HEADER TRANSFERASE 13-AUG-17 6ANH TITLE CRYSTAL STRUCTURE OF PPK2 CLASS III IN COMPLEX WITH GUANOSINE 5- TITLE 2 TETRAPHOSPHATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYPHOSPHATE:AMP PHOSPHOTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.4.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CYTOPHAGA HUTCHINSONII (STRAIN ATCC 33406 / SOURCE 3 NCIMB 9469); SOURCE 4 ORGANISM_TAXID: 269798; SOURCE 5 STRAIN: ATCC 33406 / NCIMB 9469; SOURCE 6 GENE: CHU_0107; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PPK2, KINASE, GUANOSINE 5-TETRAPHOSPHATE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR B.NOCEK,A.JOACHIMIAK,A.YAKUNIN REVDAT 2 29-JUL-20 6ANH 1 JRNL REVDAT 1 16-JAN-19 6ANH 0 JRNL AUTH B.NOCEK,A.N.KHUSNUTDINOVA,M.RUSZKOWSKI,R.FLICK,M.BURDA, JRNL AUTH 2 K.BATYROVA,G.BROWN,A.MUCHA,A.JOACHIMIAK,L.BERLICKI, JRNL AUTH 3 A.F.YAKUNIN JRNL TITL STRUCTURAL INSIGHTS INTO SUBSTRATE SELECTIVITY AND ACTIVITY JRNL TITL 2 OF BACTERIAL POLYPHOSPHATE KINASES JRNL REF ACS CATALYSIS V. 8 10746 2018 JRNL REFN ESSN 2155-5435 JRNL DOI 10.1021/ACSCATAL.8B03151 REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.17 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 15516 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) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 825 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL 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) : 1105 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.24 REMARK 3 BIN R VALUE (WORKING SET) : 0.3500 REMARK 3 BIN FREE R VALUE SET COUNT : 67 REMARK 3 BIN FREE R VALUE : 0.3460 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2357 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 30 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 65.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.03000 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): 0.339 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.255 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.210 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.719 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): 2445 ; 0.013 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2248 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3332 ; 1.493 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5154 ; 1.095 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 299 ; 5.975 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 111 ;40.012 ;24.865 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 392 ;17.929 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;18.221 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 379 ; 0.163 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2749 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 558 ; 0.002 ; 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): 1199 ; 6.319 ; 6.997 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1198 ; 6.301 ; 6.996 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1497 ; 8.826 ;10.504 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1498 ; 8.826 ;10.507 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1245 ; 6.792 ; 7.431 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1243 ; 6.797 ; 7.427 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1836 ;10.004 ;10.936 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 10424 ;13.010 ;66.534 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 10412 ;13.011 ;66.553 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 6ANH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-AUG-17. REMARK 100 THE DEPOSITION ID IS D_1000229506. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-AUG-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9794 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17542 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 36.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.74 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: SAD REMARK 200 SOFTWARE USED: HKL-3000 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.1 M AMMONIUM TARTRATE DIBASIC, PH 7, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+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 55.40600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 55.40600 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 89.40350 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 55.40600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 44.70175 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 55.40600 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 134.10525 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 55.40600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 134.10525 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.40600 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 44.70175 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 55.40600 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 55.40600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 89.40350 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 SMTRY1 9 1.000000 0.000000 0.000000 55.40600 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 55.40600 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 89.40350 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 55.40600 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 134.10525 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 55.40600 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 44.70175 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 55.40600 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 44.70175 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 55.40600 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 134.10525 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 55.40600 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 55.40600 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 89.40350 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 A 526 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 MSE A 1 REMARK 465 ALA A 2 REMARK 465 SER A 303 REMARK 465 SER A 304 REMARK 465 ASP A 305 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 PHE A 5 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 7 CG CD CE NZ REMARK 470 LYS A 10 CG CD CE NZ REMARK 470 GLU A 13 CG CD OE1 OE2 REMARK 470 LYS A 18 CG CD CE NZ REMARK 470 LYS A 20 CG CD CE NZ REMARK 470 LYS A 27 CG CD CE NZ REMARK 470 HIS A 35 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 36 CG CD CE NZ REMARK 470 LEU A 38 CG CD1 CD2 REMARK 470 GLU A 45 CG CD OE1 OE2 REMARK 470 GLU A 56 CG CD OE1 OE2 REMARK 470 LYS A 98 CG CD CE NZ REMARK 470 LYS A 199 CG CD CE NZ REMARK 470 LYS A 203 CG CD CE NZ REMARK 470 GLU A 207 CG CD OE1 OE2 REMARK 470 LYS A 214 CG CD CE NZ REMARK 470 LYS A 217 CG CD CE NZ REMARK 470 LYS A 224 CG CD CE NZ REMARK 470 LYS A 230 CG CD CE NZ REMARK 470 LYS A 246 CG CD CE NZ REMARK 470 GLU A 290 CG CD OE1 OE2 REMARK 470 LYS A 295 CG CD CE NZ REMARK 470 LYS A 302 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 523 O HOH A 523 10555 1.79 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 LYS A 103 -169.28 -120.40 REMARK 500 ARG A 133 153.08 87.40 REMARK 500 SER A 134 -155.23 -145.57 REMARK 500 LEU A 140 -84.12 -120.89 REMARK 500 ALA A 248 79.08 -113.33 REMARK 500 ALA A 300 39.69 -94.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 530 DISTANCE = 7.63 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BKP A 401 DBREF 6ANH A 1 305 UNP Q11YW6 Q11YW6_CYTH3 1 305 SEQRES 1 A 305 MSE ALA THR ASP PHE SER LYS LEU SER LYS TYR VAL GLU SEQRES 2 A 305 THR LEU ARG VAL LYS PRO LYS GLN SER ILE ASP LEU LYS SEQRES 3 A 305 LYS ASP PHE ASP THR ASP TYR ASP HIS LYS MSE LEU THR SEQRES 4 A 305 LYS GLU GLU GLY GLU GLU LEU LEU ASN LEU GLY ILE SER SEQRES 5 A 305 LYS LEU SER GLU ILE GLN GLU LYS LEU TYR ALA SER GLY SEQRES 6 A 305 THR LYS SER VAL LEU ILE VAL PHE GLN ALA MSE ASP ALA SEQRES 7 A 305 ALA GLY LYS ASP GLY THR VAL LYS HIS ILE MSE THR GLY SEQRES 8 A 305 LEU ASN PRO GLN GLY VAL LYS VAL THR SER PHE LYS VAL SEQRES 9 A 305 PRO SER LYS ILE GLU LEU SER HIS ASP TYR LEU TRP ARG SEQRES 10 A 305 HIS TYR VAL ALA LEU PRO ALA THR GLY GLU ILE GLY ILE SEQRES 11 A 305 PHE ASN ARG SER HIS TYR GLU ASN VAL LEU VAL THR ARG SEQRES 12 A 305 VAL HIS PRO GLU TYR LEU LEU SER GLU GLN THR SER GLY SEQRES 13 A 305 VAL THR ALA ILE GLU GLN VAL ASN GLN LYS PHE TRP ASP SEQRES 14 A 305 LYS ARG PHE GLN GLN ILE ASN ASN PHE GLU GLN HIS ILE SEQRES 15 A 305 SER GLU ASN GLY THR ILE VAL LEU LYS PHE PHE LEU HIS SEQRES 16 A 305 VAL SER LYS LYS GLU GLN LYS LYS ARG PHE ILE GLU ARG SEQRES 17 A 305 ILE GLU LEU ASP THR LYS ASN TRP LYS PHE SER THR GLY SEQRES 18 A 305 ASP LEU LYS GLU ARG ALA HIS TRP LYS ASP TYR ARG ASN SEQRES 19 A 305 ALA TYR GLU ASP MSE LEU ALA ASN THR SER THR LYS GLN SEQRES 20 A 305 ALA PRO TRP PHE VAL ILE PRO ALA ASP ASP LYS TRP PHE SEQRES 21 A 305 THR ARG LEU LEU ILE ALA GLU ILE ILE CYS THR GLU LEU SEQRES 22 A 305 GLU LYS LEU ASN LEU THR PHE PRO THR VAL SER LEU GLU SEQRES 23 A 305 GLN LYS ALA GLU LEU GLU LYS ALA LYS ALA GLU LEU VAL SEQRES 24 A 305 ALA GLU LYS SER SER ASP MODRES 6ANH MSE A 37 MET MODIFIED RESIDUE MODRES 6ANH MSE A 76 MET MODIFIED RESIDUE MODRES 6ANH MSE A 89 MET MODIFIED RESIDUE MODRES 6ANH MSE A 239 MET MODIFIED RESIDUE HET MSE A 37 8 HET MSE A 76 8 HET MSE A 89 8 HET MSE A 239 8 HET BKP A 401 36 HETNAM MSE SELENOMETHIONINE HETNAM BKP 5'-O-[(S)-HYDROXY{[(S)-HYDROXY{[(R)- HETNAM 2 BKP HYDROXY(PHOSPHONOOXY) HETNAM 3 BKP PHOSPHORYL]OXY}PHOSPHORYL]OXY}PHOSPHORYL]GUANOSINE FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 2 BKP C10 H17 N5 O17 P4 FORMUL 3 HOH *30(H2 O) HELIX 1 AA1 PHE A 5 ARG A 16 1 12 HELIX 2 AA2 ASP A 24 PHE A 29 1 6 HELIX 3 AA3 THR A 39 GLY A 65 1 27 HELIX 4 AA4 GLY A 80 MSE A 89 1 10 HELIX 5 AA5 ASN A 93 GLN A 95 5 3 HELIX 6 AA6 SER A 106 SER A 111 1 6 HELIX 7 AA7 LEU A 115 ALA A 121 1 7 HELIX 8 AA8 SER A 134 VAL A 139 5 6 HELIX 9 AA9 LEU A 140 HIS A 145 1 6 HELIX 10 AB1 PRO A 146 GLY A 156 5 11 HELIX 11 AB2 ALA A 159 VAL A 163 5 5 HELIX 12 AB3 ASN A 164 GLU A 184 1 21 HELIX 13 AB4 SER A 197 LEU A 211 1 15 HELIX 14 AB5 LEU A 211 TRP A 216 1 6 HELIX 15 AB6 LYS A 217 SER A 219 5 3 HELIX 16 AB7 THR A 220 ALA A 227 1 8 HELIX 17 AB8 HIS A 228 SER A 244 1 17 HELIX 18 AB9 ASP A 257 LYS A 275 1 19 HELIX 19 AC1 SER A 284 ALA A 300 1 17 SHEET 1 AA1 5 VAL A 97 SER A 101 0 SHEET 2 AA1 5 ILE A 128 ASN A 132 1 O ILE A 130 N LYS A 98 SHEET 3 AA1 5 SER A 68 ALA A 75 1 N VAL A 69 O GLY A 129 SHEET 4 AA1 5 THR A 187 HIS A 195 1 O ILE A 188 N LEU A 70 SHEET 5 AA1 5 TRP A 250 PRO A 254 1 O ILE A 253 N HIS A 195 LINK C LYS A 36 N MSE A 37 1555 1555 1.34 LINK C MSE A 37 N LEU A 38 1555 1555 1.32 LINK C ALA A 75 N MSE A 76 1555 1555 1.33 LINK C MSE A 76 N ASP A 77 1555 1555 1.34 LINK C ILE A 88 N MSE A 89 1555 1555 1.32 LINK C MSE A 89 N THR A 90 1555 1555 1.32 LINK C ASP A 238 N MSE A 239 1555 1555 1.34 LINK C MSE A 239 N LEU A 240 1555 1555 1.34 SITE 1 AC1 14 ALA A 78 ALA A 79 GLY A 80 LYS A 81 SITE 2 AC1 14 ASP A 82 PHE A 102 LYS A 103 VAL A 104 SITE 3 AC1 14 PRO A 105 ARG A 117 ARG A 133 GLU A 137 SITE 4 AC1 14 ASN A 138 ARG A 208 CRYST1 110.812 110.812 178.807 90.00 90.00 90.00 I 41 2 2 16 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.009024 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009024 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005593 0.00000