HEADER LIGASE 04-JUL-21 7F98 TITLE HOMO SAPIENS PROLYL-TRNA SYNTHETASE (HSPRS) IN COMPLEX WITH L-PROLINE TITLE 2 AND COMPOUND L95 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BIFUNCTIONAL GLUTAMATE/PROLINE--TRNA LIGASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BIFUNCTIONAL AMINOACYL-TRNA SYNTHETASE,CELL PROLIFERATION- COMPND 5 INDUCING GENE 32 PROTEIN,GLUTAMATYL-PROLYL-TRNA SYNTHETASE; COMPND 6 EC: 6.1.1.17,6.1.1.15; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: EPRS1, EPRS, GLNS, PARS, QARS, QPRS, PIG32; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN TRANSLATION, MALARIA, INHIBITOR, PRS, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR N.MALHOTRA,Y.MANICKAM,A.SHARMA REVDAT 3 29-NOV-23 7F98 1 REMARK REVDAT 2 19-APR-23 7F98 1 JRNL REVDAT 1 05-OCT-22 7F98 0 JRNL AUTH M.YOGAVEL,A.BOUGDOUR,S.MISHRA,N.MALHOTRA,J.CHHIBBER-GOEL, JRNL AUTH 2 V.BELLINI,K.HARLOS,B.LALEU,M.A.HAKIMI,A.SHARMA JRNL TITL TARGETING PROLYL-TRNA SYNTHETASE VIA A SERIES OF JRNL TITL 2 ATP-MIMETICS TO ACCELERATE DRUG DISCOVERY AGAINST JRNL TITL 3 TOXOPLASMOSIS. JRNL REF PLOS PATHOG. V. 19 11124 2023 JRNL REFN ESSN 1553-7374 JRNL PMID 36854028 JRNL DOI 10.1371/JOURNAL.PPAT.1011124 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.15RC1_3423 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 59.94 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 74444 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3722 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 59.9430 - 5.9943 1.00 2831 149 0.1814 0.2120 REMARK 3 2 5.9943 - 4.7585 1.00 2710 142 0.1524 0.1783 REMARK 3 3 4.7585 - 4.1571 1.00 2683 142 0.1264 0.1801 REMARK 3 4 4.1571 - 3.7771 1.00 2683 141 0.1508 0.1952 REMARK 3 5 3.7771 - 3.5064 1.00 2647 139 0.1650 0.2272 REMARK 3 6 3.5064 - 3.2997 1.00 2647 139 0.1810 0.2158 REMARK 3 7 3.2997 - 3.1345 1.00 2638 139 0.1962 0.2544 REMARK 3 8 3.1345 - 2.9980 1.00 2626 139 0.1958 0.2206 REMARK 3 9 2.9980 - 2.8826 1.00 2632 138 0.2080 0.2505 REMARK 3 10 2.8826 - 2.7831 1.00 2622 138 0.2081 0.2550 REMARK 3 11 2.7831 - 2.6961 1.00 2601 137 0.2040 0.2915 REMARK 3 12 2.6961 - 2.6190 1.00 2623 138 0.2035 0.2403 REMARK 3 13 2.6190 - 2.5501 1.00 2620 138 0.2125 0.2522 REMARK 3 14 2.5501 - 2.4879 1.00 2623 138 0.2310 0.3022 REMARK 3 15 2.4879 - 2.4313 1.00 2600 137 0.2472 0.3184 REMARK 3 16 2.4313 - 2.3796 1.00 2593 136 0.2672 0.3489 REMARK 3 17 2.3796 - 2.3320 1.00 2615 138 0.2608 0.3096 REMARK 3 18 2.3320 - 2.2880 1.00 2580 136 0.2711 0.3395 REMARK 3 19 2.2880 - 2.2471 1.00 2608 137 0.2797 0.3156 REMARK 3 20 2.2471 - 2.2090 1.00 2565 135 0.2815 0.3289 REMARK 3 21 2.2090 - 2.1734 1.00 2612 138 0.2772 0.3302 REMARK 3 22 2.1734 - 2.1399 1.00 2583 136 0.2822 0.3418 REMARK 3 23 2.1399 - 2.1085 0.99 2594 136 0.2891 0.3093 REMARK 3 24 2.1085 - 2.0788 1.00 2553 135 0.3081 0.3566 REMARK 3 25 2.0788 - 2.0507 0.99 2604 137 0.3182 0.3371 REMARK 3 26 2.0507 - 2.0240 1.00 2575 135 0.3113 0.3380 REMARK 3 27 2.0240 - 1.9990 0.94 2454 129 0.3385 0.3966 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) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.650 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.91 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 9.4131 11.2281 32.9581 REMARK 3 T TENSOR REMARK 3 T11: 0.4076 T22: 0.4042 REMARK 3 T33: 0.4341 T12: -0.0056 REMARK 3 T13: -0.0116 T23: 0.0110 REMARK 3 L TENSOR REMARK 3 L11: 0.5347 L22: 0.6511 REMARK 3 L33: 0.8060 L12: -0.0132 REMARK 3 L13: -0.0104 L23: -0.1644 REMARK 3 S TENSOR REMARK 3 S11: -0.0440 S12: -0.0683 S13: 0.0121 REMARK 3 S21: 0.0487 S22: 0.0464 S23: 0.0813 REMARK 3 S31: 0.0014 S32: -0.0500 S33: -0.0000 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 7F98 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-JUL-21. REMARK 100 THE DEPOSITION ID IS D_1300023103. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-NOV-17 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 : SOLEIL REMARK 200 BEAMLINE : PROXIMA 2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9801 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 74529 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.998 REMARK 200 RESOLUTION RANGE LOW (A) : 59.943 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 13.40 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.6200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.12 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 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 : 0.790 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER, AUTO-RICKSHAW REMARK 200 STARTING MODEL: 5VAD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES, 0.5M CACL2, 20% PEG 3350, REMARK 280 PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 35.36000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 72.64500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 53.05500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 72.64500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.36000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 53.05500 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: 5820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -102.0 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 PRO A 1008 REMARK 465 LYS A 1009 REMARK 465 LYS A 1010 REMARK 465 GLN A 1011 REMARK 465 THR A 1012 REMARK 465 ARG A 1013 REMARK 465 LEU A 1014 REMARK 465 ASN A 1313 REMARK 465 ALA A 1314 REMARK 465 LEU A 1315 REMARK 465 PRO B 1008 REMARK 465 LYS B 1009 REMARK 465 LYS B 1010 REMARK 465 GLN B 1011 REMARK 465 THR B 1012 REMARK 465 ARG B 1013 REMARK 465 LEU B 1014 REMARK 465 ARG B 1463 REMARK 465 ASP B 1464 REMARK 465 GLN B 1465 REMARK 465 ASP B 1466 REMARK 465 LEU B 1467 REMARK 465 GLU B 1468 REMARK 465 PRO B 1469 REMARK 465 GLY B 1470 REMARK 465 ALA B 1471 REMARK 465 PRO B 1472 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 GLU A1257 CG CD OE1 OE2 REMARK 470 LYS A1260 CG CD CE NZ REMARK 470 ILE A1311 CG1 CG2 CD1 REMARK 470 THR A1312 OG1 CG2 REMARK 470 SER A1316 OG REMARK 470 GLU A1317 CG CD OE1 OE2 REMARK 470 GLU A1318 CG CD OE1 OE2 REMARK 470 LYS A1320 CG CD CE NZ REMARK 470 ARG A1372 CG CD NE CZ NH1 NH2 REMARK 470 LYS A1435 CG CD CE NZ REMARK 470 GLU A1468 CG CD OE1 OE2 REMARK 470 LYS A1484 CE NZ REMARK 470 GLU A1488 CG CD OE1 OE2 REMARK 470 LYS A1499 CE NZ REMARK 470 GLU B1017 CG CD OE1 OE2 REMARK 470 GLU B1180 CG CD OE1 OE2 REMARK 470 GLU B1253 CG CD OE1 OE2 REMARK 470 ARG B1372 CG CD NE CZ NH1 NH2 REMARK 470 GLU B1406 CG CD OE1 OE2 REMARK 470 LYS B1435 CG CD CE NZ REMARK 470 ASP B1452 CG OD1 OD2 REMARK 470 LYS B1459 CG CD CE NZ REMARK 470 SER B1473 OG REMARK 470 LYS B1484 CG CD CE NZ REMARK 470 GLU B1488 CG CD OE1 OE2 REMARK 470 LYS B1494 CG CD CE NZ REMARK 470 LYS B1499 CG CD CE NZ REMARK 470 LYS B1503 CG CD CE NZ 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 GLU A1022 -68.10 -96.72 REMARK 500 PHE A1161 -40.69 67.84 REMARK 500 CYS A1309 -164.05 -106.80 REMARK 500 GLU A1318 -20.69 93.01 REMARK 500 GLU B1022 -105.10 -108.17 REMARK 500 THR B1121 156.47 179.63 REMARK 500 PHE B1161 -55.50 73.31 REMARK 500 TYR B1504 149.49 -170.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1903 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A1096 O REMARK 620 2 GLU A1100 OE1 80.9 REMARK 620 3 GLU A1100 OE2 103.7 43.9 REMARK 620 4 HOH A2019 O 61.0 105.2 149.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1904 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A1220 OD1 REMARK 620 2 ASP A1220 OD2 45.6 REMARK 620 3 GLU B1264 OE1 41.9 18.2 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B1905 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A1220 O REMARK 620 2 GLU B1264 OE1 7.5 REMARK 620 3 GLU B1264 OE2 8.6 1.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1902 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1448 SG REMARK 620 2 CYS A1453 SG 108.2 REMARK 620 3 CYS A1495 SG 113.9 108.0 REMARK 620 4 CYS A1497 SG 118.6 110.8 96.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B1903 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A1450 OE1 REMARK 620 2 GLU A1450 OE2 49.4 REMARK 620 3 SER B1376 O 67.2 23.0 REMARK 620 4 GLN B1378 OE1 67.6 24.9 2.6 REMARK 620 5 HOH B2091 O 65.6 22.3 1.8 2.6 REMARK 620 6 HOH B2117 O 68.9 25.5 2.5 1.5 3.5 REMARK 620 7 HOH B2128 O 67.1 23.9 1.6 1.1 1.7 1.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1905 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A1466 OD2 REMARK 620 2 LEU A1467 O 72.3 REMARK 620 3 HOH A2099 O 71.9 60.5 REMARK 620 4 GLU B1396 OE1 89.7 59.8 120.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B1904 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B1096 O REMARK 620 2 HOH B2025 O 120.8 REMARK 620 3 HOH B2079 O 102.5 91.7 REMARK 620 4 HOH B2081 O 86.9 51.0 139.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1902 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B1448 SG REMARK 620 2 CYS B1453 SG 112.5 REMARK 620 3 CYS B1495 SG 116.8 108.0 REMARK 620 4 CYS B1497 SG 119.1 108.0 90.1 REMARK 620 N 1 2 3 DBREF 7F98 A 1008 1512 UNP P07814 SYEP_HUMAN 1008 1512 DBREF 7F98 B 1008 1512 UNP P07814 SYEP_HUMAN 1008 1512 SEQRES 1 A 505 PRO LYS LYS GLN THR ARG LEU GLY LEU GLU ALA LYS LYS SEQRES 2 A 505 GLU GLU ASN LEU ALA ASP TRP TYR SER GLN VAL ILE THR SEQRES 3 A 505 LYS SER GLU MET ILE GLU TYR HIS ASP ILE SER GLY CYS SEQRES 4 A 505 TYR ILE LEU ARG PRO TRP ALA TYR ALA ILE TRP GLU ALA SEQRES 5 A 505 ILE LYS ASP PHE PHE ASP ALA GLU ILE LYS LYS LEU GLY SEQRES 6 A 505 VAL GLU ASN CYS TYR PHE PRO MET PHE VAL SER GLN SER SEQRES 7 A 505 ALA LEU GLU LYS GLU LYS THR HIS VAL ALA ASP PHE ALA SEQRES 8 A 505 PRO GLU VAL ALA TRP VAL THR ARG SER GLY LYS THR GLU SEQRES 9 A 505 LEU ALA GLU PRO ILE ALA ILE ARG PRO THR SER GLU THR SEQRES 10 A 505 VAL MET TYR PRO ALA TYR ALA LYS TRP VAL GLN SER HIS SEQRES 11 A 505 ARG ASP LEU PRO ILE LYS LEU ASN GLN TRP CYS ASN VAL SEQRES 12 A 505 VAL ARG TRP GLU PHE LYS HIS PRO GLN PRO PHE LEU ARG SEQRES 13 A 505 THR ARG GLU PHE LEU TRP GLN GLU GLY HIS SER ALA PHE SEQRES 14 A 505 ALA THR MET GLU GLU ALA ALA GLU GLU VAL LEU GLN ILE SEQRES 15 A 505 LEU ASP LEU TYR ALA GLN VAL TYR GLU GLU LEU LEU ALA SEQRES 16 A 505 ILE PRO VAL VAL LYS GLY ARG LYS THR GLU LYS GLU LYS SEQRES 17 A 505 PHE ALA GLY GLY ASP TYR THR THR THR ILE GLU ALA PHE SEQRES 18 A 505 ILE SER ALA SER GLY ARG ALA ILE GLN GLY GLY THR SER SEQRES 19 A 505 HIS HIS LEU GLY GLN ASN PHE SER LYS MET PHE GLU ILE SEQRES 20 A 505 VAL PHE GLU ASP PRO LYS ILE PRO GLY GLU LYS GLN PHE SEQRES 21 A 505 ALA TYR GLN ASN SER TRP GLY LEU THR THR ARG THR ILE SEQRES 22 A 505 GLY VAL MET THR MET VAL HIS GLY ASP ASN MET GLY LEU SEQRES 23 A 505 VAL LEU PRO PRO ARG VAL ALA CYS VAL GLN VAL VAL ILE SEQRES 24 A 505 ILE PRO CYS GLY ILE THR ASN ALA LEU SER GLU GLU ASP SEQRES 25 A 505 LYS GLU ALA LEU ILE ALA LYS CYS ASN ASP TYR ARG ARG SEQRES 26 A 505 ARG LEU LEU SER VAL ASN ILE ARG VAL ARG ALA ASP LEU SEQRES 27 A 505 ARG ASP ASN TYR SER PRO GLY TRP LYS PHE ASN HIS TRP SEQRES 28 A 505 GLU LEU LYS GLY VAL PRO ILE ARG LEU GLU VAL GLY PRO SEQRES 29 A 505 ARG ASP MET LYS SER CYS GLN PHE VAL ALA VAL ARG ARG SEQRES 30 A 505 ASP THR GLY GLU LYS LEU THR VAL ALA GLU ASN GLU ALA SEQRES 31 A 505 GLU THR LYS LEU GLN ALA ILE LEU GLU ASP ILE GLN VAL SEQRES 32 A 505 THR LEU PHE THR ARG ALA SER GLU ASP LEU LYS THR HIS SEQRES 33 A 505 MET VAL VAL ALA ASN THR MET GLU ASP PHE GLN LYS ILE SEQRES 34 A 505 LEU ASP SER GLY LYS ILE VAL GLN ILE PRO PHE CYS GLY SEQRES 35 A 505 GLU ILE ASP CYS GLU ASP TRP ILE LYS LYS THR THR ALA SEQRES 36 A 505 ARG ASP GLN ASP LEU GLU PRO GLY ALA PRO SER MET GLY SEQRES 37 A 505 ALA LYS SER LEU CYS ILE PRO PHE LYS PRO LEU CYS GLU SEQRES 38 A 505 LEU GLN PRO GLY ALA LYS CYS VAL CYS GLY LYS ASN PRO SEQRES 39 A 505 ALA LYS TYR TYR THR LEU PHE GLY ARG SER TYR SEQRES 1 B 505 PRO LYS LYS GLN THR ARG LEU GLY LEU GLU ALA LYS LYS SEQRES 2 B 505 GLU GLU ASN LEU ALA ASP TRP TYR SER GLN VAL ILE THR SEQRES 3 B 505 LYS SER GLU MET ILE GLU TYR HIS ASP ILE SER GLY CYS SEQRES 4 B 505 TYR ILE LEU ARG PRO TRP ALA TYR ALA ILE TRP GLU ALA SEQRES 5 B 505 ILE LYS ASP PHE PHE ASP ALA GLU ILE LYS LYS LEU GLY SEQRES 6 B 505 VAL GLU ASN CYS TYR PHE PRO MET PHE VAL SER GLN SER SEQRES 7 B 505 ALA LEU GLU LYS GLU LYS THR HIS VAL ALA ASP PHE ALA SEQRES 8 B 505 PRO GLU VAL ALA TRP VAL THR ARG SER GLY LYS THR GLU SEQRES 9 B 505 LEU ALA GLU PRO ILE ALA ILE ARG PRO THR SER GLU THR SEQRES 10 B 505 VAL MET TYR PRO ALA TYR ALA LYS TRP VAL GLN SER HIS SEQRES 11 B 505 ARG ASP LEU PRO ILE LYS LEU ASN GLN TRP CYS ASN VAL SEQRES 12 B 505 VAL ARG TRP GLU PHE LYS HIS PRO GLN PRO PHE LEU ARG SEQRES 13 B 505 THR ARG GLU PHE LEU TRP GLN GLU GLY HIS SER ALA PHE SEQRES 14 B 505 ALA THR MET GLU GLU ALA ALA GLU GLU VAL LEU GLN ILE SEQRES 15 B 505 LEU ASP LEU TYR ALA GLN VAL TYR GLU GLU LEU LEU ALA SEQRES 16 B 505 ILE PRO VAL VAL LYS GLY ARG LYS THR GLU LYS GLU LYS SEQRES 17 B 505 PHE ALA GLY GLY ASP TYR THR THR THR ILE GLU ALA PHE SEQRES 18 B 505 ILE SER ALA SER GLY ARG ALA ILE GLN GLY GLY THR SER SEQRES 19 B 505 HIS HIS LEU GLY GLN ASN PHE SER LYS MET PHE GLU ILE SEQRES 20 B 505 VAL PHE GLU ASP PRO LYS ILE PRO GLY GLU LYS GLN PHE SEQRES 21 B 505 ALA TYR GLN ASN SER TRP GLY LEU THR THR ARG THR ILE SEQRES 22 B 505 GLY VAL MET THR MET VAL HIS GLY ASP ASN MET GLY LEU SEQRES 23 B 505 VAL LEU PRO PRO ARG VAL ALA CYS VAL GLN VAL VAL ILE SEQRES 24 B 505 ILE PRO CYS GLY ILE THR ASN ALA LEU SER GLU GLU ASP SEQRES 25 B 505 LYS GLU ALA LEU ILE ALA LYS CYS ASN ASP TYR ARG ARG SEQRES 26 B 505 ARG LEU LEU SER VAL ASN ILE ARG VAL ARG ALA ASP LEU SEQRES 27 B 505 ARG ASP ASN TYR SER PRO GLY TRP LYS PHE ASN HIS TRP SEQRES 28 B 505 GLU LEU LYS GLY VAL PRO ILE ARG LEU GLU VAL GLY PRO SEQRES 29 B 505 ARG ASP MET LYS SER CYS GLN PHE VAL ALA VAL ARG ARG SEQRES 30 B 505 ASP THR GLY GLU LYS LEU THR VAL ALA GLU ASN GLU ALA SEQRES 31 B 505 GLU THR LYS LEU GLN ALA ILE LEU GLU ASP ILE GLN VAL SEQRES 32 B 505 THR LEU PHE THR ARG ALA SER GLU ASP LEU LYS THR HIS SEQRES 33 B 505 MET VAL VAL ALA ASN THR MET GLU ASP PHE GLN LYS ILE SEQRES 34 B 505 LEU ASP SER GLY LYS ILE VAL GLN ILE PRO PHE CYS GLY SEQRES 35 B 505 GLU ILE ASP CYS GLU ASP TRP ILE LYS LYS THR THR ALA SEQRES 36 B 505 ARG ASP GLN ASP LEU GLU PRO GLY ALA PRO SER MET GLY SEQRES 37 B 505 ALA LYS SER LEU CYS ILE PRO PHE LYS PRO LEU CYS GLU SEQRES 38 B 505 LEU GLN PRO GLY ALA LYS CYS VAL CYS GLY LYS ASN PRO SEQRES 39 B 505 ALA LYS TYR TYR THR LEU PHE GLY ARG SER TYR HET JE6 A1901 28 HET ZN A1902 1 HET CA A1903 1 HET CA A1904 1 HET CA A1905 1 HET CA A1906 1 HET CA A1907 1 HET CA A1908 1 HET PRO A1909 8 HET JE6 B1901 28 HET ZN B1902 1 HET CA B1903 1 HET CA B1904 1 HET CA B1905 1 HET CL B1906 1 HET PRO B1907 8 HETNAM JE6 ~{N}-[4-[(3~{S})-3-CYANO-3-CYCLOPROPYL-2-OXIDANYLIDENE- HETNAM 2 JE6 PYRROLIDIN-1-YL]-6-METHYL-PYRIDIN-2-YL]-2-PHENYL- HETNAM 3 JE6 ETHANAMIDE HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM PRO PROLINE HETNAM CL CHLORIDE ION FORMUL 3 JE6 2(C22 H22 N4 O2) FORMUL 4 ZN 2(ZN 2+) FORMUL 5 CA 9(CA 2+) FORMUL 11 PRO 2(C5 H9 N O2) FORMUL 17 CL CL 1- FORMUL 19 HOH *296(H2 O) HELIX 1 AA1 ASN A 1023 SER A 1035 1 13 HELIX 2 AA2 ARG A 1050 LEU A 1071 1 22 HELIX 3 AA3 GLN A 1084 GLU A 1088 1 5 HELIX 4 AA4 GLU A 1090 ALA A 1098 1 9 HELIX 5 AA5 SER A 1122 VAL A 1134 1 13 HELIX 6 AA6 SER A 1136 LEU A 1140 5 5 HELIX 7 AA7 THR A 1178 LEU A 1200 1 23 HELIX 8 AA8 GLN A 1246 GLU A 1253 1 8 HELIX 9 AA9 THR A 1277 GLY A 1288 1 12 HELIX 10 AB1 ASP A 1319 VAL A 1337 1 19 HELIX 11 AB2 SER A 1350 LYS A 1361 1 12 HELIX 12 AB3 GLY A 1370 SER A 1376 1 7 HELIX 13 AB4 GLU A 1396 HIS A 1423 1 28 HELIX 14 AB5 THR A 1429 SER A 1439 1 11 HELIX 15 AB6 GLU A 1450 ASP A 1464 1 15 HELIX 16 AB7 ASN B 1023 SER B 1035 1 13 HELIX 17 AB8 ARG B 1050 LEU B 1071 1 22 HELIX 18 AB9 GLN B 1084 GLU B 1088 1 5 HELIX 19 AC1 GLU B 1090 ALA B 1098 1 9 HELIX 20 AC2 SER B 1122 VAL B 1134 1 13 HELIX 21 AC3 SER B 1136 LEU B 1140 5 5 HELIX 22 AC4 THR B 1178 LEU B 1200 1 23 HELIX 23 AC5 GLN B 1246 GLU B 1253 1 8 HELIX 24 AC6 THR B 1277 GLY B 1288 1 12 HELIX 25 AC7 PRO B 1296 ALA B 1300 5 5 HELIX 26 AC8 SER B 1316 VAL B 1337 1 22 HELIX 27 AC9 SER B 1350 LYS B 1361 1 12 HELIX 28 AD1 GLY B 1370 SER B 1376 1 7 HELIX 29 AD2 GLU B 1396 HIS B 1423 1 28 HELIX 30 AD3 THR B 1429 SER B 1439 1 11 HELIX 31 AD4 GLU B 1450 ALA B 1462 1 13 SHEET 1 AA1 2 ILE A1038 TYR A1040 0 SHEET 2 AA1 2 TYR A1047 LEU A1049 -1 O ILE A1048 N GLU A1039 SHEET 1 AA211 GLU A1074 ASN A1075 0 SHEET 2 AA211 ILE A1142 VAL A1151 1 O ASN A1145 N GLU A1074 SHEET 3 AA211 GLU A1166 PHE A1176 -1 O HIS A1173 N LEU A1144 SHEET 4 AA211 TYR A1269 THR A1276 -1 O TRP A1273 N GLY A1172 SHEET 5 AA211 ARG A1234 GLY A1245 -1 N HIS A1242 O SER A1272 SHEET 6 AA211 TYR A1221 ILE A1229 -1 N THR A1223 O SER A1241 SHEET 7 AA211 VAL A1206 ARG A1209 -1 N GLY A1208 O THR A1224 SHEET 8 AA211 LYS A1477 PRO A1482 -1 O ILE A1481 N ARG A1209 SHEET 9 AA211 TYR A1504 GLY A1509 -1 O LEU A1507 N LEU A1479 SHEET 10 AA211 ILE A1442 PHE A1447 -1 N ILE A1445 O THR A1506 SHEET 11 AA211 MET A1424 VAL A1426 1 N VAL A1425 O GLN A1444 SHEET 1 AA3 6 PHE A1081 SER A1083 0 SHEET 2 AA3 6 THR A1110 ILE A1118 -1 O ALA A1117 N VAL A1082 SHEET 3 AA3 6 ALA A1102 SER A1107 -1 N VAL A1104 O ILE A1116 SHEET 4 AA3 6 ALA B1102 SER B1107 -1 O TRP B1103 N ARG A1106 SHEET 5 AA3 6 THR B1110 ILE B1118 -1 O ILE B1116 N VAL B1104 SHEET 6 AA3 6 PHE B1081 SER B1083 -1 N VAL B1082 O ALA B1117 SHEET 1 AA4 2 VAL A1255 PHE A1256 0 SHEET 2 AA4 2 GLN A1266 PHE A1267 -1 O GLN A1266 N PHE A1256 SHEET 1 AA5 5 VAL A1341 ALA A1343 0 SHEET 2 AA5 5 VAL A1304 PRO A1308 1 N ILE A1306 O ARG A1342 SHEET 3 AA5 5 ILE A1365 VAL A1369 1 O LEU A1367 N VAL A1305 SHEET 4 AA5 5 GLN A1378 ARG A1383 -1 O VAL A1380 N GLU A1368 SHEET 5 AA5 5 LYS A1389 ALA A1393 -1 O VAL A1392 N PHE A1379 SHEET 1 AA6 2 ILE B1038 TYR B1040 0 SHEET 2 AA6 2 TYR B1047 LEU B1049 -1 O ILE B1048 N GLU B1039 SHEET 1 AA711 GLU B1074 ASN B1075 0 SHEET 2 AA711 ILE B1142 VAL B1151 1 O LYS B1143 N GLU B1074 SHEET 3 AA711 GLU B1166 PHE B1176 -1 O HIS B1173 N LEU B1144 SHEET 4 AA711 TYR B1269 THR B1276 -1 O TYR B1269 N PHE B1176 SHEET 5 AA711 ALA B1235 GLY B1245 -1 N HIS B1242 O SER B1272 SHEET 6 AA711 TYR B1221 PHE B1228 -1 N TYR B1221 O HIS B1243 SHEET 7 AA711 VAL B1206 ARG B1209 -1 N GLY B1208 O THR B1224 SHEET 8 AA711 LYS B1477 PRO B1482 -1 O ILE B1481 N ARG B1209 SHEET 9 AA711 TYR B1504 GLY B1509 -1 O GLY B1509 N LYS B1477 SHEET 10 AA711 ILE B1442 PHE B1447 -1 N VAL B1443 O PHE B1508 SHEET 11 AA711 MET B1424 VAL B1426 1 N VAL B1425 O GLN B1444 SHEET 1 AA8 2 VAL B1255 GLU B1257 0 SHEET 2 AA8 2 LYS B1265 PHE B1267 -1 O GLN B1266 N PHE B1256 SHEET 1 AA9 5 VAL B1341 ALA B1343 0 SHEET 2 AA9 5 VAL B1304 PRO B1308 1 N ILE B1306 O ARG B1342 SHEET 3 AA9 5 ILE B1365 VAL B1369 1 O LEU B1367 N VAL B1305 SHEET 4 AA9 5 GLN B1378 ARG B1383 -1 O VAL B1380 N GLU B1368 SHEET 5 AA9 5 LYS B1389 ALA B1393 -1 O LEU B1390 N ALA B1381 LINK OE2 GLU A1074 CA CA A1908 1555 1555 2.65 LINK O ASP A1096 CA CA A1903 1555 1555 2.70 LINK OE1 GLU A1100 CA CA A1903 1555 1555 2.76 LINK OE2 GLU A1100 CA CA A1903 1555 1555 3.09 LINK OD1 ASP A1220 CA CA A1904 1555 1555 3.05 LINK OD2 ASP A1220 CA CA A1904 1555 1555 2.40 LINK O ASP A1220 CA CA B1905 1555 1655 3.16 LINK OE1 GLU A1264 CA CA A1907 1555 1555 2.91 LINK SG CYS A1448 ZN ZN A1902 1555 1555 2.39 LINK OE1 GLU A1450 CA CA B1903 1555 3655 2.76 LINK OE2 GLU A1450 CA CA B1903 1555 3655 2.41 LINK SG CYS A1453 ZN ZN A1902 1555 1555 2.33 LINK OD2 ASP A1466 CA CA A1905 1555 1555 2.62 LINK O LEU A1467 CA CA A1905 1555 1555 3.05 LINK SG CYS A1495 ZN ZN A1902 1555 1555 2.39 LINK SG CYS A1497 ZN ZN A1902 1555 1555 2.28 LINK CA CA A1903 O HOH A2019 1555 1555 2.29 LINK CA CA A1904 OE1 GLU B1264 1455 1555 2.23 LINK CA CA A1905 O HOH A2099 1555 1555 2.60 LINK CA CA A1905 OE1 GLU B1396 2555 1555 2.88 LINK O ASP B1096 CA CA B1904 1555 1555 2.53 LINK OE1 GLU B1264 CA CA B1905 1555 1555 2.88 LINK OE2 GLU B1264 CA CA B1905 1555 1555 2.94 LINK O SER B1376 CA CA B1903 1555 1555 2.49 LINK OE1 GLN B1378 CA CA B1903 1555 1555 2.45 LINK SG CYS B1448 ZN ZN B1902 1555 1555 2.35 LINK SG CYS B1453 ZN ZN B1902 1555 1555 2.34 LINK SG CYS B1495 ZN ZN B1902 1555 1555 2.49 LINK SG CYS B1497 ZN ZN B1902 1555 1555 2.62 LINK CA CA B1903 O HOH B2091 1555 1555 2.50 LINK CA CA B1903 O HOH B2117 1555 1555 2.70 LINK CA CA B1903 O HOH B2128 1555 1555 2.31 LINK CA CA B1904 O HOH B2025 1555 1555 3.01 LINK CA CA B1904 O HOH B2079 1555 1555 2.27 LINK CA CA B1904 O HOH B2081 1555 1555 2.65 CISPEP 1 LEU A 1140 PRO A 1141 0 3.49 CISPEP 2 LEU B 1140 PRO B 1141 0 -0.23 CRYST1 70.720 106.110 145.290 90.00 90.00 90.00 P 21 21 21 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 0.014140 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009424 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006883 0.00000