HEADER OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR 08-DEC-20 7KYV TITLE CRYSTAL STRUCTURE OF PLASMODIUM FALCIPARUM DIHYDROOROTATE TITLE 2 DEHYDROGENASE BOUND WITH INHIBITOR DSM634 (3-METHYL-N-(1-(5- TITLE 3 METHYLISOXAZOL-3-YL)ETHYL)-4-(4-(TRIFLUOROMETHYL)BENZYL)-1H-PYRROLE- TITLE 4 2-CARBOXAMIDE) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROOROTATE DEHYDROGENASE (QUINONE), MITOCHONDRIAL; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DHODEHASE,DIHYDROOROTATE OXIDASE; COMPND 5 EC: 1.3.5.2; COMPND 6 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: PFF0160C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ALPHA-BETA BARREL, OXIDOREDUCTASE, OXIDOREDUCTASE-OXIDOREDUCTASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR X.DENG,M.PHILLIPS,D.TOMCHICK REVDAT 3 18-OCT-23 7KYV 1 REMARK REVDAT 2 08-DEC-21 7KYV 1 JRNL REVDAT 1 19-MAY-21 7KYV 0 JRNL AUTH M.J.PALMER,X.DENG,S.WATTS,G.KRILOV,A.GERASYUTO,S.KOKKONDA, JRNL AUTH 2 F.EL MAZOUNI,J.WHITE,K.L.WHITE,J.STRIEPEN,J.BATH, JRNL AUTH 3 K.A.SCHINDLER,T.YEO,D.M.SHACKLEFORD,S.MOK,I.DENI,A.LAWONG, JRNL AUTH 4 A.HUANG,G.CHEN,W.WANG,J.JAYASEELAN,K.KATNENI,R.PATIL, JRNL AUTH 5 J.SAUNDERS,S.P.SHAHI,R.CHITTIMALLA,I.ANGULO-BARTUREN, JRNL AUTH 6 M.B.JIMENEZ-DIAZ,S.WITTLIN,P.K.TUMWEBAZE,P.J.ROSENTHAL, JRNL AUTH 7 R.A.COOPER,A.C.C.AGUIAR,R.V.C.GUIDO,D.B.PEREIRA,N.MITTAL, JRNL AUTH 8 E.A.WINZELER,D.R.TOMCHICK,B.LALEU,J.N.BURROWS,P.K.RATHOD, JRNL AUTH 9 D.A.FIDOCK,S.A.CHARMAN,M.A.PHILLIPS JRNL TITL POTENT ANTIMALARIALS WITH DEVELOPMENT POTENTIAL IDENTIFIED JRNL TITL 2 BY STRUCTURE-GUIDED COMPUTATIONAL OPTIMIZATION OF A JRNL TITL 3 PYRROLE-BASED DIHYDROOROTATE DEHYDROGENASE INHIBITOR SERIES. JRNL REF J.MED.CHEM. V. 64 6085 2021 JRNL REFN ISSN 0022-2623 JRNL PMID 33876936 JRNL DOI 10.1021/ACS.JMEDCHEM.1C00173 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.64 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 16.820 REMARK 3 COMPLETENESS FOR RANGE (%) : 82.6 REMARK 3 NUMBER OF REFLECTIONS : 18495 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.140 REMARK 3 FREE R VALUE TEST SET COUNT : 1135 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 42.6400 - 2.4000 0.94 2649 174 0.1737 0.1860 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) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.742 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.60 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 : 0.007 3105 REMARK 3 ANGLE : 0.716 4183 REMARK 3 CHIRALITY : 0.043 461 REMARK 3 PLANARITY : 0.004 528 REMARK 3 DIHEDRAL : 19.411 420 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 162 THROUGH 205 ) REMARK 3 ORIGIN FOR THE GROUP (A): 95.0619 32.8366 -0.4204 REMARK 3 T TENSOR REMARK 3 T11: 0.5343 T22: 0.2154 REMARK 3 T33: 0.2708 T12: -0.0591 REMARK 3 T13: -0.0697 T23: 0.0527 REMARK 3 L TENSOR REMARK 3 L11: 2.0851 L22: 1.0844 REMARK 3 L33: 1.9479 L12: 0.7663 REMARK 3 L13: 0.9040 L23: 0.9262 REMARK 3 S TENSOR REMARK 3 S11: 0.0478 S12: 0.3478 S13: 0.3395 REMARK 3 S21: -0.4422 S22: -0.0026 S23: 0.2117 REMARK 3 S31: -0.3107 S32: -0.0420 S33: -0.0248 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 206 THROUGH 282 ) REMARK 3 ORIGIN FOR THE GROUP (A): 88.1162 24.6807 10.3660 REMARK 3 T TENSOR REMARK 3 T11: 0.4291 T22: 0.1859 REMARK 3 T33: 0.2354 T12: -0.1569 REMARK 3 T13: -0.1007 T23: -0.0413 REMARK 3 L TENSOR REMARK 3 L11: 1.5944 L22: 2.4618 REMARK 3 L33: 0.4603 L12: 0.7843 REMARK 3 L13: 0.1198 L23: 0.3509 REMARK 3 S TENSOR REMARK 3 S11: 0.0570 S12: 0.0402 S13: 0.0341 REMARK 3 S21: -0.1538 S22: -0.0607 S23: 0.3187 REMARK 3 S31: 0.0100 S32: -0.1349 S33: 0.0966 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 283 THROUGH 356 ) REMARK 3 ORIGIN FOR THE GROUP (A): 90.7882 15.3226 16.8359 REMARK 3 T TENSOR REMARK 3 T11: 0.4499 T22: 0.2465 REMARK 3 T33: 0.2807 T12: -0.2851 REMARK 3 T13: -0.0882 T23: 0.0490 REMARK 3 L TENSOR REMARK 3 L11: 0.7826 L22: 2.4907 REMARK 3 L33: 0.6319 L12: 0.1193 REMARK 3 L13: -0.1611 L23: 0.0857 REMARK 3 S TENSOR REMARK 3 S11: -0.0138 S12: 0.0214 S13: -0.2241 REMARK 3 S21: 0.0253 S22: -0.0582 S23: 0.2700 REMARK 3 S31: 0.2156 S32: -0.2300 S33: 0.0505 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 357 THROUGH 528 ) REMARK 3 ORIGIN FOR THE GROUP (A): 79.8328 23.5894 20.9054 REMARK 3 T TENSOR REMARK 3 T11: 0.3744 T22: 0.4749 REMARK 3 T33: 0.4337 T12: -0.2375 REMARK 3 T13: 0.0547 T23: -0.0784 REMARK 3 L TENSOR REMARK 3 L11: 2.0334 L22: 1.7397 REMARK 3 L33: 1.2105 L12: -0.2455 REMARK 3 L13: -0.3974 L23: -0.4927 REMARK 3 S TENSOR REMARK 3 S11: 0.0724 S12: -0.3859 S13: 0.0168 REMARK 3 S21: 0.2636 S22: -0.0389 S23: 0.5494 REMARK 3 S31: 0.2090 S32: -0.4897 S33: -0.0772 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 529 THROUGH 565 ) REMARK 3 ORIGIN FOR THE GROUP (A): 85.2068 42.7164 16.4522 REMARK 3 T TENSOR REMARK 3 T11: 0.4190 T22: 0.3092 REMARK 3 T33: 0.5374 T12: -0.0007 REMARK 3 T13: -0.0479 T23: -0.1093 REMARK 3 L TENSOR REMARK 3 L11: 1.0416 L22: 4.7243 REMARK 3 L33: 5.5878 L12: -0.7867 REMARK 3 L13: -0.3968 L23: 2.7410 REMARK 3 S TENSOR REMARK 3 S11: 0.0505 S12: -0.3037 S13: 0.5114 REMARK 3 S21: 0.1237 S22: 0.0019 S23: 0.2792 REMARK 3 S31: -0.6760 S32: -0.3279 S33: -0.0660 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 7KYV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-DEC-20. REMARK 100 THE DEPOSITION ID IS D_1000253414. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUN-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.1 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) : 0.97943 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-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22433 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 42.640 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 46.2200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.44 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 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 : 1.100 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: 3I65 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.16 M AMSO4, 18% V/V PEG4000, 100 MM REMARK 280 SODIUM ACETATE PH 5.1, 24% V/V GLYCEROL, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.40533 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 92.81067 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 46.40533 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 92.81067 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 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 PHE A 158 REMARK 465 GLU A 159 REMARK 465 SER A 160 REMARK 465 TYR A 161 REMARK 465 HIS A 566 REMARK 465 SER A 567 REMARK 465 LYS A 568 REMARK 465 SER A 569 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 SG CYS A 175 SG CYS A 184 1.63 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 213 -121.80 59.66 REMARK 500 ASP A 228 73.83 -110.67 REMARK 500 CYS A 233 29.09 -143.10 REMARK 500 SER A 275 43.68 -148.55 REMARK 500 ASN A 418 -159.68 -139.56 REMARK 500 TYR A 528 -70.58 -143.72 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue XBY A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMN A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ORO A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1006 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1007 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7KYK RELATED DB: PDB DBREF 7KYV A 158 569 UNP Q08210 PYRD_PLAF7 158 569 SEQADV 7KYV A UNP Q08210 SER 384 DELETION SEQADV 7KYV A UNP Q08210 THR 385 DELETION SEQADV 7KYV A UNP Q08210 TYR 386 DELETION SEQADV 7KYV A UNP Q08210 ASN 387 DELETION SEQADV 7KYV A UNP Q08210 GLU 388 DELETION SEQADV 7KYV A UNP Q08210 ASP 389 DELETION SEQADV 7KYV A UNP Q08210 ASN 390 DELETION SEQADV 7KYV A UNP Q08210 LYS 391 DELETION SEQADV 7KYV A UNP Q08210 ILE 392 DELETION SEQADV 7KYV A UNP Q08210 VAL 393 DELETION SEQADV 7KYV A UNP Q08210 GLU 394 DELETION SEQADV 7KYV A UNP Q08210 LYS 395 DELETION SEQADV 7KYV A UNP Q08210 LYS 396 DELETION SEQADV 7KYV A UNP Q08210 ASN 397 DELETION SEQADV 7KYV A UNP Q08210 ASN 398 DELETION SEQADV 7KYV A UNP Q08210 PHE 399 DELETION SEQADV 7KYV A UNP Q08210 ASN 400 DELETION SEQADV 7KYV A UNP Q08210 LYS 401 DELETION SEQADV 7KYV A UNP Q08210 ASN 402 DELETION SEQADV 7KYV A UNP Q08210 ASN 403 DELETION SEQADV 7KYV A UNP Q08210 SER 404 DELETION SEQADV 7KYV A UNP Q08210 HIS 405 DELETION SEQADV 7KYV A UNP Q08210 MET 406 DELETION SEQADV 7KYV A UNP Q08210 MET 407 DELETION SEQADV 7KYV A UNP Q08210 LYS 408 DELETION SEQADV 7KYV A UNP Q08210 ASP 409 DELETION SEQADV 7KYV A UNP Q08210 ALA 410 DELETION SEQADV 7KYV A UNP Q08210 LYS 411 DELETION SEQADV 7KYV A UNP Q08210 ASP 412 DELETION SEQADV 7KYV A UNP Q08210 ASN 413 DELETION SEQRES 1 A 382 PHE GLU SER TYR ASN PRO GLU PHE PHE LEU TYR ASP ILE SEQRES 2 A 382 PHE LEU LYS PHE CYS LEU LYS TYR ILE ASP GLY GLU ILE SEQRES 3 A 382 CYS HIS ASP LEU PHE LEU LEU LEU GLY LYS TYR ASN ILE SEQRES 4 A 382 LEU PRO TYR ASP THR SER ASN ASP SER ILE TYR ALA CYS SEQRES 5 A 382 THR ASN ILE LYS HIS LEU ASP PHE ILE ASN PRO PHE GLY SEQRES 6 A 382 VAL ALA ALA GLY PHE ASP LYS ASN GLY VAL CYS ILE ASP SEQRES 7 A 382 SER ILE LEU LYS LEU GLY PHE SER PHE ILE GLU ILE GLY SEQRES 8 A 382 THR ILE THR PRO ARG GLY GLN THR GLY ASN ALA LYS PRO SEQRES 9 A 382 ARG ILE PHE ARG ASP VAL GLU SER ARG SER ILE ILE ASN SEQRES 10 A 382 SER CYS GLY PHE ASN ASN MET GLY CYS ASP LYS VAL THR SEQRES 11 A 382 GLU ASN LEU ILE LEU PHE ARG LYS ARG GLN GLU GLU ASP SEQRES 12 A 382 LYS LEU LEU SER LYS HIS ILE VAL GLY VAL SER ILE GLY SEQRES 13 A 382 LYS ASN LYS ASP THR VAL ASN ILE VAL ASP ASP LEU LYS SEQRES 14 A 382 TYR CYS ILE ASN LYS ILE GLY ARG TYR ALA ASP TYR ILE SEQRES 15 A 382 ALA ILE ASN VAL SER SER PRO ASN THR PRO GLY LEU ARG SEQRES 16 A 382 ASP ASN GLN GLU ALA GLY LYS LEU LYS ASN ILE ILE LEU SEQRES 17 A 382 SER VAL LYS GLU GLU ILE ASP ASN LEU GLU LYS ASN ASN SEQRES 18 A 382 ILE MET ASN ASP GLU PHE LEU TRP PHE ASN THR THR LYS SEQRES 19 A 382 LYS LYS PRO LEU VAL PHE VAL LYS LEU ALA PRO ASP LEU SEQRES 20 A 382 ASN GLN GLU GLN LYS LYS GLU ILE ALA ASP VAL LEU LEU SEQRES 21 A 382 GLU THR ASN ILE ASP GLY MET ILE ILE SER ASN THR THR SEQRES 22 A 382 THR GLN ILE ASN ASP ILE LYS SER PHE GLU ASN LYS LYS SEQRES 23 A 382 GLY GLY VAL SER GLY ALA LYS LEU LYS ASP ILE SER THR SEQRES 24 A 382 LYS PHE ILE CYS GLU MET TYR ASN TYR THR ASN LYS GLN SEQRES 25 A 382 ILE PRO ILE ILE ALA SER GLY GLY ILE PHE SER GLY LEU SEQRES 26 A 382 ASP ALA LEU GLU LYS ILE GLU ALA GLY ALA SER VAL CYS SEQRES 27 A 382 GLN LEU TYR SER CYS LEU VAL PHE ASN GLY MET LYS SER SEQRES 28 A 382 ALA VAL GLN ILE LYS ARG GLU LEU ASN HIS LEU LEU TYR SEQRES 29 A 382 GLN ARG GLY TYR TYR ASN LEU LYS GLU ALA ILE GLY ARG SEQRES 30 A 382 LYS HIS SER LYS SER HET XBY A1001 48 HET FMN A1002 49 HET ORO A1003 14 HET GOL A1004 13 HET GOL A1005 12 HET GOL A1006 12 HET GOL A1007 14 HETNAM XBY 3-METHYL-N-[(1R)-1-(5-METHYL-1,2-OXAZOL-3-YL)ETHYL]-4- HETNAM 2 XBY {[4-(TRIFLUOROMETHYL)PHENYL]METHYL}-1H-PYRROLE-2- HETNAM 3 XBY CARBOXAMIDE HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM ORO OROTIC ACID HETNAM GOL GLYCEROL HETSYN FMN RIBOFLAVIN MONOPHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 XBY C20 H20 F3 N3 O2 FORMUL 3 FMN C17 H21 N4 O9 P FORMUL 4 ORO C5 H4 N2 O4 FORMUL 5 GOL 4(C3 H8 O3) FORMUL 9 HOH *42(H2 O) HELIX 1 AA1 ASN A 162 ILE A 179 1 18 HELIX 2 AA2 ASP A 180 TYR A 194 1 15 HELIX 3 AA3 SER A 205 CYS A 209 5 5 HELIX 4 AA4 CYS A 233 LYS A 239 1 7 HELIX 5 AA5 CYS A 283 ASP A 300 1 18 HELIX 6 AA6 ASN A 320 GLY A 333 1 14 HELIX 7 AA7 ARG A 334 ALA A 336 5 3 HELIX 8 AA8 LEU A 351 GLN A 355 5 5 HELIX 9 AA9 GLU A 356 ASN A 377 1 22 HELIX 10 AB1 ASN A 381 TRP A 416 1 6 HELIX 11 AB2 ASN A 435 ASN A 450 1 16 HELIX 12 AB3 ILE A 466 GLU A 470 5 5 HELIX 13 AB4 ALA A 479 THR A 496 1 18 HELIX 14 AB5 SER A 510 ALA A 520 1 11 HELIX 15 AB6 TYR A 528 GLY A 535 1 8 HELIX 16 AB7 LYS A 537 ARG A 553 1 17 HELIX 17 AB8 ASN A 557 ILE A 562 1 6 SHEET 1 AA1 2 THR A 210 ILE A 212 0 SHEET 2 AA1 2 LEU A 215 PHE A 217 -1 O PHE A 217 N THR A 210 SHEET 1 AA2 9 PHE A 221 VAL A 223 0 SHEET 2 AA2 9 PHE A 244 ILE A 250 1 O GLU A 246 N VAL A 223 SHEET 3 AA2 9 ILE A 307 ILE A 312 1 O SER A 311 N ILE A 247 SHEET 4 AA2 9 TYR A 338 ASN A 342 1 O ALA A 340 N VAL A 310 SHEET 5 AA2 9 LEU A 425 LEU A 430 1 O PHE A 427 N ILE A 339 SHEET 6 AA2 9 GLY A 453 ILE A 456 1 O ILE A 455 N LEU A 430 SHEET 7 AA2 9 ILE A 502 ALA A 504 1 O ILE A 503 N ILE A 456 SHEET 8 AA2 9 ALA A 522 LEU A 527 1 O VAL A 524 N ALA A 504 SHEET 9 AA2 9 PHE A 221 VAL A 223 1 N GLY A 222 O CYS A 525 SHEET 1 AA3 2 ARG A 253 GLN A 255 0 SHEET 2 AA3 2 ASN A 280 GLY A 282 -1 O ASN A 280 N GLN A 255 SHEET 1 AA4 3 ILE A 263 ASP A 266 0 SHEET 2 AA4 3 SER A 271 ASN A 274 -1 O SER A 271 N ASP A 266 SHEET 3 AA4 3 GLY A 475 GLY A 478 -1 O SER A 477 N ILE A 272 CISPEP 1 GLY A 248 THR A 249 0 2.93 CISPEP 2 LYS A 260 PRO A 261 0 -0.42 CISPEP 3 ILE A 456 SER A 457 0 3.81 SITE 1 AC1 14 TYR A 168 PHE A 171 LEU A 172 GLY A 181 SITE 2 AC1 14 GLU A 182 CYS A 184 HIS A 185 LEU A 187 SITE 3 AC1 14 PHE A 188 LEU A 191 ILE A 263 ARG A 265 SITE 4 AC1 14 VAL A 532 MET A 536 SITE 1 AC2 23 ALA A 224 ALA A 225 GLY A 226 LYS A 229 SITE 2 AC2 23 THR A 249 ASN A 274 ASN A 342 LYS A 429 SITE 3 AC2 23 SER A 457 ASN A 458 THR A 459 SER A 477 SITE 4 AC2 23 GLY A 478 LEU A 481 SER A 505 GLY A 506 SITE 5 AC2 23 GLY A 507 TYR A 528 SER A 529 ORO A1003 SITE 6 AC2 23 HOH A1114 HOH A1119 HOH A1134 SITE 1 AC3 12 LYS A 229 ASN A 274 CYS A 276 GLY A 277 SITE 2 AC3 12 PHE A 278 ASN A 342 SER A 345 PRO A 346 SITE 3 AC3 12 ASN A 347 ASN A 458 THR A 459 FMN A1002 SITE 1 AC4 2 ASN A 258 ALA A 259 SITE 1 AC5 4 GLU A 164 PHE A 165 PRO A 198 TYR A 199 SITE 1 AC6 6 LYS A 193 GLY A 231 VAL A 232 ASN A 289 SITE 2 AC6 6 ARG A 296 HOH A1125 SITE 1 AC7 6 ASP A 180 GLY A 181 ILE A 263 PHE A 264 SITE 2 AC7 6 ARG A 265 ASN A 381 CRYST1 85.288 85.288 139.216 90.00 90.00 120.00 P 64 6 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 0.011725 0.006769 0.000000 0.00000 SCALE2 0.000000 0.013539 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007183 0.00000