HEADER LIGASE 02-AUG-21 7ROR TITLE PLASMODIUM FALCIPARUM TYROSYL-TRNA SYNTHETASE IN COMPLEX WITH TITLE 2 TYROSINE-AMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSINE--TRNA LIGASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 6.1.1.1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM (ISOLATE 3D7); SOURCE 3 ORGANISM_TAXID: 36329; SOURCE 4 STRAIN: ISOLATE 3D7; SOURCE 5 GENE: PF3D7_0807900; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ENZYME, TYROSYL-TRNA SYNTHETASE, MALARIA, INHIBITOR, LIGASE, KEYWDS 2 TYROSINE-AMP EXPDTA X-RAY DIFFRACTION AUTHOR R.D.METCALFE,S.C.XIE,C.J.MORTON,L.TILLEY,M.D.W.GRIFFIN REVDAT 3 18-OCT-23 7ROR 1 REMARK REVDAT 2 29-JUN-22 7ROR 1 JRNL REVDAT 1 08-JUN-22 7ROR 0 JRNL AUTH S.C.XIE,R.D.METCALFE,E.DUNN,C.J.MORTON,S.C.HUANG, JRNL AUTH 2 T.PUHALOVICH,Y.DU,S.WITTLIN,S.NIE,M.R.LUTH,L.MA,M.S.KIM, JRNL AUTH 3 C.F.A.PASAJE,K.KUMPORNSIN,C.GIANNANGELO,F.J.HOUGHTON, JRNL AUTH 4 A.CHURCHYARD,M.T.FAMODIMU,D.C.BARRY,D.L.GILLETT,S.DEY, JRNL AUTH 5 C.C.KOSASIH,W.NEWMAN,J.C.NILES,M.C.S.LEE,J.BAUM,S.OTTILIE, JRNL AUTH 6 E.A.WINZELER,D.J.CREEK,N.WILLIAMSON,M.W.PARKER,S.BRAND, JRNL AUTH 7 S.P.LANGSTON,L.R.DICK,M.D.W.GRIFFIN,A.E.GOULD,L.TILLEY JRNL TITL REACTION HIJACKING OF TYROSINE TRNA SYNTHETASE AS A NEW JRNL TITL 2 WHOLE-OF-LIFE-CYCLE ANTIMALARIAL STRATEGY. JRNL REF SCIENCE V. 376 1074 2022 JRNL REFN ESSN 1095-9203 JRNL PMID 35653481 JRNL DOI 10.1126/SCIENCE.ABN0611 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.65 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.230 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 83474 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.890 REMARK 3 FREE R VALUE TEST SET COUNT : 4085 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 47.6500 - 5.5300 0.99 2890 133 0.1648 0.1734 REMARK 3 2 5.5300 - 4.3900 1.00 2791 167 0.1323 0.1599 REMARK 3 3 4.3900 - 3.8300 1.00 2754 137 0.1256 0.1549 REMARK 3 4 3.8300 - 3.4800 1.00 2794 136 0.1464 0.2074 REMARK 3 5 3.4800 - 3.2300 1.00 2774 140 0.1673 0.1958 REMARK 3 6 3.2300 - 3.0400 1.00 2747 139 0.1856 0.2144 REMARK 3 7 3.0400 - 2.8900 1.00 2698 167 0.1966 0.2393 REMARK 3 8 2.8900 - 2.7700 1.00 2714 166 0.2076 0.2426 REMARK 3 9 2.7600 - 2.6600 1.00 2761 139 0.1993 0.2702 REMARK 3 10 2.6600 - 2.5700 1.00 2738 148 0.2131 0.2484 REMARK 3 11 2.5700 - 2.4900 1.00 2711 157 0.2066 0.2940 REMARK 3 12 2.4900 - 2.4200 1.00 2747 116 0.1994 0.2744 REMARK 3 13 2.4200 - 2.3500 1.00 2722 152 0.1962 0.2406 REMARK 3 14 2.3500 - 2.2900 1.00 2729 148 0.1999 0.2959 REMARK 3 15 2.2900 - 2.2400 1.00 2722 155 0.2051 0.2507 REMARK 3 16 2.2400 - 2.1900 1.00 2711 129 0.2019 0.2390 REMARK 3 17 2.1900 - 2.1500 1.00 2732 135 0.2014 0.2964 REMARK 3 18 2.1500 - 2.1100 1.00 2747 134 0.2047 0.2197 REMARK 3 19 2.1100 - 2.0700 1.00 2684 138 0.2148 0.2678 REMARK 3 20 2.0700 - 2.0400 1.00 2726 141 0.2154 0.2911 REMARK 3 21 2.0400 - 2.0000 1.00 2739 130 0.2320 0.2963 REMARK 3 22 2.0000 - 1.9700 1.00 2728 163 0.2461 0.3310 REMARK 3 23 1.9700 - 1.9400 1.00 2677 140 0.2649 0.3224 REMARK 3 24 1.9400 - 1.9200 1.00 2718 134 0.2922 0.3421 REMARK 3 25 1.9200 - 1.8900 1.00 2755 119 0.3056 0.3828 REMARK 3 26 1.8900 - 1.8700 1.00 2657 126 0.2870 0.3280 REMARK 3 27 1.8700 - 1.8400 1.00 2791 132 0.2981 0.3283 REMARK 3 28 1.8400 - 1.8200 1.00 2690 141 0.3043 0.3340 REMARK 3 29 1.8200 - 1.8000 1.00 2742 123 0.3013 0.3716 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.255 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.880 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 36.75 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.16 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 : 0.014 6108 REMARK 3 ANGLE : 1.255 8223 REMARK 3 CHIRALITY : 0.069 881 REMARK 3 PLANARITY : 0.010 1051 REMARK 3 DIHEDRAL : 21.132 2349 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND RESID 19:373 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.444 -2.782 57.917 REMARK 3 T TENSOR REMARK 3 T11: 0.2902 T22: 0.4110 REMARK 3 T33: 0.3339 T12: 0.0456 REMARK 3 T13: -0.0205 T23: -0.0314 REMARK 3 L TENSOR REMARK 3 L11: 1.3496 L22: 0.4719 REMARK 3 L33: 2.2394 L12: -0.2050 REMARK 3 L13: 1.3583 L23: -0.5037 REMARK 3 S TENSOR REMARK 3 S11: 0.0982 S12: -0.1052 S13: -0.1164 REMARK 3 S21: 0.0018 S22: -0.0041 S23: 0.0394 REMARK 3 S31: 0.0832 S32: -0.0944 S33: -0.0954 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN B AND ( RESID 13:373 OR RESID 401:401 ) ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.354 2.930 19.334 REMARK 3 T TENSOR REMARK 3 T11: 0.2219 T22: 0.3032 REMARK 3 T33: 0.3750 T12: 0.0168 REMARK 3 T13: -0.0418 T23: -0.0045 REMARK 3 L TENSOR REMARK 3 L11: 1.5859 L22: 1.5719 REMARK 3 L33: 1.8924 L12: -0.2239 REMARK 3 L13: 1.1981 L23: -0.0383 REMARK 3 S TENSOR REMARK 3 S11: 0.0240 S12: -0.1284 S13: -0.1320 REMARK 3 S21: -0.1087 S22: 0.1403 S23: 0.2630 REMARK 3 S31: -0.0026 S32: -0.1704 S33: -0.1503 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 7ROR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-AUG-21. REMARK 100 THE DEPOSITION ID IS D_1000256630. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-JUN-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 83538 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 47.650 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05800 REMARK 200 FOR THE DATA SET : 13.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 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) : 1.95300 REMARK 200 FOR SHELL : 0.900 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: 3VGJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.25 M SODIUM MALONATE, PH 6, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 68.80600 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.29850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 68.80600 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.29850 REMARK 290 SMTRY3 4 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: 3920 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.0 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 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 OD1 ASN B 361 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 0 REMARK 465 MET A 1 REMARK 465 GLU A 2 REMARK 465 THR A 3 REMARK 465 THR A 4 REMARK 465 ASP A 5 REMARK 465 THR A 6 REMARK 465 LYS A 7 REMARK 465 ARG A 8 REMARK 465 GLU A 9 REMARK 465 GLU A 10 REMARK 465 GLN A 11 REMARK 465 GLU A 12 REMARK 465 ILE A 13 REMARK 465 GLU A 14 REMARK 465 GLU A 15 REMARK 465 LYS A 16 REMARK 465 LYS A 17 REMARK 465 GLY B 0 REMARK 465 MET B 1 REMARK 465 GLU B 2 REMARK 465 THR B 3 REMARK 465 THR B 4 REMARK 465 ASP B 5 REMARK 465 THR B 6 REMARK 465 LYS B 7 REMARK 465 ARG B 8 REMARK 465 GLU B 9 REMARK 465 GLU B 10 REMARK 465 GLN B 11 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH B 617 O HOH B 628 1.86 REMARK 500 OE2 GLU A 20 O HOH A 501 2.12 REMARK 500 O HOH B 557 O HOH B 653 2.13 REMARK 500 O HOH B 510 O HOH B 596 2.14 REMARK 500 OE1 GLU A 141 O HOH A 502 2.16 REMARK 500 REMARK 500 REMARK: NULL 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 CYS B 127 CB CYS B 127 SG -0.104 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 GLN A 43 C - N - CA ANGL. DEV. = 15.0 DEGREES REMARK 500 GLN B 43 C - N - CA ANGL. DEV. = 28.4 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 GLN A 43 91.51 86.76 REMARK 500 LEU A 52 31.62 -99.44 REMARK 500 LYS A 54 36.68 -73.39 REMARK 500 GLN A 205 75.64 -118.04 REMARK 500 CYS A 275 73.64 -155.05 REMARK 500 ASN A 278 -9.86 69.20 REMARK 500 ASN A 282 15.85 57.46 REMARK 500 ASN A 356 86.73 -66.88 REMARK 500 GLN B 43 99.27 87.39 REMARK 500 ASN B 104 30.32 70.79 REMARK 500 CYS B 275 78.13 -153.66 REMARK 500 ASN B 298 13.50 57.78 REMARK 500 LYS B 307 -37.05 -35.72 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 406 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET A 131 O REMARK 620 2 VAL A 134 O 90.4 REMARK 620 3 HOH A 607 O 80.0 106.6 REMARK 620 4 HOH A 610 O 96.5 78.6 173.7 REMARK 620 5 HOH A 645 O 84.4 157.7 93.8 80.5 REMARK 620 6 HOH A 654 O 168.1 101.2 98.9 83.4 83.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 405 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 132 OE2 REMARK 620 2 ARG A 304 O 67.0 REMARK 620 3 ASP A 311 OD1 68.8 1.9 REMARK 620 4 HOH A 534 O 70.5 4.2 3.1 REMARK 620 5 HOH A 602 O 71.7 5.4 4.2 1.3 REMARK 620 6 HOH A 647 O 67.9 4.3 4.6 3.3 4.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 404 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG B 304 O REMARK 620 2 ASP B 311 OD1 79.3 REMARK 620 3 HOH B 572 O 174.0 100.2 REMARK 620 4 HOH B 588 O 98.5 81.3 75.6 REMARK 620 5 HOH B 667 O 121.5 152.9 61.0 109.7 REMARK 620 N 1 2 3 4 DBREF 7ROR A 1 373 UNP Q8IAR7 Q8IAR7_PLAF7 1 373 DBREF 7ROR B 1 373 UNP Q8IAR7 Q8IAR7_PLAF7 1 373 SEQADV 7ROR GLY A 0 UNP Q8IAR7 EXPRESSION TAG SEQADV 7ROR GLY B 0 UNP Q8IAR7 EXPRESSION TAG SEQRES 1 A 374 GLY MET GLU THR THR ASP THR LYS ARG GLU GLU GLN GLU SEQRES 2 A 374 ILE GLU GLU LYS LYS ALA GLN GLU GLU SER LYS ILE GLU SEQRES 3 A 374 ASP VAL ASP LYS ILE LEU ASN ASP ILE LEU SER ILE SER SEQRES 4 A 374 SER GLU CYS ILE GLN PRO ASP GLU LEU ARG VAL LYS LEU SEQRES 5 A 374 LEU LEU LYS ARG LYS LEU ILE CYS TYR ASP GLY PHE GLU SEQRES 6 A 374 PRO SER GLY ARG MET HIS ILE ALA GLN GLY LEU LEU LYS SEQRES 7 A 374 SER ILE ILE VAL ASN LYS LEU THR SER ASN GLY CYS THR SEQRES 8 A 374 PHE ILE PHE TRP ILE ALA ASP TRP PHE ALA HIS LEU ASN SEQRES 9 A 374 ASN LYS MET SER GLY ASP LEU LYS LYS ILE LYS LYS VAL SEQRES 10 A 374 GLY SER TYR PHE ILE GLU VAL TRP LYS SER CYS GLY MET SEQRES 11 A 374 ASN MET GLU ASN VAL GLN PHE LEU TRP ALA SER GLU GLU SEQRES 12 A 374 ILE ASN LYS LYS PRO ASN GLU TYR TRP SER LEU VAL LEU SEQRES 13 A 374 ASP ILE SER ARG SER PHE ASN ILE ASN ARG MET LYS ARG SEQRES 14 A 374 CYS LEU LYS ILE MET GLY ARG SER GLU GLY GLU GLU ASN SEQRES 15 A 374 TYR CYS SER GLN ILE LEU TYR PRO CYS MET GLN CYS ALA SEQRES 16 A 374 ASP ILE PHE PHE LEU ASN VAL ASP ILE CYS GLN LEU GLY SEQRES 17 A 374 ILE ASP GLN ARG LYS VAL ASN MET LEU ALA ARG GLU TYR SEQRES 18 A 374 CYS ASP ILE LYS LYS ILE LYS LYS LYS PRO VAL ILE LEU SEQRES 19 A 374 SER HIS GLY MET LEU PRO GLY LEU LEU GLU GLY GLN GLU SEQRES 20 A 374 LYS MET SER LYS SER ASP GLU ASN SER ALA ILE PHE MET SEQRES 21 A 374 ASP ASP SER GLU SER ASP VAL ASN ARG LYS ILE LYS LYS SEQRES 22 A 374 ALA TYR CYS PRO PRO ASN VAL ILE GLU ASN ASN PRO ILE SEQRES 23 A 374 TYR ALA TYR ALA LYS SER ILE ILE PHE PRO SER TYR ASN SEQRES 24 A 374 GLU PHE ASN LEU VAL ARG LYS GLU LYS ASN GLY GLY ASP SEQRES 25 A 374 LYS THR TYR TYR THR LEU GLN GLU LEU GLU HIS ASP TYR SEQRES 26 A 374 VAL ASN GLY PHE ILE HIS PRO LEU ASP LEU LYS ASP ASN SEQRES 27 A 374 VAL ALA MET TYR ILE ASN LYS LEU LEU GLN PRO VAL ARG SEQRES 28 A 374 ASP HIS PHE GLN ASN ASN ILE GLU ALA LYS ASN LEU LEU SEQRES 29 A 374 ASN GLU ILE LYS LYS TYR LYS VAL THR LYS SEQRES 1 B 374 GLY MET GLU THR THR ASP THR LYS ARG GLU GLU GLN GLU SEQRES 2 B 374 ILE GLU GLU LYS LYS ALA GLN GLU GLU SER LYS ILE GLU SEQRES 3 B 374 ASP VAL ASP LYS ILE LEU ASN ASP ILE LEU SER ILE SER SEQRES 4 B 374 SER GLU CYS ILE GLN PRO ASP GLU LEU ARG VAL LYS LEU SEQRES 5 B 374 LEU LEU LYS ARG LYS LEU ILE CYS TYR ASP GLY PHE GLU SEQRES 6 B 374 PRO SER GLY ARG MET HIS ILE ALA GLN GLY LEU LEU LYS SEQRES 7 B 374 SER ILE ILE VAL ASN LYS LEU THR SER ASN GLY CYS THR SEQRES 8 B 374 PHE ILE PHE TRP ILE ALA ASP TRP PHE ALA HIS LEU ASN SEQRES 9 B 374 ASN LYS MET SER GLY ASP LEU LYS LYS ILE LYS LYS VAL SEQRES 10 B 374 GLY SER TYR PHE ILE GLU VAL TRP LYS SER CYS GLY MET SEQRES 11 B 374 ASN MET GLU ASN VAL GLN PHE LEU TRP ALA SER GLU GLU SEQRES 12 B 374 ILE ASN LYS LYS PRO ASN GLU TYR TRP SER LEU VAL LEU SEQRES 13 B 374 ASP ILE SER ARG SER PHE ASN ILE ASN ARG MET LYS ARG SEQRES 14 B 374 CYS LEU LYS ILE MET GLY ARG SER GLU GLY GLU GLU ASN SEQRES 15 B 374 TYR CYS SER GLN ILE LEU TYR PRO CYS MET GLN CYS ALA SEQRES 16 B 374 ASP ILE PHE PHE LEU ASN VAL ASP ILE CYS GLN LEU GLY SEQRES 17 B 374 ILE ASP GLN ARG LYS VAL ASN MET LEU ALA ARG GLU TYR SEQRES 18 B 374 CYS ASP ILE LYS LYS ILE LYS LYS LYS PRO VAL ILE LEU SEQRES 19 B 374 SER HIS GLY MET LEU PRO GLY LEU LEU GLU GLY GLN GLU SEQRES 20 B 374 LYS MET SER LYS SER ASP GLU ASN SER ALA ILE PHE MET SEQRES 21 B 374 ASP ASP SER GLU SER ASP VAL ASN ARG LYS ILE LYS LYS SEQRES 22 B 374 ALA TYR CYS PRO PRO ASN VAL ILE GLU ASN ASN PRO ILE SEQRES 23 B 374 TYR ALA TYR ALA LYS SER ILE ILE PHE PRO SER TYR ASN SEQRES 24 B 374 GLU PHE ASN LEU VAL ARG LYS GLU LYS ASN GLY GLY ASP SEQRES 25 B 374 LYS THR TYR TYR THR LEU GLN GLU LEU GLU HIS ASP TYR SEQRES 26 B 374 VAL ASN GLY PHE ILE HIS PRO LEU ASP LEU LYS ASP ASN SEQRES 27 B 374 VAL ALA MET TYR ILE ASN LYS LEU LEU GLN PRO VAL ARG SEQRES 28 B 374 ASP HIS PHE GLN ASN ASN ILE GLU ALA LYS ASN LEU LEU SEQRES 29 B 374 ASN GLU ILE LYS LYS TYR LYS VAL THR LYS HET 69X A 401 35 HET MLI A 402 7 HET MLI A 403 7 HET CL A 404 1 HET MG A 405 1 HET MG A 406 1 HET 69X B 401 35 HET MLI B 402 7 HET MLI B 403 7 HET MG B 404 1 HETNAM 69X 5'-O-[(S)-{[(2S)-2-AMINO-3-(4-HYDROXYPHENYL) HETNAM 2 69X PROPANOYL]OXY}(HYDROXY)PHOSPHORYL]ADENOSINE HETNAM MLI MALONATE ION HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION FORMUL 3 69X 2(C19 H23 N6 O9 P) FORMUL 4 MLI 4(C3 H2 O4 2-) FORMUL 6 CL CL 1- FORMUL 7 MG 3(MG 2+) FORMUL 13 HOH *331(H2 O) HELIX 1 AA1 GLN A 19 SER A 38 1 20 HELIX 2 AA2 GLN A 43 LEU A 52 1 10 HELIX 3 AA3 GLY A 74 SER A 86 1 13 HELIX 4 AA4 ALA A 96 ASN A 103 1 8 HELIX 5 AA5 ASN A 104 GLY A 108 5 5 HELIX 6 AA6 ASP A 109 CYS A 127 1 19 HELIX 7 AA7 ALA A 139 LYS A 146 1 8 HELIX 8 AA8 LYS A 146 PHE A 161 1 16 HELIX 9 AA9 ASN A 162 ARG A 168 1 7 HELIX 10 AB1 CYS A 169 GLY A 174 5 6 HELIX 11 AB2 CYS A 183 LEU A 199 1 17 HELIX 12 AB3 GLY A 207 ASP A 209 5 3 HELIX 13 AB4 GLN A 210 LYS A 225 1 16 HELIX 14 AB5 SER A 262 ALA A 273 1 12 HELIX 15 AB6 ASN A 283 ILE A 292 1 10 HELIX 16 AB7 ILE A 292 ASN A 298 1 7 HELIX 17 AB8 LYS A 305 GLY A 309 5 5 HELIX 18 AB9 THR A 316 ASN A 326 1 11 HELIX 19 AC1 HIS A 330 ASN A 356 1 27 HELIX 20 AC2 ASN A 356 LYS A 367 1 12 HELIX 21 AC3 ILE B 13 LEU B 35 1 23 HELIX 22 AC4 SER B 36 SER B 38 5 3 HELIX 23 AC5 GLN B 43 LEU B 51 1 9 HELIX 24 AC6 HIS B 70 SER B 86 1 17 HELIX 25 AC7 ALA B 96 ASN B 103 1 8 HELIX 26 AC8 ASN B 104 GLY B 108 5 5 HELIX 27 AC9 ASP B 109 SER B 126 1 18 HELIX 28 AD1 ALA B 139 LYS B 146 1 8 HELIX 29 AD2 LYS B 146 PHE B 161 1 16 HELIX 30 AD3 ASN B 162 ARG B 168 1 7 HELIX 31 AD4 CYS B 169 GLY B 174 5 6 HELIX 32 AD5 CYS B 183 LEU B 199 1 17 HELIX 33 AD6 GLY B 207 ASP B 209 5 3 HELIX 34 AD7 GLN B 210 LYS B 224 1 15 HELIX 35 AD8 SER B 262 LYS B 272 1 11 HELIX 36 AD9 ASN B 283 ILE B 292 1 10 HELIX 37 AE1 ILE B 292 ASN B 298 1 7 HELIX 38 AE2 LYS B 305 GLY B 309 5 5 HELIX 39 AE3 THR B 316 ASN B 326 1 11 HELIX 40 AE4 HIS B 330 ASN B 356 1 27 HELIX 41 AE5 ASN B 356 LYS B 368 1 13 SHEET 1 AA1 6 GLU A 40 ILE A 42 0 SHEET 2 AA1 6 VAL A 231 SER A 234 -1 O ILE A 232 N ILE A 42 SHEET 3 AA1 6 ILE A 203 CYS A 204 1 N CYS A 204 O LEU A 233 SHEET 4 AA1 6 ILE A 58 PHE A 63 1 O ILE A 58 N ILE A 203 SHEET 5 AA1 6 THR A 90 ILE A 95 1 O ILE A 92 N CYS A 59 SHEET 6 AA1 6 VAL A 134 TRP A 138 1 O LEU A 137 N ILE A 95 SHEET 1 AA2 2 PHE A 300 LEU A 302 0 SHEET 2 AA2 2 LYS A 312 TYR A 314 -1 O LYS A 312 N LEU A 302 SHEET 1 AA3 6 GLU B 40 ILE B 42 0 SHEET 2 AA3 6 VAL B 231 SER B 234 -1 O ILE B 232 N ILE B 42 SHEET 3 AA3 6 ILE B 203 CYS B 204 1 N CYS B 204 O LEU B 233 SHEET 4 AA3 6 LEU B 57 PHE B 63 1 O ILE B 58 N ILE B 203 SHEET 5 AA3 6 CYS B 89 ILE B 95 1 O ILE B 92 N CYS B 59 SHEET 6 AA3 6 VAL B 134 TRP B 138 1 O LEU B 137 N ILE B 95 SHEET 1 AA4 2 PHE B 300 LEU B 302 0 SHEET 2 AA4 2 LYS B 312 TYR B 314 -1 O TYR B 314 N PHE B 300 LINK O MET A 131 MG MG A 406 1555 1555 2.44 LINK OE2 GLU A 132 MG MG A 405 1555 4556 2.54 LINK O VAL A 134 MG MG A 406 1555 1555 2.42 LINK O ARG A 304 MG MG A 405 1555 1555 2.25 LINK OD1 ASP A 311 MG MG A 405 1555 1555 2.44 LINK MG MG A 405 O HOH A 534 1555 4546 2.50 LINK MG MG A 405 O HOH A 602 1555 1555 2.30 LINK MG MG A 405 O HOH A 647 1555 1555 2.50 LINK MG MG A 406 O HOH A 607 1555 1555 2.39 LINK MG MG A 406 O HOH A 610 1555 1555 2.48 LINK MG MG A 406 O HOH A 645 1555 1555 2.53 LINK MG MG A 406 O HOH A 654 1555 1555 2.30 LINK O ARG B 304 MG MG B 404 1555 1555 2.32 LINK OD1 ASP B 311 MG MG B 404 1555 1555 2.52 LINK MG MG B 404 O HOH B 572 1555 4455 2.21 LINK MG MG B 404 O HOH B 588 1555 1555 2.63 LINK MG MG B 404 O HOH B 667 1555 1555 2.54 CRYST1 137.612 46.597 141.402 90.00 93.81 90.00 C 1 2 1 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.007267 0.000000 0.000483 0.00000 SCALE2 0.000000 0.021461 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007088 0.00000