HEADER PROTEIN BINDING 01-JUL-10 3NS4 TITLE STRUCTURE OF A C-TERMINAL FRAGMENT OF ITS VPS53 SUBUNIT SUGGESTS TITLE 2 SIMILARITY OF GARP TO A FAMILY OF TETHERING COMPLEXES COMPND MOL_ID: 1; COMPND 2 MOLECULE: VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 53; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN (UNP RESIDUES 554-822); COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BREWER'S YEAST,LAGER BEER YEAST,YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: VPS53, YJL029C, J1258; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PCOLA-DUET KEYWDS GARP COMPLEX COMPONENT, HELICAL BUNDLE, MEMBRANE TETHERING COMPLEX, KEYWDS 2 MEMBRANE TRAFFIC, VPS51, VPS52, VPS54, ARL1, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR N.VASAN,K.M.REINISCH REVDAT 3 09-OCT-24 3NS4 1 REMARK REVDAT 2 27-DEC-23 3NS4 1 REMARK SEQADV LINK REVDAT 1 15-SEP-10 3NS4 0 JRNL AUTH N.VASAN,A.HUTAGALUNG,P.NOVICK,K.M.REINISCH JRNL TITL STRUCTURE OF A C-TERMINAL FRAGMENT OF ITS VPS53 SUBUNIT JRNL TITL 2 SUGGESTS SIMILARITY OF GOLGI-ASSOCIATED RETROGRADE PROTEIN JRNL TITL 3 (GARP) COMPLEX TO A FAMILY OF TETHERING COMPLEXES. JRNL REF PROC.NATL.ACAD.SCI.USA V. 107 14176 2010 JRNL REFN ISSN 0027-8424 JRNL PMID 20660722 JRNL DOI 10.1073/PNAS.1009419107 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.40 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 8606 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) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 428 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) : 2.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.98 REMARK 3 REFLECTION IN BIN (WORKING SET) : 592 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2660 REMARK 3 BIN FREE R VALUE SET COUNT : 42 REMARK 3 BIN FREE R VALUE : 0.3110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1711 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 19 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 61.52 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.69000 REMARK 3 B22 (A**2) : -0.69000 REMARK 3 B33 (A**2) : 1.03000 REMARK 3 B12 (A**2) : -0.34000 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): 0.579 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.293 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.215 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 24.481 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 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): 1767 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2397 ; 1.768 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 207 ; 3.206 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 89 ;33.343 ;24.494 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 322 ;11.828 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;10.535 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 264 ; 0.115 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1329 ; 0.007 ; 0.021 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): 1033 ; 1.860 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1681 ; 4.520 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 734 ; 7.733 ; 4.500 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 714 ;12.297 ; 6.000 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 : 5 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 564 A 580 REMARK 3 ORIGIN FOR THE GROUP (A): -56.7690 2.8920 18.4070 REMARK 3 T TENSOR REMARK 3 T11: 0.8918 T22: 0.5363 REMARK 3 T33: 0.5927 T12: 0.0064 REMARK 3 T13: -0.0227 T23: -0.1895 REMARK 3 L TENSOR REMARK 3 L11: 2.7980 L22: 0.1237 REMARK 3 L33: 9.0861 L12: -2.0219 REMARK 3 L13: -5.5981 L23: 1.4631 REMARK 3 S TENSOR REMARK 3 S11: -0.5568 S12: -0.7630 S13: 0.0665 REMARK 3 S21: 0.2503 S22: 0.1674 S23: -0.1204 REMARK 3 S31: 1.1801 S32: 1.2006 S33: 0.3894 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 : A 581 A 641 REMARK 3 ORIGIN FOR THE GROUP (A): -67.8480 -10.5550 -7.4770 REMARK 3 T TENSOR REMARK 3 T11: 0.4765 T22: 0.2900 REMARK 3 T33: 0.3461 T12: 0.0030 REMARK 3 T13: 0.0059 T23: 0.0469 REMARK 3 L TENSOR REMARK 3 L11: 4.5261 L22: 4.9887 REMARK 3 L33: 4.7653 L12: 2.3127 REMARK 3 L13: 1.9688 L23: 2.4826 REMARK 3 S TENSOR REMARK 3 S11: -0.1489 S12: 0.2450 S13: 0.1151 REMARK 3 S21: -0.2671 S22: 0.1553 S23: 0.1070 REMARK 3 S31: -0.0748 S32: -0.1435 S33: -0.0063 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 : A 642 A 655 REMARK 3 ORIGIN FOR THE GROUP (A): -44.8190 -3.4900 11.9050 REMARK 3 T TENSOR REMARK 3 T11: 1.0013 T22: 1.7408 REMARK 3 T33: 1.7116 T12: -0.5729 REMARK 3 T13: -0.7684 T23: -0.3700 REMARK 3 L TENSOR REMARK 3 L11: 29.3869 L22: 6.8422 REMARK 3 L33: 7.3295 L12: -2.9096 REMARK 3 L13: -0.0151 L23: -0.1559 REMARK 3 S TENSOR REMARK 3 S11: 1.3995 S12: -1.2431 S13: -0.5436 REMARK 3 S21: 0.1097 S22: 0.9487 S23: -1.7825 REMARK 3 S31: -0.9628 S32: 4.0075 S33: -2.3482 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 656 A 758 REMARK 3 ORIGIN FOR THE GROUP (A): -72.3200 -22.1210 -1.2460 REMARK 3 T TENSOR REMARK 3 T11: 0.4902 T22: 0.3582 REMARK 3 T33: 0.3653 T12: -0.0328 REMARK 3 T13: 0.0150 T23: 0.0088 REMARK 3 L TENSOR REMARK 3 L11: 3.1406 L22: 3.9031 REMARK 3 L33: 1.7098 L12: 1.0560 REMARK 3 L13: 0.2617 L23: 0.6259 REMARK 3 S TENSOR REMARK 3 S11: -0.0475 S12: -0.1475 S13: -0.1933 REMARK 3 S21: 0.2762 S22: 0.0674 S23: 0.1538 REMARK 3 S31: 0.2835 S32: -0.3027 S33: -0.0199 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 : A 759 A 779 REMARK 3 ORIGIN FOR THE GROUP (A): -91.1180 -22.4060 -2.7110 REMARK 3 T TENSOR REMARK 3 T11: 0.3263 T22: 0.8079 REMARK 3 T33: 0.8025 T12: -0.0627 REMARK 3 T13: 0.0422 T23: 0.0900 REMARK 3 L TENSOR REMARK 3 L11: 10.7012 L22: 7.9413 REMARK 3 L33: 10.9918 L12: 2.5423 REMARK 3 L13: -2.8366 L23: 1.4949 REMARK 3 S TENSOR REMARK 3 S11: -0.2919 S12: -0.1614 S13: -0.1798 REMARK 3 S21: 0.4632 S22: 0.5996 S23: 1.8452 REMARK 3 S31: 0.0814 S32: -1.4880 S33: -0.3078 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 : 1.40 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 RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3NS4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JUL-10. REMARK 100 THE DEPOSITION ID IS D_1000060211. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-OCT-09 REMARK 200 TEMPERATURE (KELVIN) : 113.0 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97915 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8606 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50 MM TRIS AT PH 8.5, 10% PEG 4K, 200 REMARK 280 MM BACL2, AND 10 MM DTT, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 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+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 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+1/2 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,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 -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 40.82900 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 40.82900 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 40.82900 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 40.82900 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 40.82900 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 40.82900 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 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.0 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 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 A 552 REMARK 465 SER A 553 REMARK 465 GLN A 554 REMARK 465 GLN A 555 REMARK 465 GLN A 556 REMARK 465 GLU A 557 REMARK 465 GLN A 558 REMARK 465 PRO A 559 REMARK 465 SER A 560 REMARK 465 THR A 561 REMARK 465 LEU A 562 REMARK 465 ALA A 563 REMARK 465 ASP A 731 REMARK 465 ASP A 732 REMARK 465 THR A 733 REMARK 465 ASP A 734 REMARK 465 GLU A 735 REMARK 465 GLY A 736 REMARK 465 SER A 737 REMARK 465 ARG A 738 REMARK 465 PRO A 739 REMARK 465 ASP A 740 REMARK 465 SER A 741 REMARK 465 ILE A 780 REMARK 465 SER A 781 REMARK 465 PRO A 782 REMARK 465 PRO A 783 REMARK 465 VAL A 784 REMARK 465 MSE A 785 REMARK 465 LYS A 786 REMARK 465 ARG A 787 REMARK 465 ILE A 788 REMARK 465 VAL A 789 REMARK 465 SER A 790 REMARK 465 THR A 791 REMARK 465 PRO A 792 REMARK 465 GLN A 793 REMARK 465 ILE A 794 REMARK 465 GLN A 795 REMARK 465 GLN A 796 REMARK 465 GLN A 797 REMARK 465 LYS A 798 REMARK 465 GLU A 799 REMARK 465 GLU A 800 REMARK 465 GLN A 801 REMARK 465 LYS A 802 REMARK 465 LYS A 803 REMARK 465 GLN A 804 REMARK 465 SER A 805 REMARK 465 LEU A 806 REMARK 465 SER A 807 REMARK 465 VAL A 808 REMARK 465 LYS A 809 REMARK 465 ASP A 810 REMARK 465 PHE A 811 REMARK 465 VAL A 812 REMARK 465 SER A 813 REMARK 465 HIS A 814 REMARK 465 SER A 815 REMARK 465 ARG A 816 REMARK 465 PHE A 817 REMARK 465 PHE A 818 REMARK 465 ASN A 819 REMARK 465 ARG A 820 REMARK 465 GLY A 821 REMARK 465 THR A 822 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 SER A 605 O ALA A 607 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 SER A 605 171.30 176.73 REMARK 500 LYS A 610 170.04 -53.07 REMARK 500 LEU A 649 51.32 -97.62 REMARK 500 PHE A 746 -142.31 56.21 REMARK 500 ASP A 751 73.31 -154.44 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 BA A 2 BA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 641 O REMARK 620 2 SER A 644 O 84.1 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 BA A 3 BA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 727 O REMARK 620 2 ASN A 727 OD1 75.0 REMARK 620 3 THR A 730 O 73.0 128.8 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BA A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BA A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BA A 3 DBREF 3NS4 A 554 822 UNP P47061 VPS53_YEAST 554 822 SEQADV 3NS4 GLY A 552 UNP P47061 EXPRESSION TAG SEQADV 3NS4 SER A 553 UNP P47061 EXPRESSION TAG SEQADV 3NS4 MSE A 586 UNP P47061 ILE 586 ENGINEERED MUTATION SEQADV 3NS4 MSE A 722 UNP P47061 LEU 722 ENGINEERED MUTATION SEQRES 1 A 271 GLY SER GLN GLN GLN GLU GLN PRO SER THR LEU ALA PHE SEQRES 2 A 271 ILE LEU SER GLN PHE ASN ARG ASP VAL TYR LYS TRP ASN SEQRES 3 A 271 PHE LEU ASP LYS VAL ILE ASP ILE MSE THR THR ASN PHE SEQRES 4 A 271 VAL SER ASN THR ILE ARG LEU LEU GLN PRO VAL PRO PRO SEQRES 5 A 271 PHE SER LEU ALA GLY SER LYS ARG LYS PHE GLU THR ARG SEQRES 6 A 271 THR VAL VAL ASN ILE GLY GLU GLN LEU LEU LEU ASP LEU SEQRES 7 A 271 GLU LEU LEU LYS GLU ILE PHE HIS THR LEU PRO GLU SER SEQRES 8 A 271 VAL SER ASN ASP SER ASP LEU ARG GLU ASN THR SER TYR SEQRES 9 A 271 LYS ARG VAL LYS ARG HIS ALA ASP ASN ASN ILE ASP GLN SEQRES 10 A 271 LEU LEU LYS PHE ILE LYS LEU LEU MSE ALA PRO LEU ASP SEQRES 11 A 271 SER ALA ASP ASP TYR TYR GLU THR TYR SER LYS LEU THR SEQRES 12 A 271 ASN ASN ASN PRO ASP SER ALA VAL TRP SER PHE VAL LEU SEQRES 13 A 271 ALA LEU LYS GLY ILE PRO TRP ASP LEU ALA LEU TRP LYS SEQRES 14 A 271 LYS MSE TRP SER ALA TYR ASN LEU GLU THR ASP ASP THR SEQRES 15 A 271 ASP GLU GLY SER ARG PRO ASP SER ASN ARG ASP LEU PHE SEQRES 16 A 271 ILE PHE LYS TRP ASP LYS VAL LEU LEU GLY GLN PHE GLU SEQRES 17 A 271 ASN ASN LEU ALA ARG MSE GLN ASP PRO ASN TRP SER LYS SEQRES 18 A 271 PHE VAL ARG GLN ASP LEU LYS ILE SER PRO PRO VAL MSE SEQRES 19 A 271 LYS ARG ILE VAL SER THR PRO GLN ILE GLN GLN GLN LYS SEQRES 20 A 271 GLU GLU GLN LYS LYS GLN SER LEU SER VAL LYS ASP PHE SEQRES 21 A 271 VAL SER HIS SER ARG PHE PHE ASN ARG GLY THR MODRES 3NS4 MSE A 586 MET SELENOMETHIONINE MODRES 3NS4 MSE A 677 MET SELENOMETHIONINE MODRES 3NS4 MSE A 722 MET SELENOMETHIONINE MODRES 3NS4 MSE A 765 MET SELENOMETHIONINE HET MSE A 586 13 HET MSE A 677 8 HET MSE A 722 8 HET MSE A 765 8 HET BA A 1 1 HET BA A 2 1 HET BA A 3 1 HETNAM MSE SELENOMETHIONINE HETNAM BA BARIUM ION FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 2 BA 3(BA 2+) FORMUL 5 HOH *19(H2 O) HELIX 1 1 LEU A 566 PHE A 569 5 4 HELIX 2 2 ASN A 570 GLN A 599 1 30 HELIX 3 3 GLU A 614 LEU A 639 1 26 HELIX 4 4 PRO A 640 SER A 644 5 5 HELIX 5 5 ASN A 652 MSE A 677 1 26 HELIX 6 6 SER A 682 THR A 694 1 13 HELIX 7 7 ASP A 699 GLY A 711 1 13 HELIX 8 8 ASP A 715 THR A 730 1 16 HELIX 9 9 LEU A 745 TRP A 750 5 6 HELIX 10 10 ASP A 751 ARG A 764 1 14 HELIX 11 11 ASP A 767 ASP A 777 1 11 LINK C ILE A 585 N MSE A 586 1555 1555 1.34 LINK C MSE A 586 N THR A 587 1555 1555 1.32 LINK C LEU A 676 N MSE A 677 1555 1555 1.34 LINK C MSE A 677 N ALA A 678 1555 1555 1.32 LINK C LYS A 721 N MSE A 722 1555 1555 1.33 LINK C MSE A 722 N TRP A 723 1555 1555 1.32 LINK C ARG A 764 N MSE A 765 1555 1555 1.33 LINK C MSE A 765 N GLN A 766 1555 1555 1.33 LINK BA BA A 1 OD1 ASN A 620 1555 1555 3.05 LINK BA BA A 2 O GLU A 641 1555 1555 2.86 LINK BA BA A 2 O SER A 644 1555 1555 2.75 LINK BA BA A 3 O ASN A 727 1555 1555 2.92 LINK BA BA A 3 OD1 ASN A 727 1555 1555 2.94 LINK BA BA A 3 O THR A 730 1555 1555 2.96 CISPEP 1 PRO A 602 PRO A 603 0 2.97 CISPEP 2 SER A 609 LYS A 610 0 1.80 CISPEP 3 GLU A 651 ASN A 652 0 -1.26 SITE 1 AC1 2 ASN A 620 GLU A 623 SITE 1 AC2 2 GLU A 641 SER A 644 SITE 1 AC3 2 ASN A 727 THR A 730 CRYST1 127.236 127.236 81.658 90.00 90.00 120.00 P 63 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 0.007859 0.004538 0.000000 0.00000 SCALE2 0.000000 0.009075 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012246 0.00000