HEADER HYDROLASE 07-JUN-10 3ND8 TITLE STRUCTURAL CHARACTERIZATION FOR THE NUCLEOTIDE BINDING ABILITY OF TITLE 2 SUBUNIT A OF THE A1AO ATP SYNTHASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: V-TYPE ATP SYNTHASE ALPHA CHAIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC (UNP RESIDUES 1-240, 617-964); COMPND 5 SYNONYM: A-TYPE ATP SYNTHASE CATALYTIC SUBUNIT A, V-ATPASE SUBUNIT A; COMPND 6 EC: 3.6.3.14; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 OTHER_DETAILS: THE FUSION OF RESIDUES 1-240 AND RESIDUES 617-964 FROM COMPND 10 V-ATPASE SUBUNIT A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS HORIKOSHII; SOURCE 3 ORGANISM_TAXID: 53953; SOURCE 4 STRAIN: OT3; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 DE3 RIL; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET22B(+)-HIS6 KEYWDS HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.KUMAR,G.GRUBER REVDAT 4 01-NOV-23 3ND8 1 REMARK SEQADV REVDAT 3 23-AUG-17 3ND8 1 SOURCE REVDAT 2 11-SEP-13 3ND8 1 JRNL VERSN REVDAT 1 30-MAR-11 3ND8 0 JRNL AUTH M.S.MANIMEKALAI,A.KUMAR,J.JEYAKANTHAN,G.GRUBER JRNL TITL THE TRANSITION-LIKE STATE AND PI ENTRANCE INTO THE CATALYTIC JRNL TITL 2 A SUBUNIT OF THE BIOLOGICAL ENGINE A-ATP SYNTHASE. JRNL REF J.MOL.BIOL. V. 408 736 2011 JRNL REFN ISSN 0022-2836 JRNL PMID 21396943 JRNL DOI 10.1016/J.JMB.2011.03.010 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.KUMAR,S.M.S.MANIMEKALAI,A.M.BALAKRISHNA,J.JEYAKANTHAN, REMARK 1 AUTH 2 G.GRUBER REMARK 1 TITL NUCLEOTIDE BINDING STATES OF SUBUNIT A OF THE A-ATP SYNTHASE REMARK 1 TITL 2 AND THE IMPLICATION OF P-LOOP SWITCH IN EVOLUTION. REMARK 1 REF J.MOL.BIOL. V. 396 301 2010 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 19944110 REMARK 1 DOI 10.1016/J.JMB.2009.11.046 REMARK 1 REFERENCE 2 REMARK 1 AUTH Y.MAEGAWA,H.MORITA,D.IYAGUCHI,M.YAO,N.WATANABE,I.TANAKA REMARK 1 TITL STRUCTURE OF THE CATALYTIC NUCLEOTIDE-BINDING SUBUNIT A OF REMARK 1 TITL 2 A-TYPE ATP SYNTHASE FROM PYROCOCCUS HORIKOSHII REVEALS A REMARK 1 TITL 3 NOVEL DOMAIN RELATED TO THE PERIPHERAL STALK. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 62 483 2006 REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 16627940 REMARK 1 DOI 10.1107/S0907444906006329 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 22.08 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 32281 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) : 0.219 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1717 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2348 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.80 REMARK 3 BIN R VALUE (WORKING SET) : 0.2630 REMARK 3 BIN FREE R VALUE SET COUNT : 123 REMARK 3 BIN FREE R VALUE : 0.3500 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4015 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 278 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.61 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.233 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.150 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.666 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.933 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.915 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4151 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5625 ; 1.426 ; 1.990 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 508 ; 6.411 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 177 ;35.559 ;23.616 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 727 ;17.665 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;22.153 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 621 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3085 ; 0.006 ; 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): 2544 ; 0.769 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4119 ; 1.439 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1607 ; 2.032 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1506 ; 3.478 ; 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 : 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 63 A 188 REMARK 3 ORIGIN FOR THE GROUP (A): 43.7632 24.0198 -29.6955 REMARK 3 T TENSOR REMARK 3 T11: 0.2562 T22: 0.1916 REMARK 3 T33: 0.1620 T12: 0.2027 REMARK 3 T13: 0.1140 T23: 0.0764 REMARK 3 L TENSOR REMARK 3 L11: 3.5754 L22: 1.5305 REMARK 3 L33: 0.1726 L12: -1.3677 REMARK 3 L13: 0.0129 L23: 0.2665 REMARK 3 S TENSOR REMARK 3 S11: 0.4865 S12: 0.4971 S13: -0.0244 REMARK 3 S21: -0.4532 S22: -0.3840 S23: -0.3924 REMARK 3 S31: -0.0322 S32: -0.0710 S33: -0.1024 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 189 A 288 REMARK 3 ORIGIN FOR THE GROUP (A): 25.2334 35.5316 -22.8729 REMARK 3 T TENSOR REMARK 3 T11: 0.1789 T22: 0.1101 REMARK 3 T33: 0.0284 T12: 0.1064 REMARK 3 T13: -0.0094 T23: 0.0053 REMARK 3 L TENSOR REMARK 3 L11: 1.1792 L22: 1.1402 REMARK 3 L33: 0.0315 L12: -0.8750 REMARK 3 L13: -0.1572 L23: 0.1330 REMARK 3 S TENSOR REMARK 3 S11: 0.2211 S12: 0.1769 S13: 0.0173 REMARK 3 S21: -0.2579 S22: -0.2053 S23: 0.0308 REMARK 3 S31: -0.0018 S32: -0.0131 S33: -0.0158 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 289 A 388 REMARK 3 ORIGIN FOR THE GROUP (A): 26.2756 25.4402 -24.7074 REMARK 3 T TENSOR REMARK 3 T11: 0.1976 T22: 0.1547 REMARK 3 T33: 0.0547 T12: 0.1486 REMARK 3 T13: -0.0535 T23: -0.0356 REMARK 3 L TENSOR REMARK 3 L11: 1.9590 L22: 0.9039 REMARK 3 L33: 0.2481 L12: -1.2665 REMARK 3 L13: -0.0860 L23: -0.0562 REMARK 3 S TENSOR REMARK 3 S11: 0.3221 S12: 0.3384 S13: -0.2638 REMARK 3 S21: -0.2298 S22: -0.2851 S23: 0.1672 REMARK 3 S31: 0.0202 S32: 0.0343 S33: -0.0370 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 389 A 488 REMARK 3 ORIGIN FOR THE GROUP (A): 7.7922 39.5042 -10.8548 REMARK 3 T TENSOR REMARK 3 T11: 0.0742 T22: 0.0479 REMARK 3 T33: 0.0780 T12: -0.0122 REMARK 3 T13: 0.0004 T23: 0.0077 REMARK 3 L TENSOR REMARK 3 L11: 0.7431 L22: 0.5269 REMARK 3 L33: 0.6820 L12: -0.4680 REMARK 3 L13: -0.2731 L23: 0.1886 REMARK 3 S TENSOR REMARK 3 S11: 0.0163 S12: 0.0228 S13: -0.1314 REMARK 3 S21: 0.0130 S22: -0.0462 S23: 0.1340 REMARK 3 S31: 0.1361 S32: -0.0679 S33: 0.0300 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 489 A 588 REMARK 3 ORIGIN FOR THE GROUP (A): 11.1144 58.2103 -3.3356 REMARK 3 T TENSOR REMARK 3 T11: 0.0721 T22: 0.0427 REMARK 3 T33: 0.0776 T12: -0.0092 REMARK 3 T13: 0.0144 T23: -0.0032 REMARK 3 L TENSOR REMARK 3 L11: 1.6283 L22: 0.9393 REMARK 3 L33: 0.7172 L12: -0.4830 REMARK 3 L13: -0.7957 L23: 0.0546 REMARK 3 S TENSOR REMARK 3 S11: 0.0460 S12: -0.1150 S13: 0.2059 REMARK 3 S21: 0.0811 S22: 0.0351 S23: 0.0041 REMARK 3 S31: -0.0723 S32: 0.0775 S33: -0.0812 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3ND8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 17-JUN-10. REMARK 100 THE DEPOSITION ID IS D_1000059682. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL26B2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34060 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 1VDZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50% (V/V) MPD, 0.1 M ACETATE (PH 4.5), REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.04850 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 63.90650 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 63.90650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 78.07275 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 63.90650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 63.90650 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 26.02425 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 63.90650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 63.90650 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 78.07275 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 63.90650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 63.90650 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 26.02425 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 52.04850 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: 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 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 MET A 1 REMARK 465 VAL A 2 REMARK 465 ALA A 3 REMARK 465 LYS A 4 REMARK 465 GLY A 5 REMARK 465 ARG A 6 REMARK 465 ILE A 7 REMARK 465 ILE A 8 REMARK 465 ARG A 9 REMARK 465 VAL A 10 REMARK 465 THR A 11 REMARK 465 GLY A 12 REMARK 465 PRO A 13 REMARK 465 LEU A 14 REMARK 465 VAL A 15 REMARK 465 VAL A 16 REMARK 465 ALA A 17 REMARK 465 ASP A 18 REMARK 465 GLY A 19 REMARK 465 MET A 20 REMARK 465 LYS A 21 REMARK 465 GLY A 22 REMARK 465 ALA A 23 REMARK 465 LYS A 24 REMARK 465 MET A 25 REMARK 465 TYR A 26 REMARK 465 GLU A 27 REMARK 465 VAL A 28 REMARK 465 VAL A 29 REMARK 465 ARG A 30 REMARK 465 VAL A 31 REMARK 465 GLY A 32 REMARK 465 GLU A 33 REMARK 465 LEU A 34 REMARK 465 GLY A 35 REMARK 465 LEU A 36 REMARK 465 ILE A 37 REMARK 465 GLY A 38 REMARK 465 GLU A 39 REMARK 465 ILE A 40 REMARK 465 ILE A 41 REMARK 465 ARG A 42 REMARK 465 LEU A 43 REMARK 465 GLU A 44 REMARK 465 GLY A 45 REMARK 465 ASP A 46 REMARK 465 LYS A 47 REMARK 465 ALA A 48 REMARK 465 VAL A 49 REMARK 465 ILE A 50 REMARK 465 GLN A 51 REMARK 465 VAL A 52 REMARK 465 TYR A 53 REMARK 465 GLU A 54 REMARK 465 GLU A 55 REMARK 465 THR A 56 REMARK 465 ALA A 57 REMARK 465 GLY A 58 REMARK 465 VAL A 59 REMARK 465 ARG A 60 REMARK 465 PRO A 61 REMARK 465 GLY A 62 REMARK 465 ARG A 341 REMARK 465 GLU A 342 REMARK 465 ILE A 343 REMARK 465 SER A 344 REMARK 465 GLY A 345 REMARK 465 ARG A 346 REMARK 465 LEU A 347 REMARK 465 GLU A 348 REMARK 465 GLU A 349 REMARK 465 MET A 350 REMARK 465 PRO A 351 REMARK 465 GLY A 352 REMARK 465 GLU A 353 REMARK 465 GLU A 354 REMARK 465 GLY A 355 REMARK 465 TYR A 356 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 63 CB CG CD OE1 OE2 REMARK 470 PRO A 64 CB CG CD REMARK 470 VAL A 65 CB CG1 CG2 REMARK 470 VAL A 66 CB CG1 CG2 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 OE1 GLN A 191 NH2 ARG A 199 2.05 REMARK 500 NH2 ARG A 90 O ILE A 95 2.13 REMARK 500 OE1 GLU A 97 O HOH A 827 2.15 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 LEU A 72 CA - CB - CG ANGL. DEV. = 16.1 DEGREES REMARK 500 ARG A 96 N - CA - CB ANGL. DEV. = -10.9 DEGREES REMARK 500 ARG A 199 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG A 320 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 499 NE - CZ - NH2 ANGL. DEV. = -4.0 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 ALA A 70 29.21 -76.90 REMARK 500 ARG A 79 11.62 88.96 REMARK 500 THR A 82 -9.47 76.22 REMARK 500 LEU A 92 129.78 -35.91 REMARK 500 ILE A 95 -151.50 -91.65 REMARK 500 THR A 99 -150.73 -100.01 REMARK 500 ASP A 101 9.38 -60.76 REMARK 500 PHE A 102 -71.14 -134.97 REMARK 500 THR A 108 -72.00 -139.99 REMARK 500 GLU A 208 -38.36 -151.82 REMARK 500 SER A 334 136.12 -38.41 REMARK 500 TRP A 336 -9.12 -58.23 REMARK 500 GLU A 338 -7.40 -166.69 REMARK 500 PHE A 399 32.72 71.96 REMARK 500 ALA A 429 43.80 -82.64 REMARK 500 ILE A 451 -56.05 -126.41 REMARK 500 TYR A 502 -60.26 -126.32 REMARK 500 LYS A 585 0.33 -69.30 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 MRD A 589 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 590 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 591 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 592 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 593 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 594 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 595 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 596 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3I4L RELATED DB: PDB REMARK 900 RELATED ID: 3I72 RELATED DB: PDB REMARK 900 RELATED ID: 3I73 RELATED DB: PDB REMARK 900 RELATED ID: 3IKJ RELATED DB: PDB REMARK 900 RELATED ID: 3ND9 RELATED DB: PDB DBREF 3ND8 A 1 240 UNP O57728 VATA_PYRHO 1 240 DBREF 3ND8 A 241 588 UNP O57728 VATA_PYRHO 617 964 SEQADV 3ND8 ARG A 79 UNP O57728 GLY 79 ENGINEERED MUTATION SEQADV 3ND8 ALA A 240 UNP O57728 LYS 240 ENGINEERED MUTATION SEQRES 1 A 588 MET VAL ALA LYS GLY ARG ILE ILE ARG VAL THR GLY PRO SEQRES 2 A 588 LEU VAL VAL ALA ASP GLY MET LYS GLY ALA LYS MET TYR SEQRES 3 A 588 GLU VAL VAL ARG VAL GLY GLU LEU GLY LEU ILE GLY GLU SEQRES 4 A 588 ILE ILE ARG LEU GLU GLY ASP LYS ALA VAL ILE GLN VAL SEQRES 5 A 588 TYR GLU GLU THR ALA GLY VAL ARG PRO GLY GLU PRO VAL SEQRES 6 A 588 VAL GLY THR GLY ALA SER LEU SER VAL GLU LEU GLY PRO SEQRES 7 A 588 ARG LEU LEU THR SER ILE TYR ASP GLY ILE GLN ARG PRO SEQRES 8 A 588 LEU GLU VAL ILE ARG GLU LYS THR GLY ASP PHE ILE ALA SEQRES 9 A 588 ARG GLY VAL THR ALA PRO ALA LEU PRO ARG ASP LYS LYS SEQRES 10 A 588 TRP HIS PHE ILE PRO LYS ALA LYS VAL GLY ASP LYS VAL SEQRES 11 A 588 VAL GLY GLY ASP ILE ILE GLY GLU VAL PRO GLU THR SER SEQRES 12 A 588 ILE ILE VAL HIS LYS ILE MET VAL PRO PRO GLY ILE GLU SEQRES 13 A 588 GLY GLU ILE VAL GLU ILE ALA GLU GLU GLY ASP TYR THR SEQRES 14 A 588 ILE GLU GLU VAL ILE ALA LYS VAL LYS THR PRO SER GLY SEQRES 15 A 588 GLU ILE LYS GLU LEU LYS MET TYR GLN ARG TRP PRO VAL SEQRES 16 A 588 ARG VAL LYS ARG PRO TYR LYS GLU LYS LEU PRO PRO GLU SEQRES 17 A 588 VAL PRO LEU ILE THR GLY GLN ARG VAL ILE ASP THR PHE SEQRES 18 A 588 PHE PRO GLN ALA LYS GLY GLY THR ALA ALA ILE PRO GLY SEQRES 19 A 588 PRO PHE GLY SER GLY ALA THR VAL THR GLN HIS GLN LEU SEQRES 20 A 588 ALA LYS TRP SER ASP ALA GLN VAL VAL ILE TYR ILE GLY SEQRES 21 A 588 CYS GLY GLU ARG GLY ASN GLU MET THR ASP VAL LEU GLU SEQRES 22 A 588 GLU PHE PRO LYS LEU LYS ASP PRO LYS THR GLY LYS PRO SEQRES 23 A 588 LEU MET GLU ARG THR VAL LEU ILE ALA ASN THR SER ASN SEQRES 24 A 588 MET PRO VAL ALA ALA ARG GLU ALA SER ILE TYR THR GLY SEQRES 25 A 588 ILE THR ILE ALA GLU TYR PHE ARG ASP MET GLY TYR ASP SEQRES 26 A 588 VAL ALA LEU MET ALA ASP SER THR SER ARG TRP ALA GLU SEQRES 27 A 588 ALA LEU ARG GLU ILE SER GLY ARG LEU GLU GLU MET PRO SEQRES 28 A 588 GLY GLU GLU GLY TYR PRO ALA TYR LEU ALA SER LYS LEU SEQRES 29 A 588 ALA GLU PHE TYR GLU ARG ALA GLY ARG VAL VAL THR LEU SEQRES 30 A 588 GLY SER ASP TYR ARG VAL GLY SER VAL SER VAL ILE GLY SEQRES 31 A 588 ALA VAL SER PRO PRO GLY GLY ASP PHE SER GLU PRO VAL SEQRES 32 A 588 VAL GLN ASN THR LEU ARG VAL VAL LYS VAL PHE TRP ALA SEQRES 33 A 588 LEU ASP ALA ASP LEU ALA ARG ARG ARG HIS PHE PRO ALA SEQRES 34 A 588 ILE ASN TRP LEU THR SER TYR SER LEU TYR VAL ASP ALA SEQRES 35 A 588 VAL LYS ASP TRP TRP HIS LYS ASN ILE ASP PRO GLU TRP SEQRES 36 A 588 LYS ALA MET ARG ASP LYS ALA MET ALA LEU LEU GLN LYS SEQRES 37 A 588 GLU SER GLU LEU GLN GLU ILE VAL ARG ILE VAL GLY PRO SEQRES 38 A 588 ASP ALA LEU PRO GLU ARG GLU ARG ALA ILE LEU LEU VAL SEQRES 39 A 588 ALA ARG MET LEU ARG GLU ASP TYR LEU GLN GLN ASP ALA SEQRES 40 A 588 PHE ASP GLU VAL ASP THR TYR CYS PRO PRO GLU LYS GLN SEQRES 41 A 588 VAL THR MET MET ARG VAL LEU LEU ASN PHE TYR ASP LYS SEQRES 42 A 588 THR MET GLU ALA ILE ASN ARG GLY VAL PRO LEU GLU GLU SEQRES 43 A 588 ILE ALA LYS LEU PRO VAL ARG GLU GLU ILE GLY ARG MET SEQRES 44 A 588 LYS PHE GLU ARG ASP VAL SER LYS ILE ARG SER LEU ILE SEQRES 45 A 588 ASP LYS THR ASN GLU GLN PHE GLU GLU LEU PHE LYS LYS SEQRES 46 A 588 TYR GLY ALA HET MRD A 589 8 HET MRD A 590 8 HET MRD A 591 8 HET MPD A 592 8 HET ACY A 593 4 HET SO4 A 594 5 HET MRD A 595 8 HET MPD A 596 8 HETNAM MRD (4R)-2-METHYLPENTANE-2,4-DIOL HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM ACY ACETIC ACID HETNAM SO4 SULFATE ION FORMUL 2 MRD 4(C6 H14 O2) FORMUL 5 MPD 2(C6 H14 O2) FORMUL 6 ACY C2 H4 O2 FORMUL 7 SO4 O4 S 2- FORMUL 10 HOH *278(H2 O) HELIX 1 1 GLN A 215 PHE A 222 1 8 HELIX 2 2 VAL A 242 SER A 251 1 10 HELIX 3 3 GLY A 265 PHE A 275 1 11 HELIX 4 4 PRO A 286 GLU A 289 5 4 HELIX 5 5 PRO A 301 MET A 322 1 22 HELIX 6 6 ALA A 358 GLU A 369 1 12 HELIX 7 7 GLU A 401 VAL A 411 1 11 HELIX 8 8 ASP A 418 ARG A 424 1 7 HELIX 9 9 TYR A 439 ILE A 451 1 13 HELIX 10 10 GLU A 454 GLY A 480 1 27 HELIX 11 11 PRO A 485 TYR A 502 1 18 HELIX 12 12 PRO A 516 ASN A 539 1 24 HELIX 13 13 PRO A 543 LYS A 549 1 7 HELIX 14 14 PRO A 551 MET A 559 1 9 HELIX 15 15 LYS A 560 GLU A 562 5 3 HELIX 16 16 ASP A 564 LYS A 585 1 22 SHEET 1 A 2 SER A 73 LEU A 76 0 SHEET 2 A 2 GLN A 191 PRO A 194 -1 O GLN A 191 N LEU A 76 SHEET 1 B 7 ILE A 84 TYR A 85 0 SHEET 2 B 7 THR A 291 THR A 297 1 O ALA A 295 N TYR A 85 SHEET 3 B 7 VAL A 255 GLU A 263 1 N GLY A 260 O ASN A 296 SHEET 4 B 7 ASP A 325 ALA A 330 1 O MET A 329 N ILE A 259 SHEET 5 B 7 VAL A 383 VAL A 392 1 O ALA A 391 N ALA A 330 SHEET 6 B 7 GLY A 372 VAL A 375 -1 N VAL A 374 O GLY A 384 SHEET 7 B 7 GLU A 203 LEU A 205 -1 N LEU A 205 O ARG A 373 SHEET 1 C 8 ILE A 84 TYR A 85 0 SHEET 2 C 8 THR A 291 THR A 297 1 O ALA A 295 N TYR A 85 SHEET 3 C 8 VAL A 255 GLU A 263 1 N GLY A 260 O ASN A 296 SHEET 4 C 8 ASP A 325 ALA A 330 1 O MET A 329 N ILE A 259 SHEET 5 C 8 VAL A 383 VAL A 392 1 O ALA A 391 N ALA A 330 SHEET 6 C 8 THR A 229 PRO A 233 1 N ALA A 230 O GLY A 390 SHEET 7 C 8 VAL A 413 LEU A 417 1 O TRP A 415 N ALA A 231 SHEET 8 C 8 ILE A 430 SER A 437 -1 O ASN A 431 N ALA A 416 SHEET 1 D 4 VAL A 146 MET A 150 0 SHEET 2 D 4 ILE A 135 PRO A 140 -1 N VAL A 139 O HIS A 147 SHEET 3 D 4 TRP A 118 PRO A 122 -1 N ILE A 121 O GLU A 138 SHEET 4 D 4 GLY A 166 TYR A 168 -1 O GLY A 166 N PHE A 120 SHEET 1 E 4 LYS A 129 VAL A 130 0 SHEET 2 E 4 GLY A 157 ILE A 162 -1 O GLY A 157 N VAL A 130 SHEET 3 E 4 ALA A 175 LYS A 178 -1 O LYS A 178 N GLU A 158 SHEET 4 E 4 ILE A 184 LEU A 187 -1 O LEU A 187 N ALA A 175 CISPEP 1 GLY A 234 PRO A 235 0 -3.63 CISPEP 2 PHE A 427 PRO A 428 0 -6.07 SITE 1 AC1 3 GLN A 246 LYS A 249 HOH A 807 SITE 1 AC2 7 ASP A 420 ASN A 431 TRP A 432 LEU A 433 SITE 2 AC2 7 HOH A 653 HOH A 717 HOH A 773 SITE 1 AC3 4 LYS A 198 PRO A 200 TYR A 201 LYS A 202 SITE 1 AC4 6 MET A 458 LYS A 461 LEU A 528 ASP A 532 SITE 2 AC4 6 HOH A 720 HOH A 778 SITE 1 AC5 5 ARG A 499 GLU A 500 GLN A 504 HOH A 622 SITE 2 AC5 5 HOH A 799 SITE 1 AC6 4 ALA A 240 THR A 241 ALA A 419 HOH A 874 SITE 1 AC7 4 GLU A 555 GLU A 562 LYS A 567 HOH A 855 SITE 1 AC8 5 ASP A 252 TYR A 514 PRO A 517 HOH A 758 SITE 2 AC8 5 HOH A 860 CRYST1 127.813 127.813 104.097 90.00 90.00 90.00 P 43 21 2 8 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 0.007824 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007824 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009606 0.00000