HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 03-DEC-04 1Y63 TITLE INITIAL CRYSTAL STRUCTURAL ANALYSIS OF A PROBABLE KINASE FROM TITLE 2 LEISHMANIA MAJOR FRIEDLIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: LMAJ004144AAA PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEISHMANIA MAJOR; SOURCE 3 ORGANISM_TAXID: 347515; SOURCE 4 STRAIN: FRIEDLIN; SOURCE 5 GENE: LMJF30.1890; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21STAR/DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET14B; SOURCE 11 OTHER_DETAILS: T7 SYSTEM KEYWDS STRUCTURAL GENOMICS, PROTEIN STRUCTURE INITIATIVE, PSI, SGPP, KEYWDS 2 STRUCTURAL GENOMICS OF PATHOGENIC PROTOZOA CONSORTIUM, UNKNOWN KEYWDS 3 FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR M.A.ROBIEN,W.G.J.HOL,STRUCTURAL GENOMICS OF PATHOGENIC PROTOZOA AUTHOR 2 CONSORTIUM (SGPP) REVDAT 5 14-FEB-24 1Y63 1 REMARK LINK REVDAT 4 28-SEP-16 1Y63 1 REMARK REVDAT 3 13-JUL-11 1Y63 1 VERSN REVDAT 2 24-FEB-09 1Y63 1 VERSN REVDAT 1 04-JAN-05 1Y63 0 JRNL AUTH M.A.ROBIEN,W.G.J.HOL, JRNL AUTH 2 STRUCTURAL GENOMICS OF PATHOGENIC PROTOZOA CONSORTIUM (SGPP) JRNL TITL CRYSTAL STRUCTURAL ANALYSIS OF A PROBABLE KINASE FROM JRNL TITL 2 LEISHMANIA MAJOR FRIEDLIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MA IMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 21985 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) : 0.167 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1181 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.79 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3166 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.1640 REMARK 3 BIN FREE R VALUE SET COUNT : 152 REMARK 3 BIN FREE R VALUE : 0.2280 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1366 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 42 REMARK 3 SOLVENT ATOMS : 157 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 19.14 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.16000 REMARK 3 B22 (A**2) : -0.16000 REMARK 3 B33 (A**2) : 0.33000 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): 0.091 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.091 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.938 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1448 ; 0.011 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1288 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1964 ; 1.467 ; 1.991 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3012 ; 0.830 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 170 ; 4.991 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 75 ;31.532 ;24.933 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 270 ;12.775 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;16.196 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 221 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1582 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 281 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 298 ; 0.226 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1282 ; 0.188 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 704 ; 0.176 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 778 ; 0.082 ; 0.200 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): 2 ; 0.303 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 15 ; 0.297 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 40 ; 0.298 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 12 ; 0.216 ; 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): 848 ; 1.855 ; 4.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 345 ; 0.584 ; 4.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1381 ; 2.893 ; 6.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 615 ; 3.369 ; 6.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 583 ; 5.249 ;10.000 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 : 1 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 6 A 179 REMARK 3 ORIGIN FOR THE GROUP (A): 27.7260 6.0620 17.4650 REMARK 3 T TENSOR REMARK 3 T11: -0.0786 T22: -0.0886 REMARK 3 T33: -0.0957 T12: -0.0003 REMARK 3 T13: -0.0086 T23: -0.0156 REMARK 3 L TENSOR REMARK 3 L11: 1.6244 L22: 1.1455 REMARK 3 L33: 1.0981 L12: -0.4653 REMARK 3 L13: 0.1687 L23: -0.1666 REMARK 3 S TENSOR REMARK 3 S11: 0.0390 S12: -0.0188 S13: -0.0742 REMARK 3 S21: -0.0541 S22: -0.0280 S23: 0.0766 REMARK 3 S31: 0.0314 S32: 0.0234 S33: -0.0110 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 3 REMARK 3 TWO LOOPS WHICH ARE PARTIALLY DISORDERED ARE REMARK 3 MODELED WITH OCCUPANCY ESTIMATED AT 0.75 REMARK 3 THESE INCLUDE RESIDUES 61-63 AND 120-123. REMARK 3 SEVERAL DISORDERED SIDECHAIN ATOMS ARE MODELED WITH REMARK 3 OCCUPANCY SET TO 0.10. PARTIALLY ORDERED SIDECHAIN REMARK 3 ATOMS HAVE BEEN MODELED WITH OCCUPANCIES SET TO REMARK 3 ONE-HALF OF THE CORRESPONDING MAIN CHAIN ATOMS. REMARK 3 THE FINAL OCCUPANCIES OF THE PARTIALLY OCCUPIED HEAVY REMARK 3 ATOMS WERE OBTAINED USING SHARP, AND ROUNDED TO REMARK 3 THE NEAREST 0.05. REMARK 3 REMARK 3 THE CLOSE CONTACT BETWEEN RESIDUES GLU54 AND ILE63 IS BETWEEN REMARK 3 SEVERELY DISORDERED SIDECHAINS IN A MINIMALLY ORDERED LOOP, AS REMARK 3 NOTED ABOVE. THE OCCUPANCIES OF THESE SIDECHAINS REMARK 3 HAS BEEN LOWERED TO REFLECT THE WEAK ELECTRON DENSITY IN THIS REMARK 3 AREA OF THE MAPS. REMARK 4 REMARK 4 1Y63 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-DEC-04. REMARK 100 THE DEPOSITION ID IS D_1000031162. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-AUG-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9198, 0.8856, 0.9202 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30411 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 38.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06000 REMARK 200 FOR THE DATA SET : 14.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.56400 REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.63 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG20000, MES, MNCL2, HEPES, NACL, REMARK 280 GLYCEROL, PH 6.2, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 4 21 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 -Y+1/2,X+1/2,Z REMARK 290 4555 Y+1/2,-X+1/2,Z REMARK 290 5555 -X+1/2,Y+1/2,-Z REMARK 290 6555 X+1/2,-Y+1/2,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 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 0.000000 -1.000000 0.000000 53.55800 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 53.55800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 53.55800 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 53.55800 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 53.55800 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.55800 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 53.55800 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.55800 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 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 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 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 HOH A1002 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 GLY A 1 REMARK 465 PRO A 2 REMARK 465 GLY A 3 REMARK 465 SER A 4 REMARK 465 MET A 5 REMARK 465 TYR A 55 REMARK 465 ASP A 56 REMARK 465 THR A 57 REMARK 465 GLU A 58 REMARK 465 LEU A 59 REMARK 465 ASP A 60 REMARK 465 VAL A 180 REMARK 465 GLU A 181 REMARK 465 ARG A 182 REMARK 465 GLY A 183 REMARK 465 LEU A 184 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 1047 O HOH A 1057 2.09 REMARK 500 SD MET A 164 O HOH A 1032 2.13 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 62 -77.70 -86.57 REMARK 500 SER A 93 -25.15 -143.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN MN 353 IS AN INCOMPLETELY OCCUPIED MANGANESE, HOH 1002 REMARK 600 IS MODELED TO ACCOUNT FOR RESIDUAL NON-MANGANESE DENSITY AT THE REMARK 600 NEARBY SPECIAL POSITION (TWO FOLD AXIS). NA 501 IS INTENDED TO REMARK 600 BE ON A SPECIAL POSITION (TWO FOLD AXIS).- IT IS ABOUT 0.26A REMARK 600 AWAY FROM ITS SYMMETRY-RELATED MATE. 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 MN A 302 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 24 OG1 REMARK 620 2 ADP A 301 O3B 88.9 REMARK 620 3 HOH A1005 O 86.3 93.3 REMARK 620 4 HOH A1008 O 90.4 90.2 175.1 REMARK 620 5 HOH A1013 O 178.0 90.7 91.8 91.6 REMARK 620 6 HOH A1014 O 92.2 177.4 89.2 87.4 88.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 311 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 28 OE2 REMARK 620 2 HIS A 39 ND1 82.0 REMARK 620 3 HOH A1026 O 98.6 174.5 REMARK 620 4 HOH A1030 O 95.4 89.0 85.5 REMARK 620 5 HOH A1031 O 174.6 92.6 86.8 84.3 REMARK 620 6 HOH A1038 O 90.2 103.1 82.4 167.3 91.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 351 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 70 OD1 REMARK 620 2 ASP A 150 OD2 92.5 REMARK 620 3 HOH A1087 O 169.6 96.6 REMARK 620 4 HOH A1111 O 83.2 174.9 88.0 REMARK 620 5 HOH A1132 O 89.2 81.6 87.3 101.0 REMARK 620 6 HOH A1137 O 90.2 93.6 94.2 83.7 175.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 354 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 82 OG REMARK 620 2 ARG A 83 O 91.3 REMARK 620 3 HIS A 86 NE2 84.0 106.2 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 501 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 94 OE2 REMARK 620 2 GLU A 94 OE2 92.1 REMARK 620 3 HOH A1107 O 95.5 98.9 REMARK 620 4 HOH A1107 O 79.9 86.6 173.0 REMARK 620 5 HOH A1157 O 145.5 73.2 57.7 128.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 353 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 98 OE2 REMARK 620 2 ALA A 147 O 78.2 REMARK 620 3 HOH A1033 O 91.1 92.4 REMARK 620 4 HOH A1034 O 94.1 171.0 83.1 REMARK 620 5 HOH A1043 O 164.2 107.3 74.0 78.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 352 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 125 OE1 REMARK 620 2 HOH A1054 O 81.7 REMARK 620 3 HOH A1080 O 98.1 84.7 REMARK 620 4 HOH A1117 O 83.3 92.5 176.6 REMARK 620 5 HOH A1130 O 166.2 96.5 95.3 83.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 502 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 146 OD1 REMARK 620 2 ASP A 146 OD2 43.1 REMARK 620 3 HOH A1088 O 80.2 87.8 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 311 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 351 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 352 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 353 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 354 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 355 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 356 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: LMAJ004144AAA RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE THE SEQUENCE IS AVAILABLE IN GENEDB (WWW.GENEDB.ORG) REMARK 999 WHICH IS PUBLICLY AVAILABLE. THE GENEDB IDENTIFIER FOR THIS GENE REMARK 999 IS LMJF30.1890. ADDITIONALLY, RESIDUES 1-4 (GPGS-) ARE A CLONING REMARK 999 ARTIFACT; THEY ARE THE REMAINS OF AN N-TERMINAL HIS TAG. THE REMARK 999 REMAINDER OF THE HIS TAG WAS CLEAVED PRIOR TO CRYSTALLIZATION. REMARK 999 THE LEISHMANIAL PROTEIN CONSISTS OF RESIDUES 5-184 NOTED IN THE REMARK 999 SEQRES. DBREF 1Y63 A 5 184 UNP Q4Q7A6 Q4Q7A6_LEIMA 1 180 SEQRES 1 A 184 GLY PRO GLY SER MET GLU GLN PRO LYS GLY ILE ASN ILE SEQRES 2 A 184 LEU ILE THR GLY THR PRO GLY THR GLY LYS THR SER MET SEQRES 3 A 184 ALA GLU MET ILE ALA ALA GLU LEU ASP GLY PHE GLN HIS SEQRES 4 A 184 LEU GLU VAL GLY LYS LEU VAL LYS GLU ASN HIS PHE TYR SEQRES 5 A 184 THR GLU TYR ASP THR GLU LEU ASP THR HIS ILE ILE GLU SEQRES 6 A 184 GLU LYS ASP GLU ASP ARG LEU LEU ASP PHE MET GLU PRO SEQRES 7 A 184 ILE MET VAL SER ARG GLY ASN HIS VAL VAL ASP TYR HIS SEQRES 8 A 184 SER SER GLU LEU PHE PRO GLU ARG TRP PHE HIS MET VAL SEQRES 9 A 184 VAL VAL LEU HIS THR SER THR GLU VAL LEU PHE GLU ARG SEQRES 10 A 184 LEU THR LYS ARG GLN TYR SER GLU ALA LYS ARG ALA GLU SEQRES 11 A 184 ASN MET GLU ALA GLU ILE GLN CYS ILE CYS GLU GLU GLU SEQRES 12 A 184 ALA ARG ASP ALA TYR GLU ASP ASP ILE VAL LEU VAL ARG SEQRES 13 A 184 GLU ASN ASP THR LEU GLU GLN MET ALA ALA THR VAL GLU SEQRES 14 A 184 GLU ILE ARG GLU ARG VAL GLU VAL LEU LYS VAL GLU ARG SEQRES 15 A 184 GLY LEU HET MN A 302 1 HET MN A 311 1 HET MN A 351 1 HET MN A 352 1 HET MN A 353 1 HET MN A 354 1 HET MN A 355 1 HET MN A 356 1 HET BR A 401 1 HET BR A 402 1 HET BR A 403 1 HET BR A 404 1 HET BR A 405 1 HET NA A 501 1 HET NA A 502 1 HET ADP A 301 36 HETNAM MN MANGANESE (II) ION HETNAM BR BROMIDE ION HETNAM NA SODIUM ION HETNAM ADP ADENOSINE-5'-DIPHOSPHATE FORMUL 2 MN 8(MN 2+) FORMUL 10 BR 5(BR 1-) FORMUL 15 NA 2(NA 1+) FORMUL 17 ADP C10 H15 N5 O10 P2 FORMUL 18 HOH *157(H2 O) HELIX 1 1 GLY A 22 LEU A 34 1 13 HELIX 2 2 VAL A 42 ASN A 49 1 8 HELIX 3 3 GLU A 65 VAL A 81 1 17 HELIX 4 4 PRO A 97 PHE A 101 5 5 HELIX 5 5 SER A 110 ARG A 121 1 12 HELIX 6 6 SER A 124 GLN A 137 1 14 HELIX 7 7 CYS A 138 TYR A 148 1 11 HELIX 8 8 GLU A 149 ASP A 151 5 3 HELIX 9 9 THR A 160 LYS A 179 1 20 SHEET 1 A 5 PHE A 37 GLU A 41 0 SHEET 2 A 5 ASN A 85 ASP A 89 1 O VAL A 87 N GLN A 38 SHEET 3 A 5 ASN A 12 THR A 16 1 N ILE A 13 O VAL A 88 SHEET 4 A 5 MET A 103 HIS A 108 1 O VAL A 105 N LEU A 14 SHEET 5 A 5 VAL A 153 GLU A 157 1 O LEU A 154 N VAL A 106 LINK OG1 THR A 24 MN MN A 302 1555 1555 2.13 LINK OE2 GLU A 28 MN MN A 311 1555 1555 2.18 LINK ND1 HIS A 39 MN MN A 311 1555 1555 2.29 LINK OD1 ASP A 70 MN MN A 351 1555 1555 2.10 LINK OG SER A 82 MN MN A 354 1555 1555 2.39 LINK O ARG A 83 MN MN A 354 1555 1555 2.62 LINK NE2 HIS A 86 MN MN A 354 1555 1555 2.37 LINK OH TYR A 90 MN MN A 356 1555 1555 2.75 LINK OE2 GLU A 94 NA NA A 501 1555 1555 2.41 LINK OE2 GLU A 94 NA NA A 501 7556 1555 2.20 LINK OE2 GLU A 98 MN A MN A 353 1555 1555 2.31 LINK OE1 GLU A 125 MN MN A 352 1555 1555 2.15 LINK OD1 ASP A 146 NA NA A 502 1555 1555 2.86 LINK OD2 ASP A 146 NA NA A 502 1555 1555 3.09 LINK O ALA A 147 MN A MN A 353 1555 1555 2.70 LINK OD2 ASP A 150 MN MN A 351 7556 1555 2.13 LINK O3B ADP A 301 MN MN A 302 1555 1555 2.11 LINK MN MN A 302 O HOH A1005 1555 1555 2.14 LINK MN MN A 302 O HOH A1008 1555 1555 2.21 LINK MN MN A 302 O HOH A1013 1555 1555 2.24 LINK MN MN A 302 O HOH A1014 1555 1555 2.21 LINK MN MN A 311 O HOH A1026 1555 1555 2.23 LINK MN MN A 311 O HOH A1030 1555 1555 2.19 LINK MN MN A 311 O HOH A1031 1555 1555 2.28 LINK MN MN A 311 O HOH A1038 1555 1555 2.04 LINK MN MN A 351 O HOH A1087 1555 1555 2.11 LINK MN MN A 351 O HOH A1111 1555 1555 2.00 LINK MN MN A 351 O HOH A1132 1555 1555 2.05 LINK MN MN A 351 O HOH A1137 1555 1555 2.00 LINK MN MN A 352 O HOH A1054 1555 4555 2.35 LINK MN MN A 352 O HOH A1080 1555 4555 2.25 LINK MN MN A 352 O HOH A1117 1555 1555 2.09 LINK MN MN A 352 O HOH A1130 1555 1555 2.21 LINK MN A MN A 353 O HOH A1033 1555 7556 2.35 LINK MN A MN A 353 O HOH A1034 1555 7556 2.36 LINK MN A MN A 353 O HOH A1043 1555 7556 2.30 LINK NA NA A 501 O HOH A1107 1555 1555 1.98 LINK NA NA A 501 O HOH A1107 1555 7556 2.54 LINK NA NA A 501 O HOH A1157 1555 1555 2.78 LINK NA NA A 502 O HOH A1088 1555 7556 2.27 SITE 1 AC1 6 THR A 24 ADP A 301 HOH A1005 HOH A1008 SITE 2 AC1 6 HOH A1013 HOH A1014 SITE 1 AC2 6 GLU A 28 HIS A 39 HOH A1026 HOH A1030 SITE 2 AC2 6 HOH A1031 HOH A1038 SITE 1 AC3 6 ASP A 70 ASP A 150 HOH A1087 HOH A1111 SITE 2 AC3 6 HOH A1132 HOH A1137 SITE 1 AC4 5 GLU A 125 HOH A1054 HOH A1080 HOH A1117 SITE 2 AC4 5 HOH A1130 SITE 1 AC5 6 GLU A 98 ALA A 147 HOH A1002 HOH A1033 SITE 2 AC5 6 HOH A1034 HOH A1043 SITE 1 AC6 4 GLN A 38 SER A 82 ARG A 83 HIS A 86 SITE 1 AC7 1 ASN A 131 SITE 1 AC8 3 ILE A 64 TYR A 90 HIS A 91 SITE 1 AC9 3 TYR A 90 HIS A 91 HOH A1001 SITE 1 BC1 1 LEU A 161 SITE 1 BC2 3 ASP A 35 HOH A1082 HOH A1089 SITE 1 BC3 1 GLU A 41 SITE 1 BC4 3 TYR A 123 ARG A 128 ASN A 131 SITE 1 BC5 3 GLU A 94 HOH A1107 HOH A1157 SITE 1 BC6 2 ASP A 146 HOH A1088 SITE 1 BC7 22 GLY A 20 THR A 21 GLY A 22 LYS A 23 SITE 2 BC7 22 THR A 24 SER A 25 PHE A 115 ARG A 117 SITE 3 BC7 22 THR A 119 ARG A 128 ASN A 158 ASP A 159 SITE 4 BC7 22 THR A 160 LEU A 161 MET A 164 MN A 302 SITE 5 BC7 22 HOH A1005 HOH A1008 HOH A1013 HOH A1029 SITE 6 BC7 22 HOH A1032 HOH A1037 CRYST1 107.116 107.116 35.216 90.00 90.00 90.00 P 4 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.009336 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009336 0.000000 0.00000 SCALE3 0.000000 0.000000 0.028396 0.00000