HEADER HYDROLASE 24-JAN-13 4IX9 TITLE CRYSTAL STRUCTURE OF SUBUNIT F OF V-ATPASE FROM S. CEREVISIAE COMPND MOL_ID: 1; COMPND 2 MOLECULE: V-TYPE PROTON ATPASE SUBUNIT F; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: COUPLING AND REGULATORY SUBUNIT F, UNP RESIDUES 1-94; COMPND 5 SYNONYM: V-ATPASE SUBUNIT F, V-ATPASE 14 KDA SUBUNIT, VACUOLAR PROTON COMPND 6 PUMP SUBUNIT F; COMPND 7 EC: 3.6.3.14; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: ATCC 204508 / S288C; SOURCE 6 GENE: VMA7, YGR020C; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21 DE3; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET9D KEYWDS V-ATPASE, STALK SUBUNIT, SUBUNIT F, ROSSMANN FOLD, REGULATORY, KEYWDS 2 COUPLING, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.BASAK,A.M.BALAKRISHNA,M.S.S.MANIMEKALAI,G.GRUBER REVDAT 3 15-NOV-17 4IX9 1 REMARK REVDAT 2 24-JUL-13 4IX9 1 JRNL REVDAT 1 20-MAR-13 4IX9 0 JRNL AUTH S.BASAK,J.LIM,M.S.S.MANIMEKALAI,A.M.BALAKRISHNA,G.GRUBER JRNL TITL CRYSTAL AND NMR STRUCTURES GIVE INSIGHTS INTO THE ROLE AND JRNL TITL 2 DYNAMICS OF SUBUNIT F OF THE EUKARYOTIC V-ATPASE FROM JRNL TITL 3 SACCHAROMYCES CEREVISIAE JRNL REF J.BIOL.CHEM. V. 288 11930 2013 JRNL REFN ISSN 0021-9258 JRNL PMID 23476018 JRNL DOI 10.1074/JBC.M113.461533 REMARK 2 REMARK 2 RESOLUTION. 2.33 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0025 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) : 2.33 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.53 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 16138 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) : 0.155 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 862 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) : 2.33 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.39 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1128 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.49 REMARK 3 BIN R VALUE (WORKING SET) : 0.1970 REMARK 3 BIN FREE R VALUE SET COUNT : 59 REMARK 3 BIN FREE R VALUE : 0.3310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2934 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 62 REMARK 3 SOLVENT ATOMS : 245 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 37.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.03 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.65000 REMARK 3 B22 (A**2) : -0.28000 REMARK 3 B33 (A**2) : 0.93000 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): 0.402 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.229 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.155 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.446 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3155 ; 0.015 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4279 ; 1.792 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 388 ; 7.231 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 167 ;39.684 ;25.749 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 548 ;19.625 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;15.753 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 501 ; 0.117 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2392 ; 0.007 ; 0.020 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 ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4IX9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-JAN-13. REMARK 100 THE DEPOSITION ID IS D_1000077324. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-MAR-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSRRC REMARK 200 BEAMLINE : BL13B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978836, 0.978683, 0.963626 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : VERTICALLY COLLIMATING REMARK 200 PREMIRROR, TOROIDAL FOCUSING REMARK 200 MIRROR 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 : 17018 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.330 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.33 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.41 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.43400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELXD, SHELX C REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 4000, 0.05M MGCL2,6H2O, 0.1M REMARK 280 TRIS HCL PH 8.8, 10% GLYCEROL, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.21450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.21450 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 1.000000 0.000000 0.000000 23.57300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 80.15600 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 23.57300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 80.15600 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 51.21450 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 23.57300 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 80.15600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 51.21450 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 23.57300 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 80.15600 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 N TRS A 102 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 MSE A 1 REMARK 465 ALA A 2 REMARK 465 MSE B 1 REMARK 465 MSE C 1 REMARK 465 ALA C 2 REMARK 465 MSE D 1 REMARK 465 ALA D 2 REMARK 465 GLU D 3 REMARK 465 LYS D 4 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 MSE B 69 N - CA - CB ANGL. DEV. = -10.8 DEGREES REMARK 500 ARG B 78 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG B 78 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 MSE C 69 N - CA - CB ANGL. DEV. = -13.1 DEGREES REMARK 500 MSE C 69 CG - SE - CE ANGL. DEV. = -14.4 DEGREES REMARK 500 ARG D 80 NE - CZ - NH1 ANGL. DEV. = 3.5 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 GLN B 33 17.41 59.75 REMARK 500 GLU B 59 -39.50 -131.56 REMARK 500 LYS C 44 -56.02 -122.83 REMARK 500 GLU C 59 -38.94 -134.51 REMARK 500 GLN D 33 10.66 56.71 REMARK 500 GLU D 59 -37.31 -132.28 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 TRS A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS B 104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL C 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS D 101 DBREF 4IX9 A 1 94 UNP P39111 VATF_YEAST 1 94 DBREF 4IX9 B 1 94 UNP P39111 VATF_YEAST 1 94 DBREF 4IX9 C 1 94 UNP P39111 VATF_YEAST 1 94 DBREF 4IX9 D 1 94 UNP P39111 VATF_YEAST 1 94 SEQADV 4IX9 MSE A 69 UNP P39111 ILE 69 ENGINEERED MUTATION SEQADV 4IX9 MSE B 69 UNP P39111 ILE 69 ENGINEERED MUTATION SEQADV 4IX9 MSE C 69 UNP P39111 ILE 69 ENGINEERED MUTATION SEQADV 4IX9 MSE D 69 UNP P39111 ILE 69 ENGINEERED MUTATION SEQRES 1 A 94 MSE ALA GLU LYS ARG THR LEU ILE ALA VAL ILE ALA ASP SEQRES 2 A 94 GLU ASP THR THR THR GLY LEU LEU LEU ALA GLY ILE GLY SEQRES 3 A 94 GLN ILE THR PRO GLU THR GLN GLU LYS ASN PHE PHE VAL SEQRES 4 A 94 TYR GLN GLU GLY LYS THR THR LYS GLU GLU ILE THR ASP SEQRES 5 A 94 LYS PHE ASN HIS PHE THR GLU GLU ARG ASP ASP ILE ALA SEQRES 6 A 94 ILE LEU LEU MSE ASN GLN HIS ILE ALA GLU ASN ILE ARG SEQRES 7 A 94 ALA ARG VAL ASP SER PHE THR ASN ALA PHE PRO ALA ILE SEQRES 8 A 94 LEU GLU ILE SEQRES 1 B 94 MSE ALA GLU LYS ARG THR LEU ILE ALA VAL ILE ALA ASP SEQRES 2 B 94 GLU ASP THR THR THR GLY LEU LEU LEU ALA GLY ILE GLY SEQRES 3 B 94 GLN ILE THR PRO GLU THR GLN GLU LYS ASN PHE PHE VAL SEQRES 4 B 94 TYR GLN GLU GLY LYS THR THR LYS GLU GLU ILE THR ASP SEQRES 5 B 94 LYS PHE ASN HIS PHE THR GLU GLU ARG ASP ASP ILE ALA SEQRES 6 B 94 ILE LEU LEU MSE ASN GLN HIS ILE ALA GLU ASN ILE ARG SEQRES 7 B 94 ALA ARG VAL ASP SER PHE THR ASN ALA PHE PRO ALA ILE SEQRES 8 B 94 LEU GLU ILE SEQRES 1 C 94 MSE ALA GLU LYS ARG THR LEU ILE ALA VAL ILE ALA ASP SEQRES 2 C 94 GLU ASP THR THR THR GLY LEU LEU LEU ALA GLY ILE GLY SEQRES 3 C 94 GLN ILE THR PRO GLU THR GLN GLU LYS ASN PHE PHE VAL SEQRES 4 C 94 TYR GLN GLU GLY LYS THR THR LYS GLU GLU ILE THR ASP SEQRES 5 C 94 LYS PHE ASN HIS PHE THR GLU GLU ARG ASP ASP ILE ALA SEQRES 6 C 94 ILE LEU LEU MSE ASN GLN HIS ILE ALA GLU ASN ILE ARG SEQRES 7 C 94 ALA ARG VAL ASP SER PHE THR ASN ALA PHE PRO ALA ILE SEQRES 8 C 94 LEU GLU ILE SEQRES 1 D 94 MSE ALA GLU LYS ARG THR LEU ILE ALA VAL ILE ALA ASP SEQRES 2 D 94 GLU ASP THR THR THR GLY LEU LEU LEU ALA GLY ILE GLY SEQRES 3 D 94 GLN ILE THR PRO GLU THR GLN GLU LYS ASN PHE PHE VAL SEQRES 4 D 94 TYR GLN GLU GLY LYS THR THR LYS GLU GLU ILE THR ASP SEQRES 5 D 94 LYS PHE ASN HIS PHE THR GLU GLU ARG ASP ASP ILE ALA SEQRES 6 D 94 ILE LEU LEU MSE ASN GLN HIS ILE ALA GLU ASN ILE ARG SEQRES 7 D 94 ALA ARG VAL ASP SER PHE THR ASN ALA PHE PRO ALA ILE SEQRES 8 D 94 LEU GLU ILE MODRES 4IX9 MSE A 69 MET SELENOMETHIONINE MODRES 4IX9 MSE B 69 MET SELENOMETHIONINE MODRES 4IX9 MSE C 69 MET SELENOMETHIONINE MODRES 4IX9 MSE D 69 MET SELENOMETHIONINE HET MSE A 69 8 HET MSE B 69 8 HET MSE C 69 8 HET MSE D 69 8 HET TRS A 101 8 HET TRS A 102 8 HET GOL B 101 6 HET GOL B 102 6 HET GOL B 103 6 HET TRS B 104 8 HET GOL B 105 6 HET GOL C 101 6 HET TRS D 101 8 HETNAM MSE SELENOMETHIONINE HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM GOL GLYCEROL HETSYN TRS TRIS BUFFER HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 5 TRS 4(C4 H12 N O3 1+) FORMUL 7 GOL 5(C3 H8 O3) FORMUL 14 HOH *245(H2 O) HELIX 1 1 GLU A 14 ALA A 23 1 10 HELIX 2 2 THR A 46 GLU A 60 1 15 HELIX 3 3 ASN A 70 ILE A 77 1 8 HELIX 4 4 ILE A 77 SER A 83 1 7 HELIX 5 5 ASP B 13 ALA B 23 1 11 HELIX 6 6 THR B 46 GLU B 59 1 14 HELIX 7 7 GLN B 71 ILE B 77 1 7 HELIX 8 8 ILE B 77 PHE B 84 1 8 HELIX 9 9 GLU C 14 ALA C 23 1 10 HELIX 10 10 THR C 46 GLU C 59 1 14 HELIX 11 11 GLN C 71 ILE C 77 1 7 HELIX 12 12 ILE C 77 SER C 83 1 7 HELIX 13 13 ASP D 13 ALA D 23 1 11 HELIX 14 14 THR D 46 GLU D 60 1 15 HELIX 15 15 ASN D 70 ILE D 77 1 8 HELIX 16 16 ILE D 77 SER D 83 1 7 SHEET 1 A 4 PHE A 37 TYR A 40 0 SHEET 2 A 4 LEU A 7 ASP A 13 1 N ALA A 12 O TYR A 40 SHEET 3 A 4 ILE A 64 MSE A 69 1 O LEU A 68 N ALA A 9 SHEET 4 A 4 ALA A 90 GLU A 93 1 O ALA A 90 N LEU A 67 SHEET 1 B 4 PHE B 37 VAL B 39 0 SHEET 2 B 4 LEU B 7 ALA B 12 1 N ALA B 12 O PHE B 38 SHEET 3 B 4 ILE B 64 ASN B 70 1 O LEU B 68 N ALA B 9 SHEET 4 B 4 ALA B 90 ILE B 94 1 O ALA B 90 N LEU B 67 SHEET 1 C 4 PHE C 37 TYR C 40 0 SHEET 2 C 4 LEU C 7 ASP C 13 1 N ALA C 12 O TYR C 40 SHEET 3 C 4 ILE C 64 ASN C 70 1 O ALA C 65 N LEU C 7 SHEET 4 C 4 ALA C 90 ILE C 94 1 O ILE C 94 N MSE C 69 SHEET 1 D 4 PHE D 37 VAL D 39 0 SHEET 2 D 4 LEU D 7 ALA D 12 1 N ALA D 12 O PHE D 38 SHEET 3 D 4 ILE D 64 MSE D 69 1 O LEU D 68 N ALA D 9 SHEET 4 D 4 ALA D 90 GLU D 93 1 O ALA D 90 N LEU D 67 LINK C LEU A 68 N MSE A 69 1555 1555 1.34 LINK C MSE A 69 N ASN A 70 1555 1555 1.34 LINK C LEU B 68 N MSE B 69 1555 1555 1.33 LINK C MSE B 69 N ASN B 70 1555 1555 1.33 LINK C LEU C 68 N MSE C 69 1555 1555 1.33 LINK C MSE C 69 N ASN C 70 1555 1555 1.34 LINK C LEU D 68 N MSE D 69 1555 1555 1.33 LINK C MSE D 69 N ASN D 70 1555 1555 1.33 CISPEP 1 PHE A 88 PRO A 89 0 -7.03 CISPEP 2 PHE B 88 PRO B 89 0 -7.92 CISPEP 3 PHE C 88 PRO C 89 0 -5.91 CISPEP 4 PHE C 88 PRO C 89 0 8.08 CISPEP 5 PHE D 88 PRO D 89 0 -4.13 SITE 1 AC1 8 LEU A 7 ILE A 8 GLY A 24 ILE A 25 SITE 2 AC1 8 GLY A 26 GLN A 27 ASN A 36 HOH A 219 SITE 1 AC2 5 TYR A 40 GLU A 42 HIS A 72 ASN A 76 SITE 2 AC2 5 HOH A 213 SITE 1 AC3 9 GLN B 41 GLU B 42 HOH B 212 HOH B 222 SITE 2 AC3 9 HOH B 264 GLU C 48 GLU C 75 HOH C 239 SITE 3 AC3 9 HOH C 264 SITE 1 AC4 7 LEU B 7 ILE B 8 GLY B 24 GLY B 26 SITE 2 AC4 7 GLN B 27 ASN B 36 HOH B 259 SITE 1 AC5 8 LYS B 47 GLU B 75 ASN B 76 ILE B 77 SITE 2 AC5 8 ARG B 78 ALA B 79 ARG B 80 HOH B 269 SITE 1 AC6 10 TYR B 40 GLU B 42 HIS B 72 ASN B 76 SITE 2 AC6 10 HOH B 234 TYR C 40 GLU C 42 HIS C 72 SITE 3 AC6 10 ASN C 76 HOH C 269 SITE 1 AC7 11 ASP B 13 THR B 16 ASN B 70 HIS B 72 SITE 2 AC7 11 HOH B 223 HOH B 231 HOH B 233 HOH B 238 SITE 3 AC7 11 HOH B 241 GLN C 71 HIS C 72 SITE 1 AC8 7 ILE C 8 GLY C 24 ILE C 25 GLY C 26 SITE 2 AC8 7 GLN C 27 ASN C 36 HOH C 212 SITE 1 AC9 8 ILE D 8 GLY D 24 ILE D 25 GLY D 26 SITE 2 AC9 8 GLN D 27 HOH D 201 HOH D 213 HOH D 226 CRYST1 47.146 160.312 102.429 90.00 90.00 90.00 C 2 2 21 32 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 0.021211 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006238 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009763 0.00000 MTRIX1 1 1.000000 0.000000 0.000000 0.00000 1 MTRIX2 1 0.000000 1.000000 0.000000 0.00000 1 MTRIX3 1 0.000000 0.000000 1.000000 0.00000 1 MTRIX1 2 -0.999860 0.007839 0.014761 0.58776 1 MTRIX2 2 -0.015752 -0.146710 -0.989054 54.46471 1 MTRIX3 2 -0.005588 -0.989148 0.146813 58.04155 1 MTRIX1 3 0.999532 -0.025697 0.016624 -0.92782 1 MTRIX2 3 0.015245 -0.052959 -0.998480 51.24261 1 MTRIX3 3 0.026538 0.998266 -0.052543 -11.38320 1 MTRIX1 4 -0.990311 -0.095805 -0.100523 31.98954 1 MTRIX2 4 -0.079824 0.985081 -0.152457 8.99947 1 MTRIX3 4 0.113629 -0.142956 -0.983185 99.83098 1