HEADER TRANSFERASE/TRANSFERASE INHIBITOR 20-AUG-17 6AQN TITLE CRYSTAL STRUCTURE OF PPK2 IN COMPLEX WITH PHOSPHONIC ACID INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYPHOSPHATE:AMP PHOSPHOTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MOLECULE 1; COMPND 5 EC: 2.7.4.-; COMPND 6 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 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 866768 KEYWDS PPK2, KINASE, INHIBITOR, (HYDROXY(P-TOLUYL)METHYL)PHOSPHONIC ACID, KEYWDS 2 TRANSFERASE, TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.NOCEK,L.BERLICKI,A.JOACHIMIAK,S.YAKUNIN REVDAT 5 06-NOV-24 6AQN 1 REMARK REVDAT 4 15-NOV-23 6AQN 1 REMARK REVDAT 3 04-OCT-23 6AQN 1 REMARK REVDAT 2 29-JUL-20 6AQN 1 JRNL REVDAT 1 16-JAN-19 6AQN 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. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (DEV_2363: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.03 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.630 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.3 REMARK 3 NUMBER OF REFLECTIONS : 24559 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 1250 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 35.0301 - 4.5717 0.98 3122 172 0.1706 0.2188 REMARK 3 2 4.5717 - 3.6299 0.99 3016 155 0.1568 0.2090 REMARK 3 3 3.6299 - 3.1714 0.99 2962 162 0.2027 0.2520 REMARK 3 4 3.1714 - 2.8816 0.99 2959 175 0.2398 0.2796 REMARK 3 5 2.8816 - 2.6751 0.99 2951 171 0.2608 0.2873 REMARK 3 6 2.6751 - 2.5175 0.99 2939 147 0.2665 0.3396 REMARK 3 7 2.5175 - 2.3914 0.93 2792 132 0.2652 0.2773 REMARK 3 8 2.3914 - 2.2873 0.57 1690 80 0.2713 0.3405 REMARK 3 9 2.2873 - 2.1993 0.30 878 56 0.2588 0.2688 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.260 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.910 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.003 2486 REMARK 3 ANGLE : 0.592 3367 REMARK 3 CHIRALITY : 0.041 380 REMARK 3 PLANARITY : 0.003 425 REMARK 3 DIHEDRAL : 15.904 1480 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 3 THROUGH 63 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.5922 6.8359 42.6261 REMARK 3 T TENSOR REMARK 3 T11: 0.0254 T22: 0.5341 REMARK 3 T33: 0.3761 T12: -0.0928 REMARK 3 T13: 0.0586 T23: 0.1218 REMARK 3 L TENSOR REMARK 3 L11: 0.1899 L22: 0.3736 REMARK 3 L33: 0.4851 L12: -0.1035 REMARK 3 L13: 0.0766 L23: -0.2904 REMARK 3 S TENSOR REMARK 3 S11: -0.0669 S12: -0.0833 S13: -0.0040 REMARK 3 S21: 0.2863 S22: 0.4421 S23: 0.3409 REMARK 3 S31: -0.4088 S32: -0.5427 S33: 0.2769 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 64 THROUGH 197 ) REMARK 3 ORIGIN FOR THE GROUP (A): 38.0242 -4.1257 36.9277 REMARK 3 T TENSOR REMARK 3 T11: 0.1932 T22: 0.2599 REMARK 3 T33: 0.2196 T12: -0.0910 REMARK 3 T13: 0.0138 T23: -0.0144 REMARK 3 L TENSOR REMARK 3 L11: 0.2816 L22: 0.4785 REMARK 3 L33: 0.3971 L12: -0.2390 REMARK 3 L13: 0.2672 L23: -0.3997 REMARK 3 S TENSOR REMARK 3 S11: 0.0578 S12: 0.0770 S13: 0.0209 REMARK 3 S21: -0.1103 S22: 0.0228 S23: 0.0492 REMARK 3 S31: 0.0462 S32: -0.0929 S33: 0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 198 THROUGH 219 ) REMARK 3 ORIGIN FOR THE GROUP (A): 31.2657 14.8911 20.6441 REMARK 3 T TENSOR REMARK 3 T11: 0.4343 T22: 0.4661 REMARK 3 T33: 0.3772 T12: -0.0348 REMARK 3 T13: -0.0819 T23: 0.1033 REMARK 3 L TENSOR REMARK 3 L11: 0.0043 L22: 0.0199 REMARK 3 L33: 0.0187 L12: 0.0073 REMARK 3 L13: -0.0123 L23: 0.0117 REMARK 3 S TENSOR REMARK 3 S11: 0.0156 S12: 0.0552 S13: -0.0167 REMARK 3 S21: 0.1214 S22: 0.0486 S23: -0.0951 REMARK 3 S31: -0.2426 S32: -0.0820 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 220 THROUGH 302 ) REMARK 3 ORIGIN FOR THE GROUP (A): 30.1606 5.7268 46.6773 REMARK 3 T TENSOR REMARK 3 T11: 0.1537 T22: 0.3120 REMARK 3 T33: 0.2566 T12: -0.0333 REMARK 3 T13: 0.0248 T23: 0.0126 REMARK 3 L TENSOR REMARK 3 L11: 0.3902 L22: 0.5632 REMARK 3 L33: 0.4170 L12: 0.0593 REMARK 3 L13: -0.2343 L23: -0.3962 REMARK 3 S TENSOR REMARK 3 S11: 0.0646 S12: 0.0054 S13: 0.0257 REMARK 3 S21: -0.0519 S22: 0.0509 S23: 0.1699 REMARK 3 S31: -0.0679 S32: -0.3492 S33: 0.0005 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6AQN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-AUG-17. REMARK 100 THE DEPOSITION ID IS D_1000229671. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-AUG-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 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 : DOUBLE MIRROR 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 : 28376 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.199 REMARK 200 RESOLUTION RANGE LOW (A) : 35.030 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 28.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.29 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: MOLREP REMARK 200 STARTING MODEL: 6ANG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 60% TACSIMATE, PH 7.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 55.38050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 55.38050 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 88.90700 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 55.38050 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 44.45350 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 55.38050 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 133.36050 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 55.38050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 133.36050 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.38050 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 44.45350 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 55.38050 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 55.38050 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 88.90700 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 55.38050 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 55.38050 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 88.90700 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 55.38050 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 133.36050 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 55.38050 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 44.45350 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 55.38050 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 44.45350 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 55.38050 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 133.36050 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 55.38050 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 55.38050 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 88.90700 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 TOTAL BURIED SURFACE AREA: 640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15570 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 664 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 LYS A 7 CG CD CE NZ REMARK 470 LYS A 10 CD CE NZ REMARK 470 LYS A 20 CD CE NZ REMARK 470 LYS A 27 CG CD CE NZ REMARK 470 ASP A 34 CG OD1 OD2 REMARK 470 HIS A 35 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 86 CE NZ REMARK 470 GLN A 95 CD OE1 NE2 REMARK 470 LYS A 103 CG CD CE NZ REMARK 470 LYS A 107 CE NZ REMARK 470 GLU A 161 CG CD OE1 OE2 REMARK 470 LYS A 214 CE NZ REMARK 470 LYS A 230 CG CD CE NZ REMARK 470 LYS A 246 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O ASP A 34 H LYS A 36 1.36 REMARK 500 O HOH A 508 O HOH A 525 1.91 REMARK 500 OD1 ASP A 24 O HOH A 501 2.03 REMARK 500 OE1 GLU A 267 O HOH A 502 2.11 REMARK 500 O LEU A 25 O HOH A 503 2.12 REMARK 500 O ASP A 34 N LYS A 36 2.16 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 PHE A 29 74.29 59.47 REMARK 500 HIS A 35 30.89 -54.52 REMARK 500 LYS A 103 -162.60 -78.64 REMARK 500 ARG A 133 153.98 70.58 REMARK 500 LEU A 140 -83.98 -126.46 REMARK 500 HIS A 145 63.23 -118.24 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 681 DISTANCE = 6.84 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BOY A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SRT A 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6ANG RELATED DB: PDB REMARK 900 RELATED ID: 6AN9 RELATED DB: PDB DBREF 6AQN 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 6AQN MSE A 37 MET MODIFIED RESIDUE MODRES 6AQN MSE A 76 MET MODIFIED RESIDUE MODRES 6AQN MSE A 89 MET MODIFIED RESIDUE MODRES 6AQN MSE A 239 MET MODIFIED RESIDUE HET MSE A 37 8 HET MSE A 76 17 HET MSE A 89 17 HET MSE A 239 17 HET BOY A 401 22 HET GOL A 402 6 HET SRT A 403 10 HETNAM MSE SELENOMETHIONINE HETNAM BOY [(R)-HYDROXY(4-METHYLPHENYL)METHYL]PHOSPHONIC ACID HETNAM GOL GLYCEROL HETNAM SRT S,R MESO-TARTARIC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 2 BOY C8 H11 O4 P FORMUL 3 GOL C3 H8 O3 FORMUL 4 SRT C4 H6 O6 FORMUL 5 HOH *181(H2 O) HELIX 1 AA1 THR A 3 ARG A 16 1 14 HELIX 2 AA2 THR A 39 SER A 64 1 26 HELIX 3 AA3 GLY A 80 GLY A 91 1 12 HELIX 4 AA4 LEU A 92 GLN A 95 5 4 HELIX 5 AA5 SER A 106 SER A 111 1 6 HELIX 6 AA6 LEU A 115 ALA A 121 1 7 HELIX 7 AA7 SER A 134 VAL A 139 5 6 HELIX 8 AA8 LEU A 140 HIS A 145 1 6 HELIX 9 AA9 GLU A 147 GLU A 152 1 6 HELIX 10 AB1 ALA A 159 VAL A 163 5 5 HELIX 11 AB2 ASN A 164 GLU A 184 1 21 HELIX 12 AB3 SER A 197 GLU A 210 1 14 HELIX 13 AB4 LYS A 214 SER A 219 5 6 HELIX 14 AB5 THR A 220 HIS A 228 1 9 HELIX 15 AB6 HIS A 228 ALA A 241 1 14 HELIX 16 AB7 ASP A 257 GLU A 274 1 18 HELIX 17 AB8 LYS A 275 ASN A 277 5 3 HELIX 18 AB9 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 THR A 100 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 1.33 LINK C MSE A 37 N LEU A 38 1555 1555 1.34 LINK C ALA A 75 N MSE A 76 1555 1555 1.33 LINK C MSE A 76 N ASP A 77 1555 1555 1.33 LINK C ILE A 88 N MSE A 89 1555 1555 1.32 LINK C MSE A 89 N THR A 90 1555 1555 1.34 LINK C ASP A 238 N MSE A 239 1555 1555 1.33 LINK C MSE A 239 N LEU A 240 1555 1555 1.34 SITE 1 AC1 13 ALA A 78 ALA A 79 GLY A 80 LYS A 81 SITE 2 AC1 13 ASP A 82 ARG A 204 ARG A 208 HOH A 510 SITE 3 AC1 13 HOH A 513 HOH A 522 HOH A 529 HOH A 621 SITE 4 AC1 13 HOH A 634 SITE 1 AC2 6 PHE A 102 LYS A 103 PRO A 105 ARG A 117 SITE 2 AC2 6 GLU A 137 ASN A 138 SITE 1 AC3 10 LYS A 26 THR A 31 HIS A 195 SER A 197 SITE 2 AC3 10 LYS A 198 TRP A 229 ARG A 233 HOH A 503 SITE 3 AC3 10 HOH A 528 HOH A 611 CRYST1 110.761 110.761 177.814 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 0.009028 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009028 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005624 0.00000 CONECT 487 496 CONECT 496 487 497 CONECT 497 496 498 500 CONECT 498 497 499 504 CONECT 499 498 CONECT 500 497 501 CONECT 501 500 502 CONECT 502 501 503 CONECT 503 502 CONECT 504 498 CONECT 1106 1114 CONECT 1114 1106 1115 1122 CONECT 1115 1114 1116 1118 1123 CONECT 1116 1115 1117 1131 CONECT 1117 1116 CONECT 1118 1115 1119 1124 1125 CONECT 1119 1118 1120 1126 1127 CONECT 1120 1119 1121 CONECT 1121 1120 1128 1129 1130 CONECT 1122 1114 CONECT 1123 1115 CONECT 1124 1118 CONECT 1125 1118 CONECT 1126 1119 CONECT 1127 1119 CONECT 1128 1121 CONECT 1129 1121 CONECT 1130 1121 CONECT 1131 1116 CONECT 1273 1290 CONECT 1290 1273 1291 1298 CONECT 1291 1290 1292 1294 1299 CONECT 1292 1291 1293 1307 CONECT 1293 1292 CONECT 1294 1291 1295 1300 1301 CONECT 1295 1294 1296 1302 1303 CONECT 1296 1295 1297 CONECT 1297 1296 1304 1305 1306 CONECT 1298 1290 CONECT 1299 1291 CONECT 1300 1294 CONECT 1301 1294 CONECT 1302 1295 CONECT 1303 1295 CONECT 1304 1297 CONECT 1305 1297 CONECT 1306 1297 CONECT 1307 1292 CONECT 3720 3730 CONECT 3730 3720 3731 3738 CONECT 3731 3730 3732 3734 3739 CONECT 3732 3731 3733 3747 CONECT 3733 3732 CONECT 3734 3731 3735 3740 3741 CONECT 3735 3734 3736 3742 3743 CONECT 3736 3735 3737 CONECT 3737 3736 3744 3745 3746 CONECT 3738 3730 CONECT 3739 3731 CONECT 3740 3734 CONECT 3741 3734 CONECT 3742 3735 CONECT 3743 3735 CONECT 3744 3737 CONECT 3745 3737 CONECT 3746 3737 CONECT 3747 3732 CONECT 4749 4754 4762 4763 4764 CONECT 4750 4752 4754 4765 CONECT 4751 4753 4754 4766 CONECT 4752 4750 4755 4767 CONECT 4753 4751 4755 4768 CONECT 4754 4749 4750 4751 CONECT 4755 4752 4753 4756 CONECT 4756 4755 4758 4761 4769 CONECT 4757 4761 CONECT 4758 4756 4770 CONECT 4759 4761 CONECT 4760 4761 CONECT 4761 4756 4757 4759 4760 CONECT 4762 4749 CONECT 4763 4749 CONECT 4764 4749 CONECT 4765 4750 CONECT 4766 4751 CONECT 4767 4752 CONECT 4768 4753 CONECT 4769 4756 CONECT 4770 4758 CONECT 4771 4772 4773 CONECT 4772 4771 CONECT 4773 4771 4774 4775 CONECT 4774 4773 CONECT 4775 4773 4776 CONECT 4776 4775 CONECT 4777 4779 CONECT 4778 4779 CONECT 4779 4777 4778 4780 CONECT 4780 4779 4781 4782 CONECT 4781 4780 CONECT 4782 4780 4783 4784 CONECT 4783 4782 CONECT 4784 4782 4785 4786 CONECT 4785 4784 CONECT 4786 4784 MASTER 416 0 7 18 5 0 9 6 2618 1 105 24 END