HEADER TRANSFERASE 13-JAN-15 4S1H TITLE PYRIDOXAL KINASE OF ENTAMOEBA HISTOLYTICA WITH ADP COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRIDOXAL KINASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.7.1.35; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTAMOEBA HISTOLYTICA; SOURCE 3 ORGANISM_TAXID: 5759; SOURCE 4 GENE: EHI_126090; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28B KEYWDS PYRIDOXAL 5'-PHOSPHATE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR K.F.TARIQUE,S.DEVI,S.A.ABDUL REHMAN,S.GOURINATH REVDAT 4 03-APR-24 4S1H 1 REMARK REVDAT 3 28-FEB-24 4S1H 1 REMARK REVDAT 2 24-MAR-21 4S1H 1 JRNL REMARK SEQADV LINK REVDAT 1 28-JAN-15 4S1H 0 JRNL AUTH K.F.TARIQUE,S.DEVI,P.TOMAR,M.F.ALI,S.A.A.REHMAN,S.GOURINATH JRNL TITL CHARACTERIZATION AND FUNCTIONAL INSIGHTS INTO THE ENTAMOEBA JRNL TITL 2 HISTOLYTICA PYRIDOXAL KINASE, AN ENZYME ESSENTIAL FOR ITS JRNL TITL 3 SURVIVAL. JRNL REF J.STRUCT.BIOL. V. 212 07645 2020 JRNL REFN ESSN 1095-8657 JRNL PMID 33045383 JRNL DOI 10.1016/J.JSB.2020.107645 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0102 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 89.6 REMARK 3 NUMBER OF REFLECTIONS : 59902 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3160 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2507 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 49.81 REMARK 3 BIN R VALUE (WORKING SET) : 0.2190 REMARK 3 BIN FREE R VALUE SET COUNT : 109 REMARK 3 BIN FREE R VALUE : 0.2600 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4426 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 58 REMARK 3 SOLVENT ATOMS : 305 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.47 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.58000 REMARK 3 B22 (A**2) : -1.51000 REMARK 3 B33 (A**2) : 1.68000 REMARK 3 B12 (A**2) : 0.60000 REMARK 3 B13 (A**2) : 0.27000 REMARK 3 B23 (A**2) : -0.08000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.109 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.105 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.077 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.381 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4557 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4429 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6197 ; 1.548 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10210 ; 1.267 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 564 ; 6.288 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 181 ;38.141 ;25.249 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 810 ;12.378 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;16.817 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 753 ; 0.110 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5014 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 976 ; 0.005 ; 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): 2262 ; 4.720 ; 0.694 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2261 ; 4.718 ; 0.693 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2824 ; 5.511 ; 1.028 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2825 ; 5.510 ; 1.029 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2295 ; 8.117 ; 1.205 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2296 ; 8.116 ; 1.205 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3374 ; 9.624 ; 1.563 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5307 ;10.885 ; 7.574 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5183 ;10.923 ; 7.041 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 1 278 B 1 278 35286 0.08 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 1 A 287 REMARK 3 ORIGIN FOR THE GROUP (A): -11.1630 17.0730 -6.7510 REMARK 3 T TENSOR REMARK 3 T11: 0.1935 T22: 0.1961 REMARK 3 T33: 0.0116 T12: -0.0613 REMARK 3 T13: 0.0070 T23: -0.0056 REMARK 3 L TENSOR REMARK 3 L11: 0.8349 L22: 0.6106 REMARK 3 L33: 1.7408 L12: -0.3470 REMARK 3 L13: 0.4895 L23: -0.0479 REMARK 3 S TENSOR REMARK 3 S11: 0.0045 S12: 0.0419 S13: 0.0292 REMARK 3 S21: -0.1065 S22: 0.0314 S23: -0.0468 REMARK 3 S31: 0.0023 S32: 0.0298 S33: -0.0360 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 279 REMARK 3 ORIGIN FOR THE GROUP (A): -3.8150 25.4980 26.0360 REMARK 3 T TENSOR REMARK 3 T11: 0.1571 T22: 0.2133 REMARK 3 T33: 0.0023 T12: -0.0424 REMARK 3 T13: -0.0116 T23: -0.0134 REMARK 3 L TENSOR REMARK 3 L11: 0.9361 L22: 0.6067 REMARK 3 L33: 2.2777 L12: -0.0303 REMARK 3 L13: 0.1541 L23: 0.1936 REMARK 3 S TENSOR REMARK 3 S11: 0.0006 S12: -0.0575 S13: -0.0038 REMARK 3 S21: 0.0451 S22: -0.0215 S23: -0.0069 REMARK 3 S31: -0.0853 S32: -0.1480 S33: 0.0210 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.10 REMARK 3 ION PROBE RADIUS : 0.90 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4S1H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-JAN-15. REMARK 100 THE DEPOSITION ID IS D_1000088060. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.953 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 63103 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.8 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06800 REMARK 200 FOR THE DATA SET : 29.3400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 REMARK 200 COMPLETENESS FOR SHELL (%) : 48.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.23000 REMARK 200 FOR SHELL : 3.670 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: NATIVE PYRIDOXAL KINASE FROM ENTAMOEBA HISTOLYTICA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG4000, 100MM TRIS PH7.5, 0.2M REMARK 280 MGCL2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 273K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: 5730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21290 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -78.0 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 LEU B 280 REMARK 465 GLU B 281 REMARK 465 HIS B 282 REMARK 465 HIS B 283 REMARK 465 HIS B 284 REMARK 465 HIS B 285 REMARK 465 HIS B 286 REMARK 465 HIS B 287 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 HIS A 287 CG ND1 CD2 CE1 NE2 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 GLU B 125 CD GLU B 125 OE2 -0.067 REMARK 500 VAL B 126 CB VAL B 126 CG1 -0.143 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG B 20 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 MET B 23 CG - SD - CE ANGL. DEV. = -15.5 DEGREES REMARK 500 TYR B 121 CA - CB - CG ANGL. DEV. = 13.1 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 SER B 9 -175.15 -170.37 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 HIS A 286 HIS A 287 143.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 111 OD1 REMARK 620 2 THR A 141 O 88.7 REMARK 620 3 HOH A 401 O 89.6 91.5 REMARK 620 4 HOH A 402 O 91.8 176.3 84.9 REMARK 620 5 HOH A 550 O 91.6 94.3 174.2 89.4 REMARK 620 6 HOH A 554 O 175.4 88.5 86.7 90.7 92.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 116 OD2 REMARK 620 2 ADP A 301 O2A 169.1 REMARK 620 3 ADP A 301 O1B 84.7 85.8 REMARK 620 4 HOH A 421 O 88.8 87.0 96.6 REMARK 620 5 HOH A 480 O 91.6 92.7 83.9 179.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 111 OD1 REMARK 620 2 THR B 141 O 88.0 REMARK 620 3 HOH B 490 O 89.5 176.0 REMARK 620 4 HOH B 545 O 89.2 93.0 90.1 REMARK 620 5 HOH B 548 O 176.8 91.2 91.1 94.0 REMARK 620 6 HOH B 551 O 89.5 91.6 85.2 175.1 87.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 116 OD2 REMARK 620 2 ADP B 302 O1A 169.1 REMARK 620 3 ADP B 302 O1B 87.0 89.9 REMARK 620 4 HOH B 401 O 86.6 83.6 99.0 REMARK 620 5 HOH B 402 O 88.1 95.7 173.5 84.9 REMARK 620 6 HOH B 449 O 90.4 99.8 86.4 173.7 89.4 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4S1I RELATED DB: PDB DBREF 4S1H A 1 279 UNP C4LVZ4 C4LVZ4_ENTHI 1 279 DBREF 4S1H B 1 279 UNP C4LVZ4 C4LVZ4_ENTHI 1 279 SEQADV 4S1H LEU A 280 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H GLU A 281 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H HIS A 282 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H HIS A 283 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H HIS A 284 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H HIS A 285 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H HIS A 286 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H HIS A 287 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H LEU B 280 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H GLU B 281 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H HIS B 282 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H HIS B 283 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H HIS B 284 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H HIS B 285 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H HIS B 286 UNP C4LVZ4 EXPRESSION TAG SEQADV 4S1H HIS B 287 UNP C4LVZ4 EXPRESSION TAG SEQRES 1 A 287 MET THR ASN LYS VAL LEU THR ILE SER SER TYR VAL CYS SEQRES 2 A 287 SER GLY PHE VAL GLY ASN ARG CYS GLY MET ILE ILE LEU SEQRES 3 A 287 ASP SER PHE GLN ILE GLN SER ILE PHE VAL LEU THR THR SEQRES 4 A 287 HIS LEU ALA ASN HIS THR GLY TYR PRO VAL VAL GLY GLY SEQRES 5 A 287 SER GLY VAL LEU LEU ASN ASP PHE ILE SER ILE MET ASP SEQRES 6 A 287 SER LEU GLU VAL ASN HIS LEU ASP LYS ASP ILE GLU PHE SEQRES 7 A 287 LEU VAL THR GLY TYR PHE PRO SER SER ASP LEU VAL TYR SEQRES 8 A 287 GLU THR ILE ASN ARG VAL LYS ARG ILE LYS ASP ASN LYS SEQRES 9 A 287 LYS VAL TYR PHE LEU CYS ASP PRO ILE LEU GLY ASP ASN SEQRES 10 A 287 GLY LYS MET TYR THR LYS SER GLU VAL GLN ASP SER MET SEQRES 11 A 287 LYS GLU LEU ILE LYS TYR ALA ASP ILE ILE THR PRO ASN SEQRES 12 A 287 ALA THR GLU LEU SER PHE LEU THR GLY LEU GLU VAL ASN SEQRES 13 A 287 SER VAL SER GLU ALA ILE LYS ALA CYS HIS ILE LEU HIS SEQRES 14 A 287 GLU GLN GLY ILE PRO VAL ILE LEU VAL THR SER ILE LYS SEQRES 15 A 287 GLU GLY ASN ASP ILE ILE LEU LEU CYS SER PHE LYS ASP SEQRES 16 A 287 THR LEU ASN ASN LYS ASN PHE THR ILE LYS ILE PRO ARG SEQRES 17 A 287 ILE GLU GLY ASP PHE THR GLY VAL GLY ASP THR LEU THR SEQRES 18 A 287 TYR ILE LEU LEU SER TRP ILE ILE LYS GLY ILE PRO LEU SEQRES 19 A 287 GLU HIS ALA VAL ASN ARG ALA ILE SER THR LEU GLN THR SEQRES 20 A 287 ILE LEU ARG ASN THR VAL GLY THR ALA GLU ILE ASN ILE SEQRES 21 A 287 ILE ASN CYS ILE PRO TYR LEU LYS GLY THR GLU GLU SER SEQRES 22 A 287 PHE THR ILE THR TYR ILE LEU GLU HIS HIS HIS HIS HIS SEQRES 23 A 287 HIS SEQRES 1 B 287 MET THR ASN LYS VAL LEU THR ILE SER SER TYR VAL CYS SEQRES 2 B 287 SER GLY PHE VAL GLY ASN ARG CYS GLY MET ILE ILE LEU SEQRES 3 B 287 ASP SER PHE GLN ILE GLN SER ILE PHE VAL LEU THR THR SEQRES 4 B 287 HIS LEU ALA ASN HIS THR GLY TYR PRO VAL VAL GLY GLY SEQRES 5 B 287 SER GLY VAL LEU LEU ASN ASP PHE ILE SER ILE MET ASP SEQRES 6 B 287 SER LEU GLU VAL ASN HIS LEU ASP LYS ASP ILE GLU PHE SEQRES 7 B 287 LEU VAL THR GLY TYR PHE PRO SER SER ASP LEU VAL TYR SEQRES 8 B 287 GLU THR ILE ASN ARG VAL LYS ARG ILE LYS ASP ASN LYS SEQRES 9 B 287 LYS VAL TYR PHE LEU CYS ASP PRO ILE LEU GLY ASP ASN SEQRES 10 B 287 GLY LYS MET TYR THR LYS SER GLU VAL GLN ASP SER MET SEQRES 11 B 287 LYS GLU LEU ILE LYS TYR ALA ASP ILE ILE THR PRO ASN SEQRES 12 B 287 ALA THR GLU LEU SER PHE LEU THR GLY LEU GLU VAL ASN SEQRES 13 B 287 SER VAL SER GLU ALA ILE LYS ALA CYS HIS ILE LEU HIS SEQRES 14 B 287 GLU GLN GLY ILE PRO VAL ILE LEU VAL THR SER ILE LYS SEQRES 15 B 287 GLU GLY ASN ASP ILE ILE LEU LEU CYS SER PHE LYS ASP SEQRES 16 B 287 THR LEU ASN ASN LYS ASN PHE THR ILE LYS ILE PRO ARG SEQRES 17 B 287 ILE GLU GLY ASP PHE THR GLY VAL GLY ASP THR LEU THR SEQRES 18 B 287 TYR ILE LEU LEU SER TRP ILE ILE LYS GLY ILE PRO LEU SEQRES 19 B 287 GLU HIS ALA VAL ASN ARG ALA ILE SER THR LEU GLN THR SEQRES 20 B 287 ILE LEU ARG ASN THR VAL GLY THR ALA GLU ILE ASN ILE SEQRES 21 B 287 ILE ASN CYS ILE PRO TYR LEU LYS GLY THR GLU GLU SER SEQRES 22 B 287 PHE THR ILE THR TYR ILE LEU GLU HIS HIS HIS HIS HIS SEQRES 23 B 287 HIS HET ADP A 301 27 HET MG A 302 1 HET MG A 303 1 HET MG B 301 1 HET ADP B 302 27 HET MG B 303 1 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 3 ADP 2(C10 H15 N5 O10 P2) FORMUL 4 MG 4(MG 2+) FORMUL 9 HOH *305(H2 O) HELIX 1 1 VAL A 17 PHE A 29 1 13 HELIX 2 2 LEU A 56 ASN A 70 1 15 HELIX 3 3 SER A 86 LYS A 101 1 16 HELIX 4 4 LYS A 123 ILE A 134 1 12 HELIX 5 5 LYS A 135 ALA A 137 5 3 HELIX 6 6 ASN A 143 GLY A 152 1 10 HELIX 7 7 SER A 157 GLN A 171 1 15 HELIX 8 8 GLY A 215 LYS A 230 1 16 HELIX 9 9 PRO A 233 ASN A 251 1 19 HELIX 10 10 CYS A 263 LEU A 267 5 5 HELIX 11 11 HIS A 282 HIS A 286 5 5 HELIX 12 12 VAL B 17 PHE B 29 1 13 HELIX 13 13 LEU B 56 ASN B 70 1 15 HELIX 14 14 SER B 86 LYS B 101 1 16 HELIX 15 15 GLU B 125 ILE B 134 1 10 HELIX 16 16 LYS B 135 ALA B 137 5 3 HELIX 17 17 ASN B 143 GLY B 152 1 10 HELIX 18 18 SER B 157 GLN B 171 1 15 HELIX 19 19 GLY B 215 LYS B 230 1 16 HELIX 20 20 PRO B 233 ASN B 251 1 19 HELIX 21 21 CYS B 263 LEU B 267 5 5 SHEET 1 A 5 SER A 33 LEU A 37 0 SHEET 2 A 5 VAL A 5 SER A 9 1 N VAL A 5 O ILE A 34 SHEET 3 A 5 PHE A 78 THR A 81 1 O VAL A 80 N ILE A 8 SHEET 4 A 5 TYR A 107 CYS A 110 1 O LEU A 109 N LEU A 79 SHEET 5 A 5 ILE A 139 ILE A 140 1 O ILE A 139 N CYS A 110 SHEET 1 B 2 THR A 39 LEU A 41 0 SHEET 2 B 2 GLY A 52 GLY A 54 -1 O SER A 53 N HIS A 40 SHEET 1 C 2 GLY A 115 ASP A 116 0 SHEET 2 C 2 LYS A 119 MET A 120 -1 O LYS A 119 N ASP A 116 SHEET 1 D 4 VAL A 175 GLU A 183 0 SHEET 2 D 4 ASP A 186 PHE A 193 -1 O ILE A 188 N ILE A 181 SHEET 3 D 4 PHE A 202 PRO A 207 -1 O PHE A 202 N CYS A 191 SHEET 4 D 4 THR A 277 TYR A 278 -1 O THR A 277 N THR A 203 SHEET 1 E 5 SER B 33 LEU B 37 0 SHEET 2 E 5 VAL B 5 SER B 9 1 N THR B 7 O ILE B 34 SHEET 3 E 5 PHE B 78 THR B 81 1 O VAL B 80 N ILE B 8 SHEET 4 E 5 TYR B 107 CYS B 110 1 O LEU B 109 N LEU B 79 SHEET 5 E 5 ILE B 139 ILE B 140 1 O ILE B 139 N CYS B 110 SHEET 1 F 2 THR B 39 LEU B 41 0 SHEET 2 F 2 GLY B 52 GLY B 54 -1 O SER B 53 N HIS B 40 SHEET 1 G 2 GLY B 115 ASP B 116 0 SHEET 2 G 2 LYS B 119 MET B 120 -1 O LYS B 119 N ASP B 116 SHEET 1 H 4 VAL B 175 GLU B 183 0 SHEET 2 H 4 ASP B 186 PHE B 193 -1 O LEU B 190 N VAL B 178 SHEET 3 H 4 PHE B 202 PRO B 207 -1 O PHE B 202 N CYS B 191 SHEET 4 H 4 THR B 277 TYR B 278 -1 O THR B 277 N THR B 203 LINK OD1 ASP A 111 MG MG A 302 1555 1555 2.00 LINK OD2 ASP A 116 MG MG A 303 1555 1555 2.20 LINK O THR A 141 MG MG A 302 1555 1555 2.14 LINK O2A ADP A 301 MG MG A 303 1555 1555 1.96 LINK O1B ADP A 301 MG MG A 303 1555 1555 2.05 LINK MG MG A 302 O HOH A 401 1555 1555 2.32 LINK MG MG A 302 O HOH A 402 1555 1555 2.21 LINK MG MG A 302 O HOH A 550 1555 1555 1.98 LINK MG MG A 302 O HOH A 554 1555 1555 2.05 LINK MG MG A 303 O HOH A 421 1555 1555 2.05 LINK MG MG A 303 O HOH A 480 1555 1555 2.17 LINK OD1 ASP B 111 MG MG B 301 1555 1555 2.03 LINK OD2 ASP B 116 MG MG B 303 1555 1555 2.16 LINK O THR B 141 MG MG B 301 1555 1555 2.09 LINK MG MG B 301 O HOH B 490 1555 1555 2.16 LINK MG MG B 301 O HOH B 545 1555 1555 1.96 LINK MG MG B 301 O HOH B 548 1555 1555 2.03 LINK MG MG B 301 O HOH B 551 1555 1555 2.21 LINK O1A ADP B 302 MG MG B 303 1555 1555 1.92 LINK O1B ADP B 302 MG MG B 303 1555 1555 1.95 LINK MG MG B 303 O HOH B 401 1555 1555 2.12 LINK MG MG B 303 O HOH B 402 1555 1555 2.08 LINK MG MG B 303 O HOH B 449 1555 1555 2.10 SITE 1 AC1 26 ASP A 116 ASN A 143 THR A 179 SER A 180 SITE 2 AC1 26 ILE A 187 ILE A 206 PRO A 207 ARG A 208 SITE 3 AC1 26 ILE A 209 GLY A 211 VAL A 216 GLY A 217 SITE 4 AC1 26 ILE A 242 LEU A 245 GLN A 246 LEU A 249 SITE 5 AC1 26 MG A 303 HOH A 421 HOH A 428 HOH A 454 SITE 6 AC1 26 HOH A 471 HOH A 480 HOH A 531 HOH A 542 SITE 7 AC1 26 HOH A 543 HOH A 554 SITE 1 AC2 6 ASP A 111 THR A 141 HOH A 401 HOH A 402 SITE 2 AC2 6 HOH A 550 HOH A 554 SITE 1 AC3 4 ASP A 116 ADP A 301 HOH A 421 HOH A 480 SITE 1 AC4 6 ASP B 111 THR B 141 HOH B 490 HOH B 545 SITE 2 AC4 6 HOH B 548 HOH B 551 SITE 1 AC5 22 ASP B 116 ASN B 143 THR B 179 SER B 180 SITE 2 AC5 22 ILE B 187 ARG B 208 ILE B 209 GLY B 211 SITE 3 AC5 22 PHE B 213 VAL B 216 GLY B 217 LEU B 245 SITE 4 AC5 22 GLN B 246 LEU B 249 MG B 303 HOH B 401 SITE 5 AC5 22 HOH B 402 HOH B 417 HOH B 445 HOH B 449 SITE 6 AC5 22 HOH B 452 HOH B 548 SITE 1 AC6 5 ASP B 116 ADP B 302 HOH B 401 HOH B 402 SITE 2 AC6 5 HOH B 449 CRYST1 44.256 44.272 75.246 89.94 102.89 107.03 P 1 2 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 0.022596 0.006921 0.005662 0.00000 SCALE2 0.000000 0.023623 0.001633 0.00000 SCALE3 0.000000 0.000000 0.013666 0.00000