HEADER HYDROLASE 20-JUL-10 3O0T TITLE CRYSTAL STRUCTURE OF HUMAN PHOSPHOGLYCERATE MUTASE FAMILY MEMBER 5 TITLE 2 (PGAM5) IN COMPLEX WITH PHOSPHATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE/THREONINE-PROTEIN PHOSPHATASE PGAM5, MITOCHONDRIAL; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 90-289; COMPND 5 SYNONYM: PHOSPHOGLYCERATE MUTASE FAMILY MEMBER 5, BCL-XL-BINDING COMPND 6 PROTEIN V68; COMPND 7 EC: 3.1.3.16; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PGAM5; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-R3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4 KEYWDS STRUCTURAL GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, KEYWDS 2 PHOSPHOGLYCERATE MUTASE FAMILY MEMBER 5, PGAM5, BXLBV68, MGC5352 KEYWDS 3 PROTEIN, SERINE/THREONINE PHOSPHATASE, MITOCHONDRIAL PROTEIN, KEYWDS 4 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.CHAIKUAD,I.ALFANO,S.PICAUD,P.FILIPPAKOPOULOS,A.BARR,F.VON DELFT, AUTHOR 2 C.H.ARROWSMITH,A.M.EDWARDS,J.WEIGELT,C.BOUNTRA,K.TAKEDA,H.ICHIJO, AUTHOR 3 S.KNAPP,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 4 22-MAY-24 3O0T 1 REMARK REVDAT 3 26-JUL-23 3O0T 1 JRNL REMARK SEQADV REVDAT 2 12-JUL-17 3O0T 1 JRNL REVDAT 1 06-OCT-10 3O0T 0 JRNL AUTH A.CHAIKUAD,P.FILIPPAKOPOULOS,S.R.MARCSISIN,S.PICAUD, JRNL AUTH 2 M.SCHRODER,S.SEKINE,H.ICHIJO,J.R.ENGEN,K.TAKEDA,S.KNAPP JRNL TITL STRUCTURES OF PGAM5 PROVIDE INSIGHT INTO ACTIVE SITE JRNL TITL 2 PLASTICITY AND MULTIMERIC ASSEMBLY. JRNL REF STRUCTURE V. 25 1089 2017 JRNL REFN ISSN 0969-2126 JRNL PMID 28648608 JRNL DOI 10.1016/J.STR.2017.05.020 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0066 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.54 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 32302 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) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1697 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2368 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.3730 REMARK 3 BIN FREE R VALUE SET COUNT : 116 REMARK 3 BIN FREE R VALUE : 0.4350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3039 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 64 REMARK 3 SOLVENT ATOMS : 178 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.08 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.05000 REMARK 3 B22 (A**2) : -0.12000 REMARK 3 B33 (A**2) : -0.94000 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): 0.142 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.102 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.974 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3207 ; 0.016 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2273 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4324 ; 1.672 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5466 ; 0.886 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 393 ; 5.830 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 154 ;31.505 ;21.818 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 545 ;13.390 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 40 ;22.623 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 477 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3525 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 693 ; 0.001 ; 0.020 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 : 6 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 -1 A 177 REMARK 3 ORIGIN FOR THE GROUP (A): 18.0400 -7.1370 -19.7420 REMARK 3 T TENSOR REMARK 3 T11: 0.2548 T22: 0.1585 REMARK 3 T33: 0.0351 T12: 0.1148 REMARK 3 T13: 0.0094 T23: 0.0252 REMARK 3 L TENSOR REMARK 3 L11: 1.0389 L22: 0.5370 REMARK 3 L33: 1.8417 L12: 0.1441 REMARK 3 L13: -0.6660 L23: 0.0284 REMARK 3 S TENSOR REMARK 3 S11: -0.1730 S12: -0.1745 S13: -0.1818 REMARK 3 S21: 0.0312 S22: 0.0534 S23: -0.0193 REMARK 3 S31: 0.4402 S32: 0.2700 S33: 0.1196 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 178 A 214 REMARK 3 ORIGIN FOR THE GROUP (A): 0.2870 -6.1560 -22.0070 REMARK 3 T TENSOR REMARK 3 T11: 0.2381 T22: 0.1129 REMARK 3 T33: 0.0675 T12: -0.0469 REMARK 3 T13: -0.0131 T23: 0.0175 REMARK 3 L TENSOR REMARK 3 L11: 2.7131 L22: 2.1514 REMARK 3 L33: 4.8150 L12: 1.1623 REMARK 3 L13: 2.6162 L23: 0.7703 REMARK 3 S TENSOR REMARK 3 S11: -0.2505 S12: 0.1018 S13: 0.1066 REMARK 3 S21: -0.1615 S22: 0.0525 S23: 0.1518 REMARK 3 S31: 0.0766 S32: 0.1733 S33: 0.1979 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 215 A 289 REMARK 3 ORIGIN FOR THE GROUP (A): 12.5280 3.0860 -17.8780 REMARK 3 T TENSOR REMARK 3 T11: 0.1920 T22: 0.1685 REMARK 3 T33: 0.0386 T12: 0.0490 REMARK 3 T13: -0.0077 T23: 0.0078 REMARK 3 L TENSOR REMARK 3 L11: 0.3672 L22: 0.4737 REMARK 3 L33: 0.9941 L12: 0.4045 REMARK 3 L13: -0.1537 L23: -0.1147 REMARK 3 S TENSOR REMARK 3 S11: -0.0188 S12: -0.0359 S13: 0.0380 REMARK 3 S21: 0.0049 S22: 0.0259 S23: 0.0544 REMARK 3 S31: 0.1412 S32: 0.1610 S33: -0.0072 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 -1 B 175 REMARK 3 ORIGIN FOR THE GROUP (A): 24.3630 24.8670 -23.5570 REMARK 3 T TENSOR REMARK 3 T11: 0.1524 T22: 0.1479 REMARK 3 T33: 0.4463 T12: -0.1333 REMARK 3 T13: 0.1736 T23: -0.0673 REMARK 3 L TENSOR REMARK 3 L11: 1.4025 L22: 2.8692 REMARK 3 L33: 2.6828 L12: -1.3926 REMARK 3 L13: -0.2458 L23: 0.5477 REMARK 3 S TENSOR REMARK 3 S11: 0.2545 S12: -0.0650 S13: 0.7607 REMARK 3 S21: -0.2943 S22: 0.1641 S23: -0.7904 REMARK 3 S31: -0.4699 S32: 0.4368 S33: -0.4186 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 176 B 219 REMARK 3 ORIGIN FOR THE GROUP (A): 9.5640 31.5270 -23.6220 REMARK 3 T TENSOR REMARK 3 T11: 0.2772 T22: 0.0495 REMARK 3 T33: 0.1690 T12: 0.0310 REMARK 3 T13: -0.0190 T23: -0.0058 REMARK 3 L TENSOR REMARK 3 L11: 1.1280 L22: 3.8119 REMARK 3 L33: 2.6260 L12: -2.0014 REMARK 3 L13: -0.0315 L23: 0.8680 REMARK 3 S TENSOR REMARK 3 S11: 0.0983 S12: 0.0407 S13: 0.4084 REMARK 3 S21: -0.3497 S22: -0.1109 S23: -0.7028 REMARK 3 S31: -0.4503 S32: -0.0795 S33: 0.0126 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 220 B 289 REMARK 3 ORIGIN FOR THE GROUP (A): 15.2650 16.9710 -23.5690 REMARK 3 T TENSOR REMARK 3 T11: 0.1422 T22: 0.1233 REMARK 3 T33: 0.0754 T12: -0.0159 REMARK 3 T13: -0.0163 T23: -0.0066 REMARK 3 L TENSOR REMARK 3 L11: 1.1784 L22: 1.7250 REMARK 3 L33: 1.0855 L12: -0.9015 REMARK 3 L13: -0.2674 L23: 0.4825 REMARK 3 S TENSOR REMARK 3 S11: 0.0510 S12: -0.0055 S13: 0.2445 REMARK 3 S21: -0.1206 S22: 0.0493 S23: -0.0685 REMARK 3 S31: -0.1150 S32: 0.1618 S33: -0.1003 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 ADDED IN THE RIDING REMARK 3 POSITIONS BUT NOT OUTPUT TO COORDINATE FILE REMARK 4 REMARK 4 3O0T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-JUL-10. REMARK 100 THE DEPOSITION ID IS D_1000060521. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-DEC-09 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.542 REMARK 200 MONOCHROMATOR : FLAT GRAPHITE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33999 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 36.540 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.66900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG-SMEAR (PEG3350 & PEG MME5K), REMARK 280 0.1M HEPES PH 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 35.48000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 40.64500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.54500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 40.64500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.48000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 36.54500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18050 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL 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 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 36.54500 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -40.64500 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 PRO A 183 REMARK 465 ASP A 184 REMARK 465 PRO A 185 REMARK 465 PRO A 186 REMARK 465 VAL A 187 REMARK 465 SER A 188 REMARK 465 HIS A 189 REMARK 465 TRP A 190 REMARK 465 LYS A 191 REMARK 465 PRO B 180 REMARK 465 ILE B 181 REMARK 465 GLU B 182 REMARK 465 PRO B 183 REMARK 465 ASP B 184 REMARK 465 PRO B 185 REMARK 465 PRO B 186 REMARK 465 VAL B 187 REMARK 465 SER B 188 REMARK 465 HIS B 189 REMARK 465 TRP B 190 REMARK 465 LYS B 191 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 LYS A 116 CE NZ REMARK 470 LYS A 141 CD CE NZ REMARK 470 ILE A 181 CG1 CG2 CD1 REMARK 470 GLU A 182 CG CD OE1 OE2 REMARK 470 LEU A 250 CG CD1 CD2 REMARK 470 GLU B 193 CG CD OE1 OE2 REMARK 470 ARG B 218 CG CD NE CZ NH1 NH2 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 OG SER A -1 O HOH A 306 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS B 229 CB CYS B 229 SG -0.096 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 ARG A 240 CG - CD - NE ANGL. DEV. = -13.2 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 HIS A 105 154.56 -48.92 REMARK 500 CYS A 229 -124.29 -154.92 REMARK 500 ASP B 111 51.76 -98.03 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 PO4 A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 290 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 290 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 291 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 6 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 7 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 8 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 9 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 10 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 11 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3MXO RELATED DB: PDB DBREF 3O0T A 90 289 UNP Q96HS1 PGAM5_HUMAN 90 289 DBREF 3O0T B 90 289 UNP Q96HS1 PGAM5_HUMAN 90 289 SEQADV 3O0T SER A -1 UNP Q96HS1 EXPRESSION TAG SEQADV 3O0T MET A 0 UNP Q96HS1 EXPRESSION TAG SEQADV 3O0T SER B -1 UNP Q96HS1 EXPRESSION TAG SEQADV 3O0T MET B 0 UNP Q96HS1 EXPRESSION TAG SEQRES 1 A 202 SER MET ASP HIS TYR LYS ALA LYS ALA THR ARG HIS ILE SEQRES 2 A 202 PHE LEU ILE ARG HIS SER GLN TYR HIS VAL ASP GLY SER SEQRES 3 A 202 LEU GLU LYS ASP ARG THR LEU THR PRO LEU GLY ARG GLU SEQRES 4 A 202 GLN ALA GLU LEU THR GLY LEU ARG LEU ALA SER LEU GLY SEQRES 5 A 202 LEU LYS PHE ASN LYS ILE VAL HIS SER SER MET THR ARG SEQRES 6 A 202 ALA ILE GLU THR THR ASP ILE ILE SER ARG HIS LEU PRO SEQRES 7 A 202 GLY VAL CYS LYS VAL SER THR ASP LEU LEU ARG GLU GLY SEQRES 8 A 202 ALA PRO ILE GLU PRO ASP PRO PRO VAL SER HIS TRP LYS SEQRES 9 A 202 PRO GLU ALA VAL GLN TYR TYR GLU ASP GLY ALA ARG ILE SEQRES 10 A 202 GLU ALA ALA PHE ARG ASN TYR ILE HIS ARG ALA ASP ALA SEQRES 11 A 202 ARG GLN GLU GLU ASP SER TYR GLU ILE PHE ILE CYS HIS SEQRES 12 A 202 ALA ASN VAL ILE ARG TYR ILE VAL CYS ARG ALA LEU GLN SEQRES 13 A 202 PHE PRO PRO GLU GLY TRP LEU ARG LEU SER LEU ASN ASN SEQRES 14 A 202 GLY SER ILE THR HIS LEU VAL ILE ARG PRO ASN GLY ARG SEQRES 15 A 202 VAL ALA LEU ARG THR LEU GLY ASP THR GLY PHE MET PRO SEQRES 16 A 202 PRO ASP LYS ILE THR ARG SER SEQRES 1 B 202 SER MET ASP HIS TYR LYS ALA LYS ALA THR ARG HIS ILE SEQRES 2 B 202 PHE LEU ILE ARG HIS SER GLN TYR HIS VAL ASP GLY SER SEQRES 3 B 202 LEU GLU LYS ASP ARG THR LEU THR PRO LEU GLY ARG GLU SEQRES 4 B 202 GLN ALA GLU LEU THR GLY LEU ARG LEU ALA SER LEU GLY SEQRES 5 B 202 LEU LYS PHE ASN LYS ILE VAL HIS SER SER MET THR ARG SEQRES 6 B 202 ALA ILE GLU THR THR ASP ILE ILE SER ARG HIS LEU PRO SEQRES 7 B 202 GLY VAL CYS LYS VAL SER THR ASP LEU LEU ARG GLU GLY SEQRES 8 B 202 ALA PRO ILE GLU PRO ASP PRO PRO VAL SER HIS TRP LYS SEQRES 9 B 202 PRO GLU ALA VAL GLN TYR TYR GLU ASP GLY ALA ARG ILE SEQRES 10 B 202 GLU ALA ALA PHE ARG ASN TYR ILE HIS ARG ALA ASP ALA SEQRES 11 B 202 ARG GLN GLU GLU ASP SER TYR GLU ILE PHE ILE CYS HIS SEQRES 12 B 202 ALA ASN VAL ILE ARG TYR ILE VAL CYS ARG ALA LEU GLN SEQRES 13 B 202 PHE PRO PRO GLU GLY TRP LEU ARG LEU SER LEU ASN ASN SEQRES 14 B 202 GLY SER ILE THR HIS LEU VAL ILE ARG PRO ASN GLY ARG SEQRES 15 B 202 VAL ALA LEU ARG THR LEU GLY ASP THR GLY PHE MET PRO SEQRES 16 B 202 PRO ASP LYS ILE THR ARG SER HET PO4 A 1 5 HET EDO A 290 4 HET EDO A 4 4 HET EDO A 5 8 HET EDO A 7 4 HET EDO A 8 4 HET EDO A 9 4 HET EDO A 11 4 HET PO4 B 2 5 HET PO4 B 3 5 HET PO4 B 4 5 HET EDO B 290 4 HET EDO B 291 4 HET EDO B 6 4 HET EDO B 10 4 HETNAM PO4 PHOSPHATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 PO4 4(O4 P 3-) FORMUL 4 EDO 11(C2 H6 O2) FORMUL 18 HOH *178(H2 O) HELIX 1 1 LEU A 114 ARG A 118 5 5 HELIX 2 2 THR A 121 LEU A 138 1 18 HELIX 3 3 MET A 150 ARG A 162 1 13 HELIX 4 4 ASP A 173 ARG A 176 5 4 HELIX 5 5 GLU A 193 ILE A 212 1 20 HELIX 6 6 HIS A 230 LEU A 242 1 13 HELIX 7 7 PRO A 245 LEU A 252 5 8 HELIX 8 8 PRO A 282 ILE A 286 5 5 HELIX 9 9 LEU B 114 ARG B 118 5 5 HELIX 10 10 THR B 121 SER B 137 1 17 HELIX 11 11 MET B 150 LEU B 164 1 15 HELIX 12 12 ASP B 173 ARG B 176 5 4 HELIX 13 13 PRO B 192 ILE B 212 1 21 HELIX 14 14 HIS B 230 LEU B 242 1 13 HELIX 15 15 PRO B 245 LEU B 252 5 8 HELIX 16 16 PRO B 282 ILE B 286 5 5 SHEET 1 A 6 LYS A 169 THR A 172 0 SHEET 2 A 6 LYS A 144 SER A 148 1 N HIS A 147 O VAL A 170 SHEET 3 A 6 SER A 223 CYS A 229 1 O ILE A 226 N VAL A 146 SHEET 4 A 6 ARG A 98 ARG A 104 1 N ILE A 103 O PHE A 227 SHEET 5 A 6 ILE A 259 ILE A 264 -1 O THR A 260 N LEU A 102 SHEET 6 A 6 VAL A 270 ASP A 277 -1 O ALA A 271 N VAL A 263 SHEET 1 B 6 LYS B 169 SER B 171 0 SHEET 2 B 6 LYS B 144 HIS B 147 1 N HIS B 147 O VAL B 170 SHEET 3 B 6 SER B 223 CYS B 229 1 O ILE B 228 N VAL B 146 SHEET 4 B 6 ARG B 98 ARG B 104 1 N PHE B 101 O GLU B 225 SHEET 5 B 6 ILE B 259 ILE B 264 -1 O THR B 260 N LEU B 102 SHEET 6 B 6 VAL B 270 ASP B 277 -1 O ALA B 271 N VAL B 263 SITE 1 AC1 8 ARG A 104 HIS A 105 ARG A 152 GLU A 177 SITE 2 AC1 8 HIS A 230 ALA A 231 HOH A 341 HOH A 351 SITE 1 AC2 8 HOH B 42 ARG B 104 HIS B 105 TYR B 108 SITE 2 AC2 8 ARG B 152 GLU B 177 HIS B 230 ALA B 231 SITE 1 AC3 6 ARG A 251 SER B -1 ARG B 269 HOH B 294 SITE 2 AC3 6 HOH B 301 HOH B 330 SITE 1 AC4 4 ARG B 265 ARG B 273 HOH B 321 HOH B 322 SITE 1 AC5 7 ARG A 104 ALA A 231 ARG A 235 SER A 253 SITE 2 AC5 7 LEU A 254 ARG A 288 HOH A 352 SITE 1 AC6 5 HOH A 3 ARG B 134 ILE B 259 ASP B 277 SITE 2 AC6 5 EDO B 291 SITE 1 AC7 6 HOH A 3 HOH A 53 ASN A 255 HIS B 261 SITE 2 AC7 6 THR B 274 EDO B 290 SITE 1 AC8 7 GLY A 279 PHE A 280 MET A 281 PRO A 282 SITE 2 AC8 7 ARG B 134 PHE B 280 HOH B 293 SITE 1 AC9 6 MET A 0 ASP A 90 ARG A 209 HIS A 213 SITE 2 AC9 6 ARG A 240 HOH A 310 SITE 1 BC1 5 HOH B 77 ARG B 104 ALA B 231 ARG B 235 SITE 2 BC1 5 LEU B 254 SITE 1 BC2 5 HOH A 27 ARG A 134 ILE A 259 THR A 274 SITE 2 BC2 5 ASP A 277 SITE 1 BC3 3 PRO A 122 PRO A 266 ASN A 267 SITE 1 BC4 2 ARG A 162 HOH A 354 SITE 1 BC5 5 HIS B 147 THR B 157 ASP B 158 LYS B 169 SITE 2 BC5 5 HOH B 297 SITE 1 BC6 4 THR A 157 ASP A 158 LYS A 169 HOH A 355 CRYST1 70.960 73.090 81.290 90.00 90.00 90.00 P 21 21 21 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 0.014092 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013682 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012302 0.00000