HEADER TRANSFERASE 23-JAN-17 5MXM TITLE THE X-RAY STRUCTURE OF HUMAN M190I PHOSPHOGLYCERATE KINASE 1 MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHOGLYCERATE KINASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CELL MIGRATION-INDUCING GENE 10 PROTEIN,PRIMER RECOGNITION COMPND 5 PROTEIN 2,PRP 2; COMPND 6 EC: 2.7.2.3; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PGK1, PGKA, MIG10, OK/SW-CL.110; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.ILARI,A.FIORILLO,A.CIPOLLONE,M.PETROSINO REVDAT 3 16-OCT-19 5MXM 1 REMARK REVDAT 2 12-DEC-18 5MXM 1 JRNL REVDAT 1 14-FEB-18 5MXM 0 JRNL AUTH A.FIORILLO,M.PETROSINO,A.ILARI,A.PASQUO,A.CIPOLLONE,M.MAGGI, JRNL AUTH 2 R.CHIARALUCE,V.CONSALVI JRNL TITL THE PHOSPHOGLYCERATE KINASE 1 VARIANTS FOUND IN CARCINOMA JRNL TITL 2 CELLS DISPLAY DIFFERENT CATALYTIC ACTIVITY AND JRNL TITL 3 CONFORMATIONAL STABILITY COMPARED TO THE NATIVE ENZYME. JRNL REF PLOS ONE V. 13 99191 2018 JRNL REFN ESSN 1932-6203 JRNL PMID 29995887 JRNL DOI 10.1371/JOURNAL.PONE.0199191 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 69.91 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 23510 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1190 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) : 2.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.10 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1692 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.39 REMARK 3 BIN R VALUE (WORKING SET) : 0.2950 REMARK 3 BIN FREE R VALUE SET COUNT : 81 REMARK 3 BIN FREE R VALUE : 0.3950 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3110 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 53 REMARK 3 SOLVENT ATOMS : 282 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.32000 REMARK 3 B22 (A**2) : 1.80000 REMARK 3 B33 (A**2) : -1.48000 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): 0.220 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.181 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.135 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.182 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.923 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3235 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3205 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4362 ; 1.953 ; 1.996 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7407 ; 1.047 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 420 ; 6.723 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 120 ;43.478 ;25.750 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 586 ;15.280 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;20.027 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 500 ; 0.127 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3596 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 648 ; 0.002 ; 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): 1665 ; 1.662 ; 2.068 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1664 ; 1.663 ; 2.067 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2081 ; 2.506 ; 3.095 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2082 ; 2.506 ; 3.096 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1570 ; 2.380 ; 2.307 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1570 ; 2.379 ; 2.307 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2279 ; 3.711 ; 3.339 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3701 ; 9.278 ;25.774 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3702 ; 9.277 ;25.776 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 : NULL 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 REMARK 4 REMARK 4 5MXM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-JAN-17. REMARK 100 THE DEPOSITION ID IS D_1200003130. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JUN-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.894 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24685 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 69.910 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 5.990 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.1500 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG MME 30% W/V, BIS TRIS 0.1 M PH=7, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 19.18150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 54.50500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.55200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.50500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.18150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.55200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 TOTAL BURIED SURFACE AREA: 1700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17130 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 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 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 SER A 1 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 HOH A 678 O HOH A 859 2.00 REMARK 500 O HOH A 852 O HOH A 873 2.02 REMARK 500 O HOH A 633 O HOH A 667 2.07 REMARK 500 N LEU A 2 O HOH A 601 2.13 REMARK 500 O HOH A 830 O HOH A 868 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 606 O HOH A 688 1655 1.96 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 17 NE - CZ - NH1 ANGL. DEV. = 3.0 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 LYS A 14 108.88 -53.94 REMARK 500 ASN A 31 26.17 44.56 REMARK 500 MET A 71 57.46 -146.65 REMARK 500 ASN A 109 73.04 -151.07 REMARK 500 ASN A 120 112.83 -36.61 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 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 374 OD2 REMARK 620 2 ADP A 503 O3B 87.8 REMARK 620 3 HOH A 722 O 94.8 92.3 REMARK 620 4 HOH A 732 O 179.0 93.2 85.2 REMARK 620 5 ADP A 503 O2A 96.4 88.8 168.7 83.6 REMARK 620 6 HOH A 759 O 93.1 176.6 90.9 86.0 87.8 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 3PG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADP A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BTB A 504 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5M3U RELATED DB: PDB REMARK 900 5M3U IS ANOTHER MUTANT OF THE SAME PROTEIN STUDIED IN THE SAME REMARK 900 PROJECT. DBREF 5MXM A 1 416 UNP P00558 PGK1_HUMAN 2 417 SEQADV 5MXM ILE A 189 UNP P00558 MET 190 ENGINEERED MUTATION SEQRES 1 A 416 SER LEU SER ASN LYS LEU THR LEU ASP LYS LEU ASP VAL SEQRES 2 A 416 LYS GLY LYS ARG VAL VAL MET ARG VAL ASP PHE ASN VAL SEQRES 3 A 416 PRO MET LYS ASN ASN GLN ILE THR ASN ASN GLN ARG ILE SEQRES 4 A 416 LYS ALA ALA VAL PRO SER ILE LYS PHE CYS LEU ASP ASN SEQRES 5 A 416 GLY ALA LYS SER VAL VAL LEU MET SER HIS LEU GLY ARG SEQRES 6 A 416 PRO ASP GLY VAL PRO MET PRO ASP LYS TYR SER LEU GLU SEQRES 7 A 416 PRO VAL ALA VAL GLU LEU LYS SER LEU LEU GLY LYS ASP SEQRES 8 A 416 VAL LEU PHE LEU LYS ASP CYS VAL GLY PRO GLU VAL GLU SEQRES 9 A 416 LYS ALA CYS ALA ASN PRO ALA ALA GLY SER VAL ILE LEU SEQRES 10 A 416 LEU GLU ASN LEU ARG PHE HIS VAL GLU GLU GLU GLY LYS SEQRES 11 A 416 GLY LYS ASP ALA SER GLY ASN LYS VAL LYS ALA GLU PRO SEQRES 12 A 416 ALA LYS ILE GLU ALA PHE ARG ALA SER LEU SER LYS LEU SEQRES 13 A 416 GLY ASP VAL TYR VAL ASN ASP ALA PHE GLY THR ALA HIS SEQRES 14 A 416 ARG ALA HIS SER SER MET VAL GLY VAL ASN LEU PRO GLN SEQRES 15 A 416 LYS ALA GLY GLY PHE LEU ILE LYS LYS GLU LEU ASN TYR SEQRES 16 A 416 PHE ALA LYS ALA LEU GLU SER PRO GLU ARG PRO PHE LEU SEQRES 17 A 416 ALA ILE LEU GLY GLY ALA LYS VAL ALA ASP LYS ILE GLN SEQRES 18 A 416 LEU ILE ASN ASN MET LEU ASP LYS VAL ASN GLU MET ILE SEQRES 19 A 416 ILE GLY GLY GLY MET ALA PHE THR PHE LEU LYS VAL LEU SEQRES 20 A 416 ASN ASN MET GLU ILE GLY THR SER LEU PHE ASP GLU GLU SEQRES 21 A 416 GLY ALA LYS ILE VAL LYS ASP LEU MET SER LYS ALA GLU SEQRES 22 A 416 LYS ASN GLY VAL LYS ILE THR LEU PRO VAL ASP PHE VAL SEQRES 23 A 416 THR ALA ASP LYS PHE ASP GLU ASN ALA LYS THR GLY GLN SEQRES 24 A 416 ALA THR VAL ALA SER GLY ILE PRO ALA GLY TRP MET GLY SEQRES 25 A 416 LEU ASP CYS GLY PRO GLU SER SER LYS LYS TYR ALA GLU SEQRES 26 A 416 ALA VAL THR ARG ALA LYS GLN ILE VAL TRP ASN GLY PRO SEQRES 27 A 416 VAL GLY VAL PHE GLU TRP GLU ALA PHE ALA ARG GLY THR SEQRES 28 A 416 LYS ALA LEU MET ASP GLU VAL VAL LYS ALA THR SER ARG SEQRES 29 A 416 GLY CYS ILE THR ILE ILE GLY GLY GLY ASP THR ALA THR SEQRES 30 A 416 CYS CYS ALA LYS TRP ASN THR GLU ASP LYS VAL SER HIS SEQRES 31 A 416 VAL SER THR GLY GLY GLY ALA SER LEU GLU LEU LEU GLU SEQRES 32 A 416 GLY LYS VAL LEU PRO GLY VAL ASP ALA LEU SER ASN ILE HET MG A 501 1 HET 3PG A 502 11 HET ADP A 503 27 HET BTB A 504 14 HETNAM MG MAGNESIUM ION HETNAM 3PG 3-PHOSPHOGLYCERIC ACID HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM BTB 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL- HETNAM 2 BTB PROPANE-1,3-DIOL HETSYN BTB BIS-TRIS BUFFER FORMUL 2 MG MG 2+ FORMUL 3 3PG C3 H7 O7 P FORMUL 4 ADP C10 H15 N5 O10 P2 FORMUL 5 BTB C8 H19 N O5 FORMUL 6 HOH *282(H2 O) HELIX 1 AA1 THR A 7 LEU A 11 5 5 HELIX 2 AA2 ASN A 36 ASN A 52 1 17 HELIX 3 AA3 MET A 71 SER A 76 1 6 HELIX 4 AA4 LEU A 77 GLY A 89 1 13 HELIX 5 AA5 GLY A 100 ASN A 109 1 10 HELIX 6 AA6 ASN A 120 HIS A 124 5 5 HELIX 7 AA7 GLU A 142 LEU A 156 1 15 HELIX 8 AA8 ALA A 164 ALA A 168 5 5 HELIX 9 AA9 HIS A 172 GLY A 177 1 6 HELIX 10 AB1 GLY A 186 SER A 202 1 17 HELIX 11 AB2 LYS A 215 GLN A 221 1 7 HELIX 12 AB3 LEU A 222 LEU A 227 1 6 HELIX 13 AB4 MET A 239 ASN A 249 1 11 HELIX 14 AB5 GLU A 260 LYS A 263 5 4 HELIX 15 AB6 ILE A 264 ASN A 275 1 12 HELIX 16 AB7 GLY A 316 ALA A 330 1 15 HELIX 17 AB8 TRP A 344 PHE A 347 5 4 HELIX 18 AB9 ALA A 348 ARG A 364 1 17 HELIX 19 AC1 ASP A 374 TRP A 382 1 9 HELIX 20 AC2 GLY A 395 GLY A 404 1 10 HELIX 21 AC3 LEU A 407 ALA A 412 1 6 SHEET 1 AA1 6 LEU A 93 PHE A 94 0 SHEET 2 AA1 6 SER A 114 LEU A 117 1 O LEU A 117 N LEU A 93 SHEET 3 AA1 6 SER A 56 MET A 60 1 N LEU A 59 O ILE A 116 SHEET 4 AA1 6 ARG A 17 ARG A 21 1 N VAL A 18 O VAL A 58 SHEET 5 AA1 6 VAL A 159 ASN A 162 1 O VAL A 159 N VAL A 19 SHEET 6 AA1 6 LYS A 183 GLY A 185 1 O ALA A 184 N ASN A 162 SHEET 1 AA2 2 MET A 28 LYS A 29 0 SHEET 2 AA2 2 GLN A 32 ILE A 33 -1 O GLN A 32 N LYS A 29 SHEET 1 AA3 2 LYS A 130 LYS A 132 0 SHEET 2 AA3 2 LYS A 138 LYS A 140 -1 O VAL A 139 N GLY A 131 SHEET 1 AA4 6 LYS A 278 THR A 280 0 SHEET 2 AA4 6 GLU A 232 ILE A 235 1 N MET A 233 O LYS A 278 SHEET 3 AA4 6 PHE A 207 LEU A 211 1 N LEU A 211 O ILE A 234 SHEET 4 AA4 6 GLN A 332 ASN A 336 1 O VAL A 334 N ILE A 210 SHEET 5 AA4 6 ILE A 367 GLY A 371 1 O ILE A 367 N ILE A 333 SHEET 6 AA4 6 HIS A 390 SER A 392 1 O HIS A 390 N ILE A 370 SHEET 1 AA5 3 THR A 297 THR A 301 0 SHEET 2 AA5 3 ASP A 284 ALA A 288 -1 N PHE A 285 O ALA A 300 SHEET 3 AA5 3 MET A 311 CYS A 315 -1 O MET A 311 N ALA A 288 LINK OD2 ASP A 374 MG MG A 501 1555 1555 2.09 LINK MG MG A 501 O3B ADP A 503 1555 1555 2.04 LINK MG MG A 501 O HOH A 722 1555 1555 2.08 LINK MG MG A 501 O HOH A 732 1555 1555 2.15 LINK MG MG A 501 O2A ADP A 503 1555 1555 2.01 LINK MG MG A 501 O HOH A 759 1555 1555 2.08 CISPEP 1 ARG A 205 PRO A 206 0 -1.88 SITE 1 AC1 5 ASP A 374 ADP A 503 HOH A 722 HOH A 732 SITE 2 AC1 5 HOH A 759 SITE 1 AC2 16 ASP A 23 ASN A 25 ARG A 38 HIS A 62 SITE 2 AC2 16 ARG A 65 ARG A 122 GLY A 166 ARG A 170 SITE 3 AC2 16 LYS A 215 HOH A 636 HOH A 650 HOH A 722 SITE 4 AC2 16 HOH A 726 HOH A 732 HOH A 741 HOH A 795 SITE 1 AC3 30 GLY A 213 ALA A 214 LYS A 215 LYS A 219 SITE 2 AC3 30 GLY A 237 GLY A 238 PHE A 241 LEU A 256 SITE 3 AC3 30 GLY A 312 ASN A 336 PRO A 338 GLY A 340 SITE 4 AC3 30 VAL A 341 GLU A 343 GLY A 371 GLY A 372 SITE 5 AC3 30 GLY A 373 ASP A 374 THR A 375 MG A 501 SITE 6 AC3 30 HOH A 605 HOH A 636 HOH A 705 HOH A 722 SITE 7 AC3 30 HOH A 726 HOH A 729 HOH A 732 HOH A 754 SITE 8 AC3 30 HOH A 759 HOH A 799 SITE 1 AC4 11 HIS A 169 GLN A 221 GLU A 293 ASN A 294 SITE 2 AC4 11 ALA A 295 THR A 297 ALA A 346 GLU A 400 SITE 3 AC4 11 LYS A 405 HOH A 602 HOH A 675 CRYST1 38.363 91.104 109.010 90.00 90.00 90.00 P 21 21 21 4 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 0.026067 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010976 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009173 0.00000