HEADER TRANSFERASE 25-AUG-09 3IS4 TITLE CRYSTAL STRUCTURE OF LEISHMANIA MEXICANA PYRUVATE KINASE (LMPYK)IN TITLE 2 COMPLEX WITH 1,3,6,8-PYRENETETRASULFONIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRUVATE KINASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PK; COMPND 5 EC: 2.7.1.40; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEISHMANIA MEXICANA; SOURCE 3 ORGANISM_TAXID: 5665; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: ROSETTA (DE3)PLYSS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET3A; SOURCE 9 OTHER_DETAILS: PROMASTIGOTES KEYWDS TRANSFERASE, ALLOSTERIC ENZYME, ATP-BINDING, GLYCOLYSIS, KINASE, KEYWDS 2 MAGNESIUM, METAL-BINDING, NUCLEOTIDE-BINDING, PYRUVATE EXPDTA X-RAY DIFFRACTION AUTHOR M.D.WALKINSHAW,H.P.MORGAN REVDAT 3 01-NOV-23 3IS4 1 REMARK REVDAT 2 04-OCT-17 3IS4 1 REMARK REVDAT 1 23-MAR-10 3IS4 0 JRNL AUTH H.P.MORGAN,I.W.MCNAE,K.Y.HSIN,P.A.MICHELS, JRNL AUTH 2 L.A.FOTHERGILL-GILMORE,M.D.WALKINSHAW JRNL TITL AN IMPROVED STRATEGY FOR THE CRYSTALLIZATION OF LEISHMANIA JRNL TITL 2 MEXICANA PYRUVATE KINASE JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 66 215 2010 JRNL REFN ESSN 1744-3091 JRNL PMID 20208146 JRNL DOI 10.1107/S1744309109053494 REMARK 2 REMARK 2 RESOLUTION. 2.10 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.69 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.100 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 73091 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) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.231 REMARK 3 FREE R VALUE : 0.263 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3865 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5339 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2440 REMARK 3 BIN FREE R VALUE SET COUNT : 258 REMARK 3 BIN FREE R VALUE : 0.2840 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7506 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 62 REMARK 3 SOLVENT ATOMS : 643 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.61 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.45 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.10000 REMARK 3 B22 (A**2) : 2.30000 REMARK 3 B33 (A**2) : -2.40000 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): 0.223 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.189 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.126 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.634 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.929 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.908 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7681 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10402 ; 0.990 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 980 ; 5.070 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 340 ;36.014 ;24.765 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1320 ;13.594 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 48 ;14.528 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1204 ; 0.067 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5744 ; 0.003 ; 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): 4880 ; 0.436 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7886 ; 0.825 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2801 ; 1.186 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2516 ; 2.098 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 0 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 785 ; 0.01 ; 0.05 REMARK 3 TIGHT THERMAL 1 B (A**2): 785 ; 0.07 ; 0.50 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: NULL REMARK 4 REMARK 4 3IS4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-AUG-09. REMARK 100 THE DEPOSITION ID IS D_1000054796. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-NOV-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : SILICON REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR555 FLAT PANEL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 76957 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 20.690 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.100 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 9.000 REMARK 200 R MERGE (I) : 0.07600 REMARK 200 R SYM (I) : 0.02700 REMARK 200 FOR THE DATA SET : 20.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.70 REMARK 200 R MERGE FOR SHELL (I) : 0.52700 REMARK 200 R SYM FOR SHELL (I) : 0.18900 REMARK 200 FOR SHELL : 4.200 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: PDB ENTRY 1PKL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12-16% PEG 8000, 20MM TRIETHANOLAMINE REMARK 280 -HCL BUFFER (PH 7.2), 50MM MGCL2, 100MM KCL, 10% GLYCEROL, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 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+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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 61.43000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 64.93000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 82.60000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 61.43000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 64.93000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 82.60000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 61.43000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 64.93000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 82.60000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 61.43000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 64.93000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 82.60000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 12670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 73030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -71.0 KCAL/MOL 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 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 CAM PTK A 501 LIES ON A SPECIAL POSITION. REMARK 375 CAN PTK A 501 LIES ON A SPECIAL POSITION. REMARK 375 CBA PTK A 501 LIES ON A SPECIAL POSITION. REMARK 375 CBB PTK A 501 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 MET A 0 REMARK 465 ASP A 482 REMARK 465 HIS A 483 REMARK 465 LYS A 484 REMARK 465 VAL A 485 REMARK 465 LYS A 486 REMARK 465 GLY A 487 REMARK 465 MET B 0 REMARK 465 ASP B 482 REMARK 465 HIS B 483 REMARK 465 LYS B 484 REMARK 465 VAL B 485 REMARK 465 LYS B 486 REMARK 465 GLY B 487 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 ASP A 144 75.66 63.73 REMARK 500 THR A 296 141.61 68.86 REMARK 500 SER A 330 -96.93 -110.76 REMARK 500 ASN A 415 34.02 -95.52 REMARK 500 LYS A 453 -4.43 70.19 REMARK 500 ALA A 489 121.50 -172.66 REMARK 500 ASN A 490 4.39 -152.99 REMARK 500 ASP B 144 76.60 64.81 REMARK 500 THR B 296 142.59 71.25 REMARK 500 MET B 298 -62.05 -92.29 REMARK 500 SER B 330 -102.49 -108.38 REMARK 500 ASN B 415 33.71 -95.36 REMARK 500 LYS B 453 -7.91 72.29 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 GOL A 499 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PTK A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 499 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 503 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE OF L. MEXICANA PYRUVATE KINASE HAS BEEN DETERMINED IN REMARK 999 THE LABORATORY OF PROF. PAUL MICHELS, PUBLISHED AND DEPOSITED IN REMARK 999 GENBANK. HOWEVER, THE SEQUENCE AS APPEARED IN GENBANK CONTAINED REMARK 999 ERRORS. THE STRUCTURAL INFORMATION AS DEPOSITED IN PDB CORRESPONDS REMARK 999 WITH THE SEQUENCE AS WE DETERMINED AND PUBLISHED. DBREF 3IS4 A 0 498 UNP Q27686 KPYK_LEIME 1 499 DBREF 3IS4 B 0 498 UNP Q27686 KPYK_LEIME 1 499 SEQADV 3IS4 SER A 382 UNP Q27686 GLY 383 SEE REMARK 999 SEQADV 3IS4 TYR A 389 UNP Q27686 SER 390 SEE REMARK 999 SEQADV 3IS4 ARG A 404 UNP Q27686 ALA 405 SEE REMARK 999 SEQADV 3IS4 SER A 405 UNP Q27686 GLY 406 SEE REMARK 999 SEQADV 3IS4 SER B 382 UNP Q27686 GLY 383 SEE REMARK 999 SEQADV 3IS4 TYR B 389 UNP Q27686 SER 390 SEE REMARK 999 SEQADV 3IS4 ARG B 404 UNP Q27686 ALA 405 SEE REMARK 999 SEQADV 3IS4 SER B 405 UNP Q27686 GLY 406 SEE REMARK 999 SEQRES 1 A 499 MET SER GLN LEU ALA HIS ASN LEU THR LEU SER ILE PHE SEQRES 2 A 499 ASP PRO VAL ALA ASN TYR ARG ALA ALA ARG ILE ILE CYS SEQRES 3 A 499 THR ILE GLY PRO SER THR GLN SER VAL GLU ALA LEU LYS SEQRES 4 A 499 GLY LEU ILE GLN SER GLY MET SER VAL ALA ARG MET ASN SEQRES 5 A 499 PHE SER HIS GLY SER HIS GLU TYR HIS GLN THR THR ILE SEQRES 6 A 499 ASN ASN VAL ARG GLN ALA ALA ALA GLU LEU GLY VAL ASN SEQRES 7 A 499 ILE ALA ILE ALA LEU ASP THR LYS GLY PRO GLU ILE ARG SEQRES 8 A 499 THR GLY GLN PHE VAL GLY GLY ASP ALA VAL MET GLU ARG SEQRES 9 A 499 GLY ALA THR CYS TYR VAL THR THR ASP PRO ALA PHE ALA SEQRES 10 A 499 ASP LYS GLY THR LYS ASP LYS PHE TYR ILE ASP TYR GLN SEQRES 11 A 499 ASN LEU SER LYS VAL VAL ARG PRO GLY ASN TYR ILE TYR SEQRES 12 A 499 ILE ASP ASP GLY ILE LEU ILE LEU GLN VAL GLN SER HIS SEQRES 13 A 499 GLU ASP GLU GLN THR LEU GLU CYS THR VAL THR ASN SER SEQRES 14 A 499 HIS THR ILE SER ASP ARG ARG GLY VAL ASN LEU PRO GLY SEQRES 15 A 499 CYS ASP VAL ASP LEU PRO ALA VAL SER ALA LYS ASP ARG SEQRES 16 A 499 VAL ASP LEU GLN PHE GLY VAL GLU GLN GLY VAL ASP MET SEQRES 17 A 499 ILE PHE ALA SER PHE ILE ARG SER ALA GLU GLN VAL GLY SEQRES 18 A 499 ASP VAL ARG LYS ALA LEU GLY PRO LYS GLY ARG ASP ILE SEQRES 19 A 499 MET ILE ILE CYS LYS ILE GLU ASN HIS GLN GLY VAL GLN SEQRES 20 A 499 ASN ILE ASP SER ILE ILE GLU GLU SER ASP GLY ILE MET SEQRES 21 A 499 VAL ALA ARG GLY ASP LEU GLY VAL GLU ILE PRO ALA GLU SEQRES 22 A 499 LYS VAL VAL VAL ALA GLN LYS ILE LEU ILE SER LYS CYS SEQRES 23 A 499 ASN VAL ALA GLY LYS PRO VAL ILE CYS ALA THR GLN MET SEQRES 24 A 499 LEU GLU SER MET THR TYR ASN PRO ARG PRO THR ARG ALA SEQRES 25 A 499 GLU VAL SER ASP VAL ALA ASN ALA VAL PHE ASN GLY ALA SEQRES 26 A 499 ASP CYS VAL MET LEU SER GLY GLU THR ALA LYS GLY LYS SEQRES 27 A 499 TYR PRO ASN GLU VAL VAL GLN TYR MET ALA ARG ILE CYS SEQRES 28 A 499 LEU GLU ALA GLN SER ALA LEU ASN GLU TYR VAL PHE PHE SEQRES 29 A 499 ASN SER ILE LYS LYS LEU GLN HIS ILE PRO MET SER ALA SEQRES 30 A 499 ASP GLU ALA VAL CYS SER SER ALA VAL ASN SER VAL TYR SEQRES 31 A 499 GLU THR LYS ALA LYS ALA MET VAL VAL LEU SER ASN THR SEQRES 32 A 499 GLY ARG SER ALA ARG LEU VAL ALA LYS TYR ARG PRO ASN SEQRES 33 A 499 CYS PRO ILE VAL CYS VAL THR THR ARG LEU GLN THR CYS SEQRES 34 A 499 ARG GLN LEU ASN ILE THR GLN GLY VAL GLU SER VAL PHE SEQRES 35 A 499 PHE ASP ALA ASP LYS LEU GLY HIS ASP GLU GLY LYS GLU SEQRES 36 A 499 HIS ARG VAL ALA ALA GLY VAL GLU PHE ALA LYS SER LYS SEQRES 37 A 499 GLY TYR VAL GLN THR GLY ASP TYR CYS VAL VAL ILE HIS SEQRES 38 A 499 ALA ASP HIS LYS VAL LYS GLY TYR ALA ASN GLN THR ARG SEQRES 39 A 499 ILE LEU LEU VAL GLU SEQRES 1 B 499 MET SER GLN LEU ALA HIS ASN LEU THR LEU SER ILE PHE SEQRES 2 B 499 ASP PRO VAL ALA ASN TYR ARG ALA ALA ARG ILE ILE CYS SEQRES 3 B 499 THR ILE GLY PRO SER THR GLN SER VAL GLU ALA LEU LYS SEQRES 4 B 499 GLY LEU ILE GLN SER GLY MET SER VAL ALA ARG MET ASN SEQRES 5 B 499 PHE SER HIS GLY SER HIS GLU TYR HIS GLN THR THR ILE SEQRES 6 B 499 ASN ASN VAL ARG GLN ALA ALA ALA GLU LEU GLY VAL ASN SEQRES 7 B 499 ILE ALA ILE ALA LEU ASP THR LYS GLY PRO GLU ILE ARG SEQRES 8 B 499 THR GLY GLN PHE VAL GLY GLY ASP ALA VAL MET GLU ARG SEQRES 9 B 499 GLY ALA THR CYS TYR VAL THR THR ASP PRO ALA PHE ALA SEQRES 10 B 499 ASP LYS GLY THR LYS ASP LYS PHE TYR ILE ASP TYR GLN SEQRES 11 B 499 ASN LEU SER LYS VAL VAL ARG PRO GLY ASN TYR ILE TYR SEQRES 12 B 499 ILE ASP ASP GLY ILE LEU ILE LEU GLN VAL GLN SER HIS SEQRES 13 B 499 GLU ASP GLU GLN THR LEU GLU CYS THR VAL THR ASN SER SEQRES 14 B 499 HIS THR ILE SER ASP ARG ARG GLY VAL ASN LEU PRO GLY SEQRES 15 B 499 CYS ASP VAL ASP LEU PRO ALA VAL SER ALA LYS ASP ARG SEQRES 16 B 499 VAL ASP LEU GLN PHE GLY VAL GLU GLN GLY VAL ASP MET SEQRES 17 B 499 ILE PHE ALA SER PHE ILE ARG SER ALA GLU GLN VAL GLY SEQRES 18 B 499 ASP VAL ARG LYS ALA LEU GLY PRO LYS GLY ARG ASP ILE SEQRES 19 B 499 MET ILE ILE CYS LYS ILE GLU ASN HIS GLN GLY VAL GLN SEQRES 20 B 499 ASN ILE ASP SER ILE ILE GLU GLU SER ASP GLY ILE MET SEQRES 21 B 499 VAL ALA ARG GLY ASP LEU GLY VAL GLU ILE PRO ALA GLU SEQRES 22 B 499 LYS VAL VAL VAL ALA GLN LYS ILE LEU ILE SER LYS CYS SEQRES 23 B 499 ASN VAL ALA GLY LYS PRO VAL ILE CYS ALA THR GLN MET SEQRES 24 B 499 LEU GLU SER MET THR TYR ASN PRO ARG PRO THR ARG ALA SEQRES 25 B 499 GLU VAL SER ASP VAL ALA ASN ALA VAL PHE ASN GLY ALA SEQRES 26 B 499 ASP CYS VAL MET LEU SER GLY GLU THR ALA LYS GLY LYS SEQRES 27 B 499 TYR PRO ASN GLU VAL VAL GLN TYR MET ALA ARG ILE CYS SEQRES 28 B 499 LEU GLU ALA GLN SER ALA LEU ASN GLU TYR VAL PHE PHE SEQRES 29 B 499 ASN SER ILE LYS LYS LEU GLN HIS ILE PRO MET SER ALA SEQRES 30 B 499 ASP GLU ALA VAL CYS SER SER ALA VAL ASN SER VAL TYR SEQRES 31 B 499 GLU THR LYS ALA LYS ALA MET VAL VAL LEU SER ASN THR SEQRES 32 B 499 GLY ARG SER ALA ARG LEU VAL ALA LYS TYR ARG PRO ASN SEQRES 33 B 499 CYS PRO ILE VAL CYS VAL THR THR ARG LEU GLN THR CYS SEQRES 34 B 499 ARG GLN LEU ASN ILE THR GLN GLY VAL GLU SER VAL PHE SEQRES 35 B 499 PHE ASP ALA ASP LYS LEU GLY HIS ASP GLU GLY LYS GLU SEQRES 36 B 499 HIS ARG VAL ALA ALA GLY VAL GLU PHE ALA LYS SER LYS SEQRES 37 B 499 GLY TYR VAL GLN THR GLY ASP TYR CYS VAL VAL ILE HIS SEQRES 38 B 499 ALA ASP HIS LYS VAL LYS GLY TYR ALA ASN GLN THR ARG SEQRES 39 B 499 ILE LEU LEU VAL GLU HET GOL A 499 6 HET GOL A 500 6 HET PTK A 501 32 HET GOL A 502 6 HET GOL A 503 6 HET GOL B 499 6 HETNAM GOL GLYCEROL HETNAM PTK PYRENE-1,3,6,8-TETRASULFONIC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN PTK 1,3,6,8-PYRENETETRASULFONIC ACID FORMUL 3 GOL 5(C3 H8 O3) FORMUL 5 PTK C16 H10 O12 S4 FORMUL 9 HOH *643(H2 O) HELIX 1 1 SER A 1 THR A 8 1 8 HELIX 2 2 SER A 33 GLY A 44 1 12 HELIX 3 3 SER A 56 GLY A 75 1 20 HELIX 4 4 ASP A 112 ALA A 116 5 5 HELIX 5 5 ASN A 130 VAL A 135 1 6 HELIX 6 6 SER A 190 GLN A 203 1 14 HELIX 7 7 SER A 215 GLY A 227 1 13 HELIX 8 8 PRO A 228 ARG A 231 5 4 HELIX 9 9 ASN A 241 ASN A 247 1 7 HELIX 10 10 ASN A 247 SER A 255 1 9 HELIX 11 11 ARG A 262 ILE A 269 1 8 HELIX 12 12 PRO A 270 GLY A 289 1 20 HELIX 13 13 LEU A 299 TYR A 304 5 6 HELIX 14 14 THR A 309 GLY A 323 1 15 HELIX 15 15 SER A 330 LYS A 335 1 6 HELIX 16 16 TYR A 338 LEU A 357 1 20 HELIX 17 17 ASN A 358 LEU A 369 1 12 HELIX 18 18 SER A 375 LYS A 392 1 18 HELIX 19 19 GLY A 403 TYR A 412 1 10 HELIX 20 20 ARG A 424 LEU A 431 1 8 HELIX 21 21 ASN A 432 THR A 434 5 3 HELIX 22 22 ASP A 443 GLY A 448 1 6 HELIX 23 23 LYS A 453 LYS A 467 1 15 HELIX 24 24 SER B 1 THR B 8 1 8 HELIX 25 25 SER B 33 GLY B 44 1 12 HELIX 26 26 SER B 56 GLY B 75 1 20 HELIX 27 27 ASP B 112 ASP B 117 5 6 HELIX 28 28 ASN B 130 VAL B 135 1 6 HELIX 29 29 SER B 190 GLY B 204 1 15 HELIX 30 30 SER B 215 GLY B 227 1 13 HELIX 31 31 PRO B 228 ARG B 231 5 4 HELIX 32 32 ASN B 241 ASN B 247 1 7 HELIX 33 33 ASN B 247 SER B 255 1 9 HELIX 34 34 ARG B 262 ILE B 269 1 8 HELIX 35 35 PRO B 270 GLY B 289 1 20 HELIX 36 36 LEU B 299 TYR B 304 5 6 HELIX 37 37 THR B 309 GLY B 323 1 15 HELIX 38 38 SER B 330 LYS B 335 1 6 HELIX 39 39 TYR B 338 LEU B 357 1 20 HELIX 40 40 ASN B 358 LEU B 369 1 12 HELIX 41 41 SER B 375 LYS B 392 1 18 HELIX 42 42 GLY B 403 TYR B 412 1 10 HELIX 43 43 ARG B 424 LEU B 431 1 8 HELIX 44 44 ASN B 432 THR B 434 5 3 HELIX 45 45 ASP B 443 GLY B 448 1 6 HELIX 46 46 LYS B 453 LYS B 467 1 15 SHEET 1 A 9 ARG A 22 THR A 26 0 SHEET 2 A 9 MET A 45 ASN A 51 1 O VAL A 47 N CYS A 25 SHEET 3 A 9 ALA A 79 ASP A 83 1 O ALA A 79 N ALA A 48 SHEET 4 A 9 MET A 207 ALA A 210 1 O PHE A 209 N LEU A 82 SHEET 5 A 9 MET A 234 ILE A 239 1 O ILE A 236 N ILE A 208 SHEET 6 A 9 ILE A 258 ALA A 261 1 O MET A 259 N ILE A 239 SHEET 7 A 9 VAL A 292 ALA A 295 1 O ILE A 293 N VAL A 260 SHEET 8 A 9 CYS A 326 LEU A 329 1 O CYS A 326 N CYS A 294 SHEET 9 A 9 ARG A 22 THR A 26 1 N ILE A 24 O VAL A 327 SHEET 1 B 2 ASP A 98 MET A 101 0 SHEET 2 B 2 HIS A 169 SER A 172 -1 O ILE A 171 N ALA A 99 SHEET 1 C 6 LYS A 123 TYR A 125 0 SHEET 2 C 6 THR A 106 THR A 110 1 N THR A 110 O PHE A 124 SHEET 3 C 6 THR A 160 VAL A 165 -1 O CYS A 163 N CYS A 107 SHEET 4 C 6 LEU A 148 HIS A 155 -1 N GLN A 153 O GLU A 162 SHEET 5 C 6 TYR A 140 ILE A 143 -1 N ILE A 141 O LEU A 150 SHEET 6 C 6 VAL A 177 ASN A 178 -1 O ASN A 178 N TYR A 142 SHEET 1 D 5 VAL A 437 PHE A 441 0 SHEET 2 D 5 ILE A 418 THR A 422 1 N CYS A 420 O GLU A 438 SHEET 3 D 5 ALA A 395 LEU A 399 1 N MET A 396 O VAL A 419 SHEET 4 D 5 TYR A 475 HIS A 480 1 O ILE A 479 N VAL A 397 SHEET 5 D 5 GLN A 491 LEU A 496 -1 O LEU A 495 N CYS A 476 SHEET 1 E 9 ARG B 22 THR B 26 0 SHEET 2 E 9 MET B 45 ASN B 51 1 O ARG B 49 N CYS B 25 SHEET 3 E 9 ALA B 79 ASP B 83 1 O ALA B 81 N MET B 50 SHEET 4 E 9 MET B 207 ALA B 210 1 O PHE B 209 N LEU B 82 SHEET 5 E 9 MET B 234 ILE B 239 1 O ILE B 236 N ILE B 208 SHEET 6 E 9 ILE B 258 ALA B 261 1 O MET B 259 N ILE B 239 SHEET 7 E 9 VAL B 292 ALA B 295 1 O ILE B 293 N VAL B 260 SHEET 8 E 9 CYS B 326 LEU B 329 1 O CYS B 326 N CYS B 294 SHEET 9 E 9 ARG B 22 THR B 26 1 N ILE B 24 O LEU B 329 SHEET 1 F 2 ASP B 98 MET B 101 0 SHEET 2 F 2 HIS B 169 SER B 172 -1 O ILE B 171 N ALA B 99 SHEET 1 G 6 LYS B 123 TYR B 125 0 SHEET 2 G 6 THR B 106 THR B 110 1 N THR B 110 O PHE B 124 SHEET 3 G 6 THR B 160 VAL B 165 -1 O CYS B 163 N CYS B 107 SHEET 4 G 6 LEU B 148 HIS B 155 -1 N GLN B 153 O GLU B 162 SHEET 5 G 6 TYR B 140 ILE B 143 -1 N ILE B 141 O LEU B 150 SHEET 6 G 6 VAL B 177 ASN B 178 -1 O ASN B 178 N TYR B 142 SHEET 1 H 5 VAL B 437 PHE B 441 0 SHEET 2 H 5 ILE B 418 THR B 422 1 N CYS B 420 O VAL B 440 SHEET 3 H 5 ALA B 395 LEU B 399 1 N VAL B 398 O VAL B 419 SHEET 4 H 5 TYR B 475 HIS B 480 1 O ILE B 479 N LEU B 399 SHEET 5 H 5 GLN B 491 LEU B 496 -1 O ARG B 493 N VAL B 478 CISPEP 1 ILE A 372 PRO A 373 0 6.09 CISPEP 2 ILE B 372 PRO B 373 0 9.73 SITE 1 AC1 6 SER A 400 ASN A 401 THR A 402 ARG A 404 SITE 2 AC1 6 SER A 405 TYR A 488 SITE 1 AC2 5 ARG A 223 ARG A 231 ASP A 232 ILE A 233 SITE 2 AC2 5 ASP A 256 SITE 1 AC3 2 ARG A 194 LYS A 224 SITE 1 AC4 7 LYS A 279 PHE A 321 ASN A 322 PHE A 362 SITE 2 AC4 7 HOH A 547 LEU B 3 ASN B 6 SITE 1 AC5 4 SER B 330 GLY B 331 LYS B 335 HOH B 743 SITE 1 AC6 6 THR A 26 ASN A 51 GLY A 331 LYS A 335 SITE 2 AC6 6 HOH A 686 HOH A 753 CRYST1 122.860 129.860 165.200 90.00 90.00 90.00 I 2 2 2 16 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 0.008139 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007701 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006053 0.00000