HEADER OXIDOREDUCTASE 27-JUL-04 1U5C TITLE PLASMODIUM FALCIPARUM LACTATE DEHYDROGENASE COMPLEXED WITH 3,7- TITLE 2 DIHYDROXYNAPHTHALENE-2-CARBOXYLIC ACID AND NAD+ COMPND MOL_ID: 1; COMPND 2 MOLECULE: L-LACTATE DEHYDROGENASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: LDH-P; COMPND 5 EC: 1.1.1.27; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_COMMON: MALARIA PARASITE P. FALCIPARUM; SOURCE 4 ORGANISM_TAXID: 5833; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: JM109; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PKK223 KEYWDS PROTEIN-LIGAND COMPLEX, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR R.CONNERS,A.CAMERON,J.READ,F.SCHAMBACH,R.B.SESSIONS,R.L.BRADY REVDAT 5 23-AUG-23 1U5C 1 REMARK SEQADV REVDAT 4 13-JUL-11 1U5C 1 VERSN REVDAT 3 24-FEB-09 1U5C 1 VERSN REVDAT 2 05-JUL-05 1U5C 1 JRNL REVDAT 1 21-JUN-05 1U5C 0 JRNL AUTH R.CONNERS,F.SCHAMBACH,J.READ,A.CAMERON,R.B.SESSIONS,L.VIVAS, JRNL AUTH 2 A.EASTON,S.L.CROFT,R.L.BRADY JRNL TITL MAPPING THE BINDING SITE FOR GOSSYPOL-LIKE INHIBITORS OF JRNL TITL 2 PLASMODIUM FALCIPARUM LACTATE DEHYDROGENASE. JRNL REF MOL.BIOCHEM.PARASITOL. V. 142 137 2005 JRNL REFN ISSN 0166-6851 JRNL PMID 15978953 JRNL DOI 10.1016/J.MOLBIOPARA.2005.03.015 REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.36 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 3 NUMBER OF REFLECTIONS : 8572 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) : 0.158 REMARK 3 R VALUE (WORKING SET) : 0.154 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 441 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) : 2.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.72 REMARK 3 REFLECTION IN BIN (WORKING SET) : 594 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1840 REMARK 3 BIN FREE R VALUE SET COUNT : 43 REMARK 3 BIN FREE R VALUE : 0.3680 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2305 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 59 REMARK 3 SOLVENT ATOMS : 132 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.36 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.52000 REMARK 3 B22 (A**2) : 1.65000 REMARK 3 B33 (A**2) : -0.13000 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): 0.354 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.247 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.843 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.942 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.872 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2393 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2217 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3244 ; 1.587 ; 2.005 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5163 ; 0.793 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 295 ; 6.201 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 390 ; 0.075 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2567 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 414 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 591 ; 0.312 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2629 ; 0.237 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1397 ; 0.087 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 104 ; 0.186 ; 0.200 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): 14 ; 0.181 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 72 ; 0.277 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 16 ; 0.220 ; 0.200 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): 1497 ; 0.653 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2408 ; 1.217 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 896 ; 1.721 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 836 ; 2.941 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 1U5C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-AUG-04. REMARK 100 THE DEPOSITION ID IS D_1000023264. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-SEP-01 REMARK 200 TEMPERATURE (KELVIN) : 100 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 : ENRAF-NONIUS FR591 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MACSCIENCE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9848 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.12700 REMARK 200 FOR THE DATA SET : 7.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.29400 REMARK 200 FOR SHELL : 3.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1LDG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MPD, HEPES, IMIDAZOLE, PH 7.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 291K 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 40.11250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 43.00850 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 45.53500 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 40.11250 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 43.00850 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 45.53500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 40.11250 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 43.00850 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 45.53500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 40.11250 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 43.00850 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 45.53500 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A TETRAMER GENERATED FROM THE REMARK 300 MONOMER IN THE ASYMMETRIC UNIT BY THE FOLLOWING OPERATIONS AND REMARK 300 LATTICE TRANSLATIONS: X,-Y,-Z/1,0,0 -X,Y,-Z/0,1,0 -X,-Y,Z/1,1,0 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,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 22170 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 38440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -123.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 80.22500 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 86.01700 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 80.22500 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 86.01700 REMARK 350 BIOMT3 4 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 LYS A 101A REMARK 465 ALA A 101B REMARK 465 PRO A 101C REMARK 465 GLY A 101D REMARK 465 LYS A 101E REMARK 465 SER A 101F REMARK 465 ASP A 101G REMARK 465 LYS A 101H REMARK 465 GLU A 101I REMARK 465 TRP A 101J REMARK 465 ASN A 101K REMARK 465 HIS A 331 REMARK 465 HIS A 332 REMARK 465 HIS A 333 REMARK 465 HIS A 334 REMARK 465 HIS A 335 REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 THR A 101 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 56 CD CE NZ REMARK 480 LYS A 118 CG CD CE NZ REMARK 480 LYS A 216 CD CE NZ REMARK 480 LYS A 312 CE NZ 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 NZ LYS A 312 O HOH A 529 1.84 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 ASP A 47 C VAL A 49 N 0.219 REMARK 500 SER A 81 C ASN A 83 N 0.193 REMARK 500 LYS A 216 C LEU A 218 N 0.283 REMARK 500 GLU A 223 C LEU A 225 N 0.167 REMARK 500 GLU A 299 C GLN A 301 N 0.174 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 ASP A 53 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 87 CB - CG - OD2 ANGL. DEV. = 6.4 DEGREES REMARK 500 PHE A 100 O - C - N ANGL. DEV. = -11.8 DEGREES REMARK 500 ASP A 168 CB - CG - OD2 ANGL. DEV. = 7.1 DEGREES REMARK 500 ASP A 186 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 264 CB - CG - OD2 ANGL. DEV. = 5.8 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 PRO A 19 -16.66 -43.66 REMARK 500 ASN A 57 -53.29 73.22 REMARK 500 ASP A 87 0.33 -66.66 REMARK 500 PHE A 100 -134.36 -92.18 REMARK 500 CYS A 131 60.98 -154.92 REMARK 500 THR A 139 130.46 -38.89 REMARK 500 TYR A 247 -16.36 -141.28 REMARK 500 TYR A 279 15.00 57.89 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 PHE A 100 -23.58 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 NAD A 336 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BIK A 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1U40 RELATED DB: PDB REMARK 900 PLASMODIUM FALCIPARUM LACTATE DEHYDROGENASE COMPLEXED WITH 2,6- REMARK 900 NAPHTHALENEDICARBOXYLIC ACID REMARK 900 RELATED ID: 1U4S RELATED DB: PDB REMARK 900 PLASMODIUM FALCIPARUM LACTATE DEHYDROGENASE COMPLEXED WITH 2,6- REMARK 900 NAPHTHALENEDISULPHONIC ACID REMARK 900 RELATED ID: 1U5A RELATED DB: PDB REMARK 900 PLASMODIUM FALCIPARUM LACTATE DEHYDROGENASE COMPLEXED WITH 3,7- REMARK 900 DIHYDROXYNAPHTHALENE-2-CARBOXYLIC ACID DBREF 1U5C A 18 329 UNP Q27743 LDH1_PLAFD 2 316 SEQADV 1U5C HIS A 330 UNP Q27743 EXPRESSION TAG SEQADV 1U5C HIS A 331 UNP Q27743 EXPRESSION TAG SEQADV 1U5C HIS A 332 UNP Q27743 EXPRESSION TAG SEQADV 1U5C HIS A 333 UNP Q27743 EXPRESSION TAG SEQADV 1U5C HIS A 334 UNP Q27743 EXPRESSION TAG SEQADV 1U5C HIS A 335 UNP Q27743 EXPRESSION TAG SEQRES 1 A 321 ALA PRO LYS ALA LYS ILE VAL LEU VAL GLY SER GLY MET SEQRES 2 A 321 ILE GLY GLY VAL MET ALA THR LEU ILE VAL GLN LYS ASN SEQRES 3 A 321 LEU GLY ASP VAL VAL LEU PHE ASP ILE VAL LYS ASN MET SEQRES 4 A 321 PRO HIS GLY LYS ALA LEU ASP THR SER HIS THR ASN VAL SEQRES 5 A 321 MET ALA TYR SER ASN CYS LYS VAL SER GLY SER ASN THR SEQRES 6 A 321 TYR ASP ASP LEU ALA GLY ALA ASP VAL VAL ILE VAL THR SEQRES 7 A 321 ALA GLY PHE THR LYS ALA PRO GLY LYS SER ASP LYS GLU SEQRES 8 A 321 TRP ASN ARG ASP ASP LEU LEU PRO LEU ASN ASN LYS ILE SEQRES 9 A 321 MET ILE GLU ILE GLY GLY HIS ILE LYS LYS ASN CYS PRO SEQRES 10 A 321 ASN ALA PHE ILE ILE VAL VAL THR ASN PRO VAL ASP VAL SEQRES 11 A 321 MET VAL GLN LEU LEU HIS GLN HIS SER GLY VAL PRO LYS SEQRES 12 A 321 ASN LYS ILE ILE GLY LEU GLY GLY VAL LEU ASP THR SER SEQRES 13 A 321 ARG LEU LYS TYR TYR ILE SER GLN LYS LEU ASN VAL CYS SEQRES 14 A 321 PRO ARG ASP VAL ASN ALA HIS ILE VAL GLY ALA HIS GLY SEQRES 15 A 321 ASN LYS MET VAL LEU LEU LYS ARG TYR ILE THR VAL GLY SEQRES 16 A 321 GLY ILE PRO LEU GLN GLU PHE ILE ASN ASN LYS LEU ILE SEQRES 17 A 321 SER ASP ALA GLU LEU GLU ALA ILE PHE ASP ARG THR VAL SEQRES 18 A 321 ASN THR ALA LEU GLU ILE VAL ASN LEU HIS ALA SER PRO SEQRES 19 A 321 TYR VAL ALA PRO ALA ALA ALA ILE ILE GLU MET ALA GLU SEQRES 20 A 321 SER TYR LEU LYS ASP LEU LYS LYS VAL LEU ILE CYS SER SEQRES 21 A 321 THR LEU LEU GLU GLY GLN TYR GLY HIS SER ASP ILE PHE SEQRES 22 A 321 GLY GLY THR PRO VAL VAL LEU GLY ALA ASN GLY VAL GLU SEQRES 23 A 321 GLN VAL ILE GLU LEU GLN LEU ASN SER GLU GLU LYS ALA SEQRES 24 A 321 LYS PHE ASP GLU ALA ILE ALA GLU THR LYS ARG MET LYS SEQRES 25 A 321 ALA LEU ALA HIS HIS HIS HIS HIS HIS HET NAD A 336 44 HET BIK A 401 30 HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM BIK 3,7-DIHYDROXY-2-NAPHTHOIC ACID HETSYN BIK 3,7-DIHYDROXYNAPHTHALENE-2-CARBOXYLIC ACID FORMUL 2 NAD C21 H27 N7 O14 P2 FORMUL 3 BIK C11 H8 O4 FORMUL 4 HOH *132(H2 O) HELIX 1 1 GLY A 29 LYS A 43 1 14 HELIX 2 2 ASN A 57 HIS A 68 1 12 HELIX 3 3 HIS A 68 ALA A 73A 1 6 HELIX 4 4 THR A 84 ALA A 89 5 6 HELIX 5 5 LEU A 112 CYS A 131 1 20 HELIX 6 6 PRO A 141 GLY A 154 1 14 HELIX 7 7 PRO A 156 ASN A 158 5 3 HELIX 8 8 GLY A 164 ASN A 181 1 18 HELIX 9 9 CYS A 183 ARG A 185 5 3 HELIX 10 10 LYS A 203 TYR A 205 5 3 HELIX 11 11 LEU A 210A ASN A 215 1 7 HELIX 12 12 SER A 220 ASN A 234 1 14 HELIX 13 13 ASN A 234 ASN A 241 1 8 HELIX 14 14 TYR A 247 ASP A 264 1 18 HELIX 15 15 GLN A 278 GLY A 280 5 3 HELIX 16 16 ASN A 308 LEU A 328 1 21 SHEET 1 A 6 VAL A 78 SER A 81 0 SHEET 2 A 6 ASP A 47 PHE A 52 1 N LEU A 51 O SER A 79 SHEET 3 A 6 LYS A 22 VAL A 26 1 N LEU A 25 O VAL A 50 SHEET 4 A 6 VAL A 93 VAL A 96 1 O VAL A 93 N VAL A 24 SHEET 5 A 6 PHE A 134 VAL A 137 1 O PHE A 134 N VAL A 94 SHEET 6 A 6 ILE A 160 GLY A 162 1 O ILE A 161 N VAL A 137 SHEET 1 B 3 VAL A 187 ASN A 188 0 SHEET 2 B 3 THR A 207 VAL A 208 -1 O THR A 207 N ASN A 188 SHEET 3 B 3 ILE A 209C PRO A 209D-1 O ILE A 209C N VAL A 208 SHEET 1 C 2 ILE A 191 VAL A 192 0 SHEET 2 C 2 VAL A 200 LEU A 201 -1 O VAL A 200 N VAL A 192 SHEET 1 D 3 LYS A 267 GLU A 276 0 SHEET 2 D 3 SER A 282 GLY A 294 -1 O ILE A 285 N LEU A 275 SHEET 3 D 3 GLY A 297 VAL A 302 -1 O GLU A 299 N VAL A 292 CISPEP 1 ASN A 140 PRO A 141 0 -1.92 SITE 1 AC1 20 GLY A 29 MET A 30 ILE A 31 PHE A 52 SITE 2 AC1 20 ASP A 53 ILE A 54 VAL A 55 TYR A 85 SITE 3 AC1 20 THR A 97 ALA A 98 PHE A 100 VAL A 138 SITE 4 AC1 20 THR A 139 ASN A 140 VAL A 142 LEU A 163 SITE 5 AC1 20 LEU A 167 HIS A 195 BIK A 401 HOH A 506 SITE 1 AC2 6 ASN A 140 ARG A 171 HIS A 195 ALA A 236 SITE 2 AC2 6 PRO A 246 NAD A 336 CRYST1 80.225 86.017 91.070 90.00 90.00 90.00 I 2 2 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 0.012465 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011626 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010981 0.00000