4884 T12: -0.0581 REMARK 3 T13: -0.0165 T23: -0.1694 REMARK 3 L TENSOR REMARK 3 L11: 55.4095 L22: 76.4833 REMARK 3 L33: 68.7047 L12: -9.5753 REMARK 3 L13: 23.6321 L23: -36.4123 REMARK 3 S TENSOR REMARK 3 S11: -0.1656 S12: -1.6757 S13: -1.1076 REMARK 3 S21: -4.1032 S22: 1.2941 S23: -0.1648 REMARK 3 S31: 2.0932 S32: -1.2013 S33: -1.1285 REMARK 3 REMARK 3 TLS GROUP : 12 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 94 D 117 REMARK 3 ORIGIN FOR THE GROUP (A): -4.5296 -14.7089 49.6570 REMARK 3 T TENSOR REMARK 3 T11: 0.2816 T22: 0.3771 REMARK 3 T33: 0.3396 T12: -0.3459 REMARK 3 T13: -0.0106 T23: -0.0203 REMARK 3 L TENSOR REMARK 3 L11: 27.5172 L22: 15.3691 REMARK 3 L33: 10.9556 L12: -12.8321 REMARK 3 L13: 5.9632 L23: -0.2969 REMARK 3 S TENSOR REMARK 3 S11: 0.2221 S12: 0.2593 S13: -1.1648 REMARK 3 S21: -0.4079 S22: -0.3282 S23: 2.4516 REMARK 3 S31: 0.5634 S32: -1.7988 S33: 0.1061 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 2F6M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-DEC-05. REMARK 100 THE DEPOSITION ID IS D_1000035515. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUN-05; 29-JUL-05 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : SSRL; APS REMARK 200 BEAMLINE : BL9-2; 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9190, 0.9800; 0.9795 REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH; MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25067 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07500 REMARK 200 FOR THE DATA SET : 20.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.17 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.28500 REMARK 200 FOR SHELL : 4.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5MG/ML PROTEIN SOLUTION CONTAINING 40 REMARK 280 MM TRIS PH 7.4, 120 MM NACL, AND 20 MM DDAO WAS MIXED WITH EQUAL REMARK 280 VOLUME OF CRYSTALLANT CONTAINING 13% PEG 3350, 200 MM MGCL2 AND REMARK 280 20% GLYCEROL., VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 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 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X,-Y+1/2,Z REMARK 290 7555 -X+1/2,Y,-Z REMARK 290 8555 X,-Y,-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 30.61950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 62.69550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 59.62600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 62.69550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.61950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 59.62600 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 30.61950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 59.62600 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 62.69550 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 59.62600 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 30.61950 REMARK 290 SMTRY2 7 0.000000 1.000000 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 62.69550 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 300 REMARK: THE ASYMMETRIC UNIT CONTAINS TWO UNITS. REMARK 300 COMPLEX 1 = CHAINS A,B AND COMPLEX 2 = CHAINS C,D 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: 3300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 10 REMARK 465 ALA B 11 REMARK 465 LEU C 384 REMARK 465 SER C 385 REMARK 465 GLY D 10 REMARK 465 ALA D 11 REMARK 465 MET D 12 REMARK 465 ASP D 13 REMARK 465 ILE D 14 REMARK 465 SER D 15 REMARK 465 GLY D 118 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 NH1 ARG C 379 O PRO D 23 2.19 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 PRO A 383 82.94 -59.55 REMARK 500 LEU A 384 44.13 28.20 REMARK 500 PHE B 18 59.35 -118.43 REMARK 500 ASN B 83 44.98 -81.18 REMARK 500 ASN B 86 -23.94 67.89 REMARK 500 LYS B 87 -27.34 79.95 REMARK 500 ALA B 108 47.98 -155.35 REMARK 500 ASP D 60 42.34 -92.68 REMARK 500 SER D 84 -105.38 -144.54 REMARK 500 SER D 96 -148.74 60.87 REMARK 500 ILE D 97 -63.04 -131.39 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 109 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DDQ A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DDQ A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DDQ B 119 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DDQ C 105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DDQ D 119 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DDQ B 120 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DDQ C 108 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1U5T RELATED DB: PDB REMARK 900 RELATED ID: 2F66 RELATED DB: PDB REMARK 900 RELATED ID: 1W7P RELATED DB: PDB REMARK 900 RELATED ID: 1UZX RELATED DB: PDB REMARK 900 RELATED ID: 1XB4 RELATED DB: PDB DBREF 2F6M A 322 385 UNP P25604 STP22_YEAST 322 385 DBREF 2F6M B 13 118 UNP Q02767 VPS28_YEAST 13 118 DBREF 2F6M C 322 385 UNP P25604 STP22_YEAST 322 385 DBREF 2F6M D 13 118 UNP Q02767 VPS28_YEAST 13 118 SEQADV 2F6M MET A 321 UNP P25604 CLONING ARTIFACT SEQADV 2F6M ALA A 344 UNP P25604 CYS 344 ENGINEERED MUTATION SEQADV 2F6M MET C 321 UNP P25604 CLONING ARTIFACT SEQADV 2F6M ALA C 344 UNP P25604 CYS 344 ENGINEERED MUTATION SEQADV 2F6M GLY B 10 UNP Q02767 CLONING ARTIFACT SEQADV 2F6M ALA B 11 UNP Q02767 CLONING ARTIFACT SEQADV 2F6M MET B 12 UNP Q02767 CLONING ARTIFACT SEQADV 2F6M ALA B 101 UNP Q02767 CYS 101 ENGINEERED MUTATION SEQADV 2F6M GLY D 10 UNP Q02767 CLONING ARTIFACT SEQADV 2F6M ALA D 11 UNP Q02767 CLONING ARTIFACT SEQADV 2F6M MET D 12 UNP Q02767 CLONING ARTIFACT SEQADV 2F6M ALA D 101 UNP Q02767 CYS 101 ENGINEERED MUTATION SEQRES 1 A 65 MET THR ASP GLY LEU ASN GLN LEU TYR ASN LEU VAL ALA SEQRES 2 A 65 GLN ASP TYR ALA LEU THR ASP THR ILE GLU ALA LEU SER SEQRES 3 A 65 ARG MET LEU HIS ARG GLY THR ILE PRO LEU ASP THR PHE SEQRES 4 A 65 VAL LYS GLN GLY ARG GLU LEU ALA ARG GLN GLN PHE LEU SEQRES 5 A 65 VAL ARG TRP HIS ILE GLN ARG ILE THR SER PRO LEU SER SEQRES 1 B 109 GLY ALA MET ASP ILE SER GLN LEU PHE HIS ASP GLU VAL SEQRES 2 B 109 PRO LEU PHE ASP ASN SER ILE THR SER LYS ASP LYS GLU SEQRES 3 B 109 VAL ILE GLU THR LEU SER GLU ILE TYR SER ILE VAL ILE SEQRES 4 B 109 THR LEU ASP HIS VAL GLU LYS ALA TYR LEU LYS ASP SER SEQRES 5 B 109 ILE ASP ASP THR GLN TYR THR ASN THR VAL ASP LYS LEU SEQRES 6 B 109 LEU LYS GLN PHE LYS VAL TYR LEU ASN SER GLN ASN LYS SEQRES 7 B 109 GLU GLU ILE ASN LYS HIS PHE GLN SER ILE GLU ALA PHE SEQRES 8 B 109 ALA ASP THR TYR ASN ILE THR ALA SER ASN ALA ILE THR SEQRES 9 B 109 ARG LEU GLU ARG GLY SEQRES 1 C 65 MET THR ASP GLY LEU ASN GLN LEU TYR ASN LEU VAL ALA SEQRES 2 C 65 GLN ASP TYR ALA LEU THR ASP THR ILE GLU ALA LEU SER SEQRES 3 C 65 ARG MET LEU HIS ARG GLY THR ILE PRO LEU ASP THR PHE SEQRES 4 C 65 VAL LYS GLN GLY ARG GLU LEU ALA ARG GLN GLN PHE LEU SEQRES 5 C 65 VAL ARG TRP HIS ILE GLN ARG ILE THR SER PRO LEU SER SEQRES 1 D 109 GLY ALA MET ASP ILE SER GLN LEU PHE HIS ASP GLU VAL SEQRES 2 D 109 PRO LEU PHE ASP ASN SER ILE THR SER LYS ASP LYS GLU SEQRES 3 D 109 VAL ILE GLU THR LEU SER GLU ILE TYR SER ILE VAL ILE SEQRES 4 D 109 THR LEU ASP HIS VAL GLU LYS ALA TYR LEU LYS ASP SER SEQRES 5 D 109 ILE ASP ASP THR GLN TYR THR ASN THR VAL ASP LYS LEU SEQRES 6 D 109 LEU LYS GLN PHE LYS VAL TYR LEU ASN SER GLN ASN LYS SEQRES 7 D 109 GLU GLU ILE ASN LYS HIS PHE GLN SER ILE GLU ALA PHE SEQRES 8 D 109 ALA ASP THR TYR ASN ILE THR ALA SER ASN ALA ILE THR SEQRES 9 D 109 ARG LEU GLU ARG GLY HET MG A 109 1 HET DDQ A 101 14 HET DDQ A 102 14 HET DDQ A 104 14 HET DDQ B 119 14 HET DDQ B 120 14 HET DDQ C 105 14 HET DDQ C 108 14 HET DDQ D 119 14 HETNAM MG MAGNESIUM ION HETNAM DDQ DECYLAMINE-N,N-DIMETHYL-N-OXIDE FORMUL 5 MG MG 2+ FORMUL 6 DDQ 8(C12 H27 N O) FORMUL 14 HOH *40(H2 O) HELIX 1 1 THR A 322 GLY A 352 1 31 HELIX 2 2 PRO A 355 SER A 382 1 28 HELIX 3 3 ASP B 13 PHE B 18 1 6 HELIX 4 4 THR B 30 LYS B 59 1 30 HELIX 5 5 ASP B 63 ASN B 83 1 21 HELIX 6 6 GLU B 88 TYR B 104 1 17 HELIX 7 7 ALA B 108 GLY B 118 1 11 HELIX 8 8 THR C 322 ARG C 351 1 30 HELIX 9 9 PRO C 355 THR C 381 1 27 HELIX 10 10 THR D 30 LYS D 59 1 30 HELIX 11 11 ASP D 63 ASN D 83 1 21 HELIX 12 12 ASN D 86 PHE D 94 1 9 HELIX 13 13 GLU D 98 TYR D 104 1 7 HELIX 14 14 ALA D 108 ARG D 117 1 10 SITE 1 AC1 1 ASP A 340 SITE 1 AC2 5 THR A 341 LEU A 366 LEU C 345 GLN C 362 SITE 2 AC2 5 LEU C 366 SITE 1 AC3 5 THR A 358 HOH C 6 HOH C 10 GLN C 334 SITE 2 AC3 5 GLN C 369 SITE 1 AC4 4 TRP A 375 GLN A 378 TYR B 44 SER B 96 SITE 1 AC5 3 MET C 321 ILE C 377 THR C 381 SITE 1 AC6 3 ASN C 326 TYR C 329 THR D 103 SITE 1 AC7 3 TYR A 329 ASP A 335 TYR B 104 SITE 1 AC8 4 THR C 322 LEU C 328 PRO C 383 GLN D 16 CRYST1 61.239 119.252 125.391 90.00 90.00 90.00 I 21 21 21 16 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 0.016329 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008386 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007975 0.00000 MASTER 583 0 9 14 0 0 10 6 0 0 0 28 END