HEADER TRANSFERASE 13-JUN-19 6K8Z TITLE PYRIDOXAL KINASE FROM LEISHMANIA DONOVANI IN COMPLEX WITH ADP COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRIDOXAL KINASE, PUTATIVE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.7.1.35; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEISHMANIA DONOVANI; SOURCE 3 ORGANISM_TAXID: 5661; SOURCE 4 GENE: LDCL_300018300; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NUCLEOTIDE BINDING, ATP BINDING, KINASE ACTIVITY, METAL BINDING, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.ARE,S.GATREDDI,I.A.QURESHI REVDAT 2 22-NOV-23 6K8Z 1 LINK REVDAT 1 25-MAR-20 6K8Z 0 JRNL AUTH S.ARE,S.GATREDDI,P.JAKKULA,I.A.QURESHI JRNL TITL STRUCTURAL ATTRIBUTES AND SUBSTRATE SPECIFICITY OF PYRIDOXAL JRNL TITL 2 KINASE FROM LEISHMANIA DONOVANI. JRNL REF INT.J.BIOL.MACROMOL. V. 152 812 2020 JRNL REFN ISSN 0141-8130 JRNL PMID 32105687 JRNL DOI 10.1016/J.IJBIOMAC.2020.02.257 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0238 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.98 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 3 NUMBER OF REFLECTIONS : 42502 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) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2242 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3049 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.90 REMARK 3 BIN R VALUE (WORKING SET) : 0.2470 REMARK 3 BIN FREE R VALUE SET COUNT : 172 REMARK 3 BIN FREE R VALUE : 0.3100 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4310 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 69 REMARK 3 SOLVENT ATOMS : 217 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.03000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : 0.01000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.07000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.147 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.139 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.094 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.233 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.945 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.912 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4466 ; 0.009 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 3968 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6106 ; 1.564 ; 1.639 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9145 ; 1.406 ; 1.570 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 574 ; 7.181 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 197 ;30.589 ;22.690 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 632 ;13.183 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;18.679 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 619 ; 0.074 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5056 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 912 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2314 ; 1.361 ; 1.532 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2311 ; 1.356 ; 1.531 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2880 ; 2.165 ; 2.282 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2881 ; 2.166 ; 2.283 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2152 ; 1.444 ; 1.617 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2153 ; 1.443 ; 1.617 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3227 ; 2.224 ; 2.385 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4956 ; 3.735 ;18.289 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4957 ; 3.735 ;18.291 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 6K8Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-JUN-19. REMARK 100 THE DEPOSITION ID IS D_1300012527. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-FEB-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44763 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 42.980 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.94 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: PHASER REMARK 200 STARTING MODEL: 1LHP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18% PEG 8000, 0.1M SODIUM CACODYLATE, REMARK 280 0.32M CALCIUM ACETATE, 4% GLYCEROL, PH 6.0, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 35.54000 REMARK 290 SMTRY3 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -108.0 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 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 GLY A 126 REMARK 465 ARG A 127 REMARK 465 LEU A 128 REMARK 465 TYR A 129 REMARK 465 CYS A 130 REMARK 465 LYS A 131 REMARK 465 LYS A 207 REMARK 465 ARG A 267 REMARK 465 GLY A 268 REMARK 465 GLY A 269 REMARK 465 SER A 270 REMARK 465 GLY A 271 REMARK 465 LYS A 272 REMARK 465 ALA A 273 REMARK 465 THR A 274 REMARK 465 LEU A 275 REMARK 465 SER A 276 REMARK 465 SER A 277 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 ASP B 3 REMARK 465 LYS B 207 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 89 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 93 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 112 CG CD CE NZ REMARK 470 ASP A 125 CG OD1 OD2 REMARK 470 GLU A 132 CG CD OE1 OE2 REMARK 470 GLU A 133 CG CD OE1 OE2 REMARK 470 GLU A 162 CG CD OE1 OE2 REMARK 470 LYS A 164 CG CD CE NZ REMARK 470 GLU A 171 CG CD OE1 OE2 REMARK 470 ALA A 208 N CB REMARK 470 LYS A 213 CG CD CE NZ REMARK 470 GLU A 223 CG CD OE1 OE2 REMARK 470 ARG A 225 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 266 CG CD OE1 OE2 REMARK 470 ARG A 278 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 281 CG CD NE CZ NH1 NH2 REMARK 470 TYR A 285 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASP A 287 CG OD1 OD2 REMARK 470 ARG A 288 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 60 CG CD OE1 OE2 REMARK 470 ARG B 89 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 93 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 104 CG CD OE1 OE2 REMARK 470 LYS B 108 CG CD CE NZ REMARK 470 ARG B 127 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 131 CG CD CE NZ REMARK 470 GLU B 132 CG CD OE1 OE2 REMARK 470 GLU B 162 CG CD OE1 OE2 REMARK 470 LYS B 164 CG CD CE NZ REMARK 470 GLU B 171 CG CD OE1 OE2 REMARK 470 ASP B 193 CG OD1 OD2 REMARK 470 ALA B 208 N CB REMARK 470 LYS B 213 CG CD CE NZ REMARK 470 GLU B 223 CG CD OE1 OE2 REMARK 470 ARG B 225 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 262 CG CD CE NZ REMARK 470 ARG B 267 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 272 CG CD CE NZ REMARK 470 ASP B 287 CG OD1 OD2 REMARK 470 ARG B 288 CZ NH1 NH2 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 5 57.30 -94.73 REMARK 500 ILE A 86 -53.92 -130.15 REMARK 500 MET A 122 -39.97 -147.19 REMARK 500 THR A 160 3.59 82.24 REMARK 500 LYS B 5 55.84 -109.18 REMARK 500 ILE B 86 -63.73 -126.37 REMARK 500 CYS B 130 -142.67 -133.38 REMARK 500 THR B 160 5.32 88.18 REMARK 500 ASP B 165 -174.60 -172.27 REMARK 500 ASP B 194 82.45 -161.64 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 CA A 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 124 OD1 REMARK 620 2 ASP A 124 OD2 44.2 REMARK 620 3 ADP A 401 O2B 85.6 85.5 REMARK 620 4 ADP A 401 O2A 129.3 165.4 80.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 124 OD1 REMARK 620 2 ASP B 124 OD2 50.5 REMARK 620 3 ADP B 401 O1B 84.1 77.4 REMARK 620 4 ADP B 401 O1A 142.6 151.3 79.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 405 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR B 143 O REMARK 620 2 GLY B 180 O 92.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 404 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 243 O REMARK 620 2 ASP B 244 OD1 76.9 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADP A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADP B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT B 406 DBREF1 6K8Z A 1 302 UNP A0A3S7X3C0_LEIDO DBREF2 6K8Z A A0A3S7X3C0 1 302 DBREF1 6K8Z B 1 302 UNP A0A3S7X3C0_LEIDO DBREF2 6K8Z B A0A3S7X3C0 1 302 SEQADV 6K8Z MET A -19 UNP A0A3S7X3C INITIATING METHIONINE SEQADV 6K8Z GLY A -18 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z SER A -17 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z SER A -16 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z HIS A -15 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z HIS A -14 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z HIS A -13 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z HIS A -12 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z HIS A -11 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z HIS A -10 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z SER A -9 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z SER A -8 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z GLY A -7 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z LEU A -6 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z VAL A -5 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z PRO A -4 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z ARG A -3 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z GLY A -2 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z SER A -1 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z HIS A 0 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z MET B -19 UNP A0A3S7X3C INITIATING METHIONINE SEQADV 6K8Z GLY B -18 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z SER B -17 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z SER B -16 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z HIS B -15 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z HIS B -14 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z HIS B -13 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z HIS B -12 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z HIS B -11 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z HIS B -10 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z SER B -9 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z SER B -8 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z GLY B -7 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z LEU B -6 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z VAL B -5 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z PRO B -4 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z ARG B -3 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z GLY B -2 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z SER B -1 UNP A0A3S7X3C EXPRESSION TAG SEQADV 6K8Z HIS B 0 UNP A0A3S7X3C EXPRESSION TAG SEQRES 1 A 322 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 322 LEU VAL PRO ARG GLY SER HIS MET THR ASP ASP LYS HIS SEQRES 3 A 322 VAL LEU SER ILE GLN SER HIS VAL THR HIS GLY TYR VAL SEQRES 4 A 322 GLY ASN LYS ALA ALA THR PHE PRO LEU GLN LEU HIS GLY SEQRES 5 A 322 PHE ASP VAL ASP ALA ILE ASN THR VAL SER LEU SER ASN SEQRES 6 A 322 HIS SER GLY TYR PRO VAL ILE LYS GLY HIS ARG MET ASP SEQRES 7 A 322 LEU GLU GLU PHE THR THR ILE MET GLU GLY LEU ARG ALA SEQRES 8 A 322 ASN ASP PHE LEU SER ASP TYR ALA TYR VAL LEU THR GLY SEQRES 9 A 322 TYR ILE ASN ASN ARG ASP ILE VAL ARG GLN VAL ALA ALA SEQRES 10 A 322 THR VAL ALA GLU ILE ARG GLU ALA ARG GLN LYS GLN GLY SEQRES 11 A 322 LYS LYS ASP ALA VAL PHE PHE CYS ASP PRO VAL MET GLY SEQRES 12 A 322 ASP ASP GLY ARG LEU TYR CYS LYS GLU GLU VAL VAL GLU SEQRES 13 A 322 ALA TYR ARG GLU LEU LEU THR HIS ALA ASP VAL ALA THR SEQRES 14 A 322 PRO ASN TYR PHE GLU ALA SER ILE LEU SER THR VAL GLU SEQRES 15 A 322 VAL LYS ASP LEU ALA SER ALA ILE GLU ALA ALA ASN TRP SEQRES 16 A 322 PHE HIS THR GLN GLY THR PRO THR VAL VAL ILE LYS SER SEQRES 17 A 322 PHE ALA MET ALA ASP ASP PRO THR HIS LEU ARG PHE LEU SEQRES 18 A 322 LEU SER CYS ARG ASP LYS ALA THR GLY SER THR LYS ARG SEQRES 19 A 322 TYR THR GLY VAL VAL PRO TYR HIS GLU GLY ARG TYR THR SEQRES 20 A 322 GLY THR GLY ASP VAL PHE ALA ALA SER LEU VAL ALA PHE SEQRES 21 A 322 ALA HIS SER ASP PRO MET ASP LEU ALA VAL GLY LYS ALA SEQRES 22 A 322 MET GLY VAL LEU GLN ASP LEU ILE LYS ALA THR ILE GLU SEQRES 23 A 322 ARG GLY GLY SER GLY LYS ALA THR LEU SER SER ARG GLU SEQRES 24 A 322 LEU ARG VAL THR SER TYR PRO ASP ARG LEU GLN HIS PRO SEQRES 25 A 322 SER SER VAL ALA LEU VAL THR PRO LEU PRO SEQRES 1 B 322 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 322 LEU VAL PRO ARG GLY SER HIS MET THR ASP ASP LYS HIS SEQRES 3 B 322 VAL LEU SER ILE GLN SER HIS VAL THR HIS GLY TYR VAL SEQRES 4 B 322 GLY ASN LYS ALA ALA THR PHE PRO LEU GLN LEU HIS GLY SEQRES 5 B 322 PHE ASP VAL ASP ALA ILE ASN THR VAL SER LEU SER ASN SEQRES 6 B 322 HIS SER GLY TYR PRO VAL ILE LYS GLY HIS ARG MET ASP SEQRES 7 B 322 LEU GLU GLU PHE THR THR ILE MET GLU GLY LEU ARG ALA SEQRES 8 B 322 ASN ASP PHE LEU SER ASP TYR ALA TYR VAL LEU THR GLY SEQRES 9 B 322 TYR ILE ASN ASN ARG ASP ILE VAL ARG GLN VAL ALA ALA SEQRES 10 B 322 THR VAL ALA GLU ILE ARG GLU ALA ARG GLN LYS GLN GLY SEQRES 11 B 322 LYS LYS ASP ALA VAL PHE PHE CYS ASP PRO VAL MET GLY SEQRES 12 B 322 ASP ASP GLY ARG LEU TYR CYS LYS GLU GLU VAL VAL GLU SEQRES 13 B 322 ALA TYR ARG GLU LEU LEU THR HIS ALA ASP VAL ALA THR SEQRES 14 B 322 PRO ASN TYR PHE GLU ALA SER ILE LEU SER THR VAL GLU SEQRES 15 B 322 VAL LYS ASP LEU ALA SER ALA ILE GLU ALA ALA ASN TRP SEQRES 16 B 322 PHE HIS THR GLN GLY THR PRO THR VAL VAL ILE LYS SER SEQRES 17 B 322 PHE ALA MET ALA ASP ASP PRO THR HIS LEU ARG PHE LEU SEQRES 18 B 322 LEU SER CYS ARG ASP LYS ALA THR GLY SER THR LYS ARG SEQRES 19 B 322 TYR THR GLY VAL VAL PRO TYR HIS GLU GLY ARG TYR THR SEQRES 20 B 322 GLY THR GLY ASP VAL PHE ALA ALA SER LEU VAL ALA PHE SEQRES 21 B 322 ALA HIS SER ASP PRO MET ASP LEU ALA VAL GLY LYS ALA SEQRES 22 B 322 MET GLY VAL LEU GLN ASP LEU ILE LYS ALA THR ILE GLU SEQRES 23 B 322 ARG GLY GLY SER GLY LYS ALA THR LEU SER SER ARG GLU SEQRES 24 B 322 LEU ARG VAL THR SER TYR PRO ASP ARG LEU GLN HIS PRO SEQRES 25 B 322 SER SER VAL ALA LEU VAL THR PRO LEU PRO HET ADP A 401 27 HET CA A 402 1 HET CA A 403 1 HET ACT A 404 4 HET CL A 405 1 HET ADP B 401 27 HET CA B 402 1 HET CA B 403 1 HET CA B 404 1 HET CA B 405 1 HET ACT B 406 4 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM CA CALCIUM ION HETNAM ACT ACETATE ION HETNAM CL CHLORIDE ION FORMUL 3 ADP 2(C10 H15 N5 O10 P2) FORMUL 4 CA 6(CA 2+) FORMUL 6 ACT 2(C2 H3 O2 1-) FORMUL 7 CL CL 1- FORMUL 14 HOH *217(H2 O) HELIX 1 AA1 GLY A 20 HIS A 31 1 12 HELIX 2 AA2 ASP A 58 ASN A 72 1 15 HELIX 3 AA3 PHE A 74 TYR A 78 5 5 HELIX 4 AA4 ASN A 88 GLN A 109 1 22 HELIX 5 AA5 GLU A 133 LEU A 142 1 10 HELIX 6 AA6 THR A 143 ALA A 145 5 3 HELIX 7 AA7 ASN A 151 THR A 160 1 10 HELIX 8 AA8 ASP A 165 GLY A 180 1 16 HELIX 9 AA9 GLY A 228 ASP A 244 1 17 HELIX 10 AB1 PRO A 245 GLU A 266 1 22 HELIX 11 AB2 TYR A 285 HIS A 291 1 7 HELIX 12 AB3 VAL B 19 HIS B 31 1 13 HELIX 13 AB4 ASP B 58 ASN B 72 1 15 HELIX 14 AB5 PHE B 74 TYR B 78 5 5 HELIX 15 AB6 ASN B 88 GLN B 109 1 22 HELIX 16 AB7 GLU B 132 THR B 143 1 12 HELIX 17 AB8 ASN B 151 THR B 160 1 10 HELIX 18 AB9 ASP B 165 GLY B 180 1 16 HELIX 19 AC1 GLY B 228 HIS B 242 1 15 HELIX 20 AC2 PRO B 245 ARG B 267 1 23 HELIX 21 AC3 THR B 274 GLU B 279 1 6 HELIX 22 AC4 TYR B 285 HIS B 291 1 7 SHEET 1 AA110 GLY A 54 ARG A 56 0 SHEET 2 AA110 ASP A 34 LEU A 43 -1 N SER A 42 O HIS A 55 SHEET 3 AA110 HIS A 6 VAL A 14 1 N VAL A 7 O ASP A 36 SHEET 4 AA110 TYR A 80 THR A 83 1 O LEU A 82 N LEU A 8 SHEET 5 AA110 VAL A 115 CYS A 118 1 O PHE A 117 N VAL A 81 SHEET 6 AA110 VAL A 147 ALA A 148 1 O VAL A 147 N CYS A 118 SHEET 7 AA110 THR A 183 ALA A 190 1 O VAL A 185 N ALA A 148 SHEET 8 AA110 HIS A 197 ARG A 205 -1 O SER A 203 N VAL A 184 SHEET 9 AA110 THR A 212 PRO A 220 -1 O LYS A 213 N CYS A 204 SHEET 10 AA110 THR A 299 PRO A 300 -1 O THR A 299 N THR A 216 SHEET 1 AA210 GLY B 54 ARG B 56 0 SHEET 2 AA210 ASP B 34 LEU B 43 -1 N SER B 42 O HIS B 55 SHEET 3 AA210 HIS B 6 VAL B 14 1 N VAL B 7 O ASP B 36 SHEET 4 AA210 TYR B 80 THR B 83 1 O LEU B 82 N LEU B 8 SHEET 5 AA210 VAL B 115 CYS B 118 1 O PHE B 117 N VAL B 81 SHEET 6 AA210 VAL B 147 ALA B 148 1 O VAL B 147 N CYS B 118 SHEET 7 AA210 THR B 183 ALA B 190 1 O VAL B 185 N ALA B 148 SHEET 8 AA210 HIS B 197 ARG B 205 -1 O SER B 203 N VAL B 184 SHEET 9 AA210 THR B 212 PRO B 220 -1 O LYS B 213 N CYS B 204 SHEET 10 AA210 THR B 299 PRO B 300 -1 O THR B 299 N THR B 216 SHEET 1 AA3 2 GLY B 123 ASP B 124 0 SHEET 2 AA3 2 ARG B 127 LEU B 128 -1 O ARG B 127 N ASP B 124 LINK OD1 ASP A 124 CA CA A 403 1555 1555 3.15 LINK OD2 ASP A 124 CA CA A 403 1555 1555 2.31 LINK O1B ADP A 401 CA CA A 402 1555 1555 2.30 LINK O2B ADP A 401 CA CA A 403 1555 1555 2.38 LINK O2A ADP A 401 CA CA A 403 1555 1555 2.38 LINK OD1 ASP B 124 CA CA B 403 1555 1555 2.69 LINK OD2 ASP B 124 CA CA B 403 1555 1555 2.43 LINK O THR B 143 CA CA B 405 1555 1555 2.44 LINK O GLY B 180 CA CA B 405 1555 1555 2.41 LINK O SER B 243 CA CA B 404 1555 1555 2.70 LINK OD1 ASP B 244 CA CA B 404 1555 1555 2.41 LINK O2B ADP B 401 CA CA B 402 1555 1555 2.32 LINK O1B ADP B 401 CA CA B 403 1555 1555 2.35 LINK O1A ADP B 401 CA CA B 403 1555 1555 2.28 SITE 1 AC1 19 ASP A 124 ASN A 151 LYS A 187 SER A 188 SITE 2 AC1 19 LEU A 198 PRO A 220 HIS A 222 THR A 229 SITE 3 AC1 19 GLY A 230 MET A 254 LEU A 257 GLN A 258 SITE 4 AC1 19 ILE A 261 CA A 402 CA A 403 HOH A 508 SITE 5 AC1 19 HOH A 509 HOH A 553 HOH A 571 SITE 1 AC2 7 ADP A 401 HOH A 505 HOH A 512 HOH A 532 SITE 2 AC2 7 HOH A 571 HOH A 577 HOH A 578 SITE 1 AC3 6 ASP A 124 ADP A 401 HOH A 508 HOH A 553 SITE 2 AC3 6 HOH A 573 HOH A 579 SITE 1 AC4 4 SER A 12 VAL A 19 HOH A 533 HOH A 540 SITE 1 AC5 3 LEU A 166 MET A 191 ARG A 199 SITE 1 AC6 22 ASP B 124 ASN B 151 LYS B 187 SER B 188 SITE 2 AC6 22 LEU B 198 PRO B 220 TYR B 221 HIS B 222 SITE 3 AC6 22 GLY B 224 THR B 229 GLY B 230 MET B 254 SITE 4 AC6 22 LEU B 257 ILE B 261 CA B 402 CA B 403 SITE 5 AC6 22 HOH B 509 HOH B 568 HOH B 573 HOH B 587 SITE 6 AC6 22 HOH B 591 HOH B 606 SITE 1 AC7 7 ADP B 401 HOH B 504 HOH B 510 HOH B 526 SITE 2 AC7 7 HOH B 591 HOH B 619 HOH B 623 SITE 1 AC8 4 ASP B 124 ADP B 401 HOH B 573 HOH B 587 SITE 1 AC9 6 HOH A 506 HOH A 548 SER B 243 ASP B 244 SITE 2 AC9 6 HOH B 604 HOH B 626 SITE 1 AD1 4 THR B 143 GLY B 180 HOH B 508 HOH B 597 SITE 1 AD2 6 SER B 12 VAL B 19 TYR B 85 HOH B 516 SITE 2 AD2 6 HOH B 540 HOH B 598 CRYST1 54.630 71.080 77.310 90.00 98.93 90.00 P 1 21 1 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 0.018305 0.000000 0.002876 0.00000 SCALE2 0.000000 0.014069 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013094 0.00000