HEADER OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR 28-MAR-19 6OEZ TITLE CRYSTAL STRUCTURE OF TRYPANOTHIONE REDUCTASE FROM TRYPANOSOMA BRUCEI TITLE 2 IN COMPLEX WITH INHIBITOR (+)-N-(CYCLOBUTYLMETHYL)-3-{5-[1- TITLE 3 (PYRROLIDIN-1-YL)CYCLOHEXYL]-2-(1-{[(2S)-PYRRO-LIDIN-2-YL]METHYL}-1H- TITLE 4 INDOL-5-YL)-1,3-THIAZOL-4-YL}PROP-2-YN-1-AMINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRYPANOTHIONE REDUCTASE; COMPND 3 CHAIN: B, A; COMPND 4 EC: 1.8.1.12; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI BRUCEI (STRAIN 927/4 SOURCE 3 GUTAT10.1); SOURCE 4 ORGANISM_TAXID: 185431; SOURCE 5 STRAIN: 927/4 GUTAT10.1; SOURCE 6 GENE: TB10.406.0520; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 866768; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21-GOLD(DE3)PLYSS AG; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET3ATBTRYR KEYWDS TRYPANOSOMA, TRYPANOTHIONE, INHIBITOR, SLEEPING SICKNESS, KEYWDS 2 OXIDOREDUCTASE, OXIDOREDUCTASE-OXIDOREDUCTASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR O.HALGAS,R.DE GASPARO,D.HARANGOZO,R.L.KRAUTH-SIEGEL,F.DIEDERICH, AUTHOR 2 E.F.PAI REVDAT 5 11-OCT-23 6OEZ 1 REMARK REVDAT 4 08-JAN-20 6OEZ 1 REMARK REVDAT 3 11-SEP-19 6OEZ 1 JRNL REVDAT 2 28-AUG-19 6OEZ 1 JRNL REVDAT 1 31-JUL-19 6OEZ 0 JRNL AUTH R.DE GASPARO,O.HALGAS,D.HARANGOZO,M.KAISER,E.F.PAI, JRNL AUTH 2 R.L.KRAUTH-SIEGEL,F.DIEDERICH JRNL TITL TARGETING A LARGE ACTIVE SITE: STRUCTURE-BASED DESIGN OF JRNL TITL 2 NANOMOLAR INHIBITORS OF TRYPANOSOMA BRUCEI TRYPANOTHIONE JRNL TITL 3 REDUCTASE. JRNL REF CHEMISTRY V. 25 11416 2019 JRNL REFN ISSN 0947-6539 JRNL PMID 31407832 JRNL DOI 10.1002/CHEM.201901664 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.10 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 54892 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.217 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.960 REMARK 3 FREE R VALUE TEST SET COUNT : 2724 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 29.5223 - 6.6470 0.99 2989 149 0.1930 0.2223 REMARK 3 2 6.6470 - 5.2858 1.00 2837 154 0.2205 0.2295 REMARK 3 3 5.2858 - 4.6205 1.00 2833 115 0.1716 0.1667 REMARK 3 4 4.6205 - 4.1994 0.99 2780 130 0.1681 0.1687 REMARK 3 5 4.1994 - 3.8991 0.99 2734 173 0.1802 0.1953 REMARK 3 6 3.8991 - 3.6696 1.00 2757 136 0.1935 0.2095 REMARK 3 7 3.6696 - 3.4862 1.00 2747 151 0.2031 0.2320 REMARK 3 8 3.4862 - 3.3346 1.00 2707 160 0.2210 0.2430 REMARK 3 9 3.3346 - 3.2064 1.00 2714 157 0.2347 0.2524 REMARK 3 10 3.2064 - 3.0959 1.00 2737 121 0.2439 0.2743 REMARK 3 11 3.0959 - 2.9992 1.00 2733 152 0.2507 0.2899 REMARK 3 12 2.9992 - 2.9135 1.00 2725 124 0.2544 0.2702 REMARK 3 13 2.9135 - 2.8369 0.99 2709 146 0.2557 0.2548 REMARK 3 14 2.8369 - 2.7677 1.00 2708 135 0.2484 0.2793 REMARK 3 15 2.7677 - 2.7049 1.00 2728 136 0.2606 0.2692 REMARK 3 16 2.7049 - 2.6473 1.00 2705 138 0.2629 0.2736 REMARK 3 17 2.6473 - 2.5944 1.00 2683 160 0.2841 0.2893 REMARK 3 18 2.5944 - 2.5455 1.00 2716 136 0.2755 0.3239 REMARK 3 19 2.5455 - 2.5000 0.99 2626 151 0.3139 0.3360 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) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.320 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 7771 REMARK 3 ANGLE : 0.647 10571 REMARK 3 CHIRALITY : 0.048 1185 REMARK 3 PLANARITY : 0.003 1375 REMARK 3 DIHEDRAL : 16.249 4647 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): -12.6141 -32.0126 -49.5334 REMARK 3 T TENSOR REMARK 3 T11: 0.3176 T22: 0.2600 REMARK 3 T33: 0.2494 T12: -0.0342 REMARK 3 T13: 0.0274 T23: -0.0054 REMARK 3 L TENSOR REMARK 3 L11: 1.0801 L22: 0.3321 REMARK 3 L33: 0.5455 L12: 0.3401 REMARK 3 L13: 0.5355 L23: 0.2438 REMARK 3 S TENSOR REMARK 3 S11: 0.0597 S12: -0.1361 S13: -0.0868 REMARK 3 S21: 0.1078 S22: -0.0784 S23: 0.0486 REMARK 3 S31: 0.0823 S32: -0.1575 S33: 0.0181 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 6OEZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-MAR-19. REMARK 100 THE DEPOSITION ID IS D_1000240562. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-OCT-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : SEALED TUBE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-003 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER R 1M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSALISPRO REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55114 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 29.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 12.40 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.9600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 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: PHASER REMARK 200 STARTING MODEL: 4NEV REMARK 200 REMARK 200 REMARK: YELLOWISH TETRAGONAL BIPYRAMID REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2 MICROL OF PROTEIN WERE MIXED WITH 2 REMARK 280 MICROL OF WELL SOLUTION (500 MICROL; 0.1 M HEPES, PH 7.5, 2.2 M REMARK 280 (NH4)2SO4); CRYSTAL GREW WITHIN 2WEEKS, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 112.26100 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 58.76300 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 58.76300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 168.39150 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 58.76300 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 58.76300 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 56.13050 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 58.76300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 58.76300 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 168.39150 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 58.76300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 58.76300 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 56.13050 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 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 112.26100 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: 10640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 36810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -64.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 ASP B 489 REMARK 465 SER B 490 REMARK 465 ASN B 491 REMARK 465 LEU B 492 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 LYS A 3 REMARK 465 ASP A 489 REMARK 465 SER A 490 REMARK 465 ASN A 491 REMARK 465 LEU A 492 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE2 GLU A 82 O HOH B 684 8554 1.99 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 ARG A 287 CZ ARG A 287 NH2 0.084 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 TYR B 45 -77.61 67.16 REMARK 500 ALA B 47 -168.42 -168.45 REMARK 500 VAL B 55 39.95 -145.29 REMARK 500 ALA B 159 55.42 -150.64 REMARK 500 ASN B 223 -167.79 -108.95 REMARK 500 ALA B 284 59.77 -140.66 REMARK 500 ARG B 331 -104.48 -121.39 REMARK 500 ASN B 352 58.95 28.47 REMARK 500 PHE B 367 48.82 -90.60 REMARK 500 ALA A 12 54.66 -93.65 REMARK 500 TYR A 45 -71.75 68.10 REMARK 500 ALA A 47 -165.43 -161.19 REMARK 500 VAL A 55 43.33 -142.08 REMARK 500 ASP A 84 93.69 -65.28 REMARK 500 ALA A 159 54.12 -147.72 REMARK 500 ASN A 223 -167.24 -106.72 REMARK 500 ARG A 331 -107.15 -115.81 REMARK 500 ASN A 352 52.48 -107.34 REMARK 500 SER A 406 65.10 -118.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 DUE TO THE CRYSTAL PACKING DENSITY FOR CHAIN B AND ITS LIGANDS IS REMARK 600 BETTER THAN THAT FOR CHAIN A IN ALL THE STRUCTURES OF THIS PROTEIN- REMARK 600 INHIBITOR COMPLEXES THAT WE HAVE SOLVED SO FAR REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FAD B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EPE B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue M9J B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FAD A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EPE A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue M9J A 503 DBREF 6OEZ B 1 492 UNP Q389T8 Q389T8_TRYB2 1 492 DBREF 6OEZ A 1 492 UNP Q389T8 Q389T8_TRYB2 1 492 SEQADV 6OEZ GLY B -2 UNP Q389T8 EXPRESSION TAG SEQADV 6OEZ SER B -1 UNP Q389T8 EXPRESSION TAG SEQADV 6OEZ HIS B 0 UNP Q389T8 EXPRESSION TAG SEQADV 6OEZ GLY A -2 UNP Q389T8 EXPRESSION TAG SEQADV 6OEZ SER A -1 UNP Q389T8 EXPRESSION TAG SEQADV 6OEZ HIS A 0 UNP Q389T8 EXPRESSION TAG SEQRES 1 B 495 GLY SER HIS MET SER LYS ALA PHE ASP LEU VAL VAL ILE SEQRES 2 B 495 GLY ALA GLY SER GLY GLY LEU GLU ALA GLY TRP ASN ALA SEQRES 3 B 495 ALA THR LEU TYR GLY LYS ARG VAL ALA VAL VAL ASP VAL SEQRES 4 B 495 GLN THR SER HIS GLY PRO PRO PHE TYR ALA ALA LEU GLY SEQRES 5 B 495 GLY THR CYS VAL ASN VAL GLY CYS VAL PRO LYS LYS LEU SEQRES 6 B 495 MET VAL THR GLY ALA GLN TYR MET ASP HIS LEU ARG GLU SEQRES 7 B 495 SER ALA GLY PHE GLY TRP GLU PHE ASP GLY SER SER VAL SEQRES 8 B 495 LYS ALA ASN TRP LYS LYS LEU ILE ALA ALA LYS ASN GLU SEQRES 9 B 495 ALA VAL LEU ASP ILE ASN LYS SER TYR GLU GLY MET PHE SEQRES 10 B 495 ASN ASP THR GLU GLY LEU ASP PHE PHE LEU GLY TRP GLY SEQRES 11 B 495 SER LEU GLU SER LYS ASN VAL VAL VAL VAL ARG GLU THR SEQRES 12 B 495 ALA ASP PRO LYS SER ALA VAL LYS GLU ARG LEU GLN ALA SEQRES 13 B 495 ASP HIS ILE LEU LEU ALA THR GLY SER TRP PRO GLN MET SEQRES 14 B 495 PRO ALA ILE PRO GLY ILE GLU HIS CYS ILE SER SER ASN SEQRES 15 B 495 GLU ALA PHE TYR LEU PRO GLU PRO PRO ARG ARG VAL LEU SEQRES 16 B 495 THR VAL GLY GLY GLY PHE ILE SER VAL GLU PHE ALA GLY SEQRES 17 B 495 ILE PHE ASN ALA TYR LYS PRO PRO GLY GLY LYS VAL THR SEQRES 18 B 495 LEU CYS TYR ARG ASN ASN LEU ILE LEU ARG GLY PHE ASP SEQRES 19 B 495 GLU THR ILE ARG GLU GLU VAL THR LYS GLN LEU THR ALA SEQRES 20 B 495 ASN GLY ILE GLU ILE MET THR ASN GLU ASN PRO ALA LYS SEQRES 21 B 495 VAL SER LEU ASN THR ASP GLY SER LYS HIS VAL THR PHE SEQRES 22 B 495 GLU SER GLY LYS THR LEU ASP VAL ASP VAL VAL MET MET SEQRES 23 B 495 ALA ILE GLY ARG ILE PRO ARG THR ASN ASP LEU GLN LEU SEQRES 24 B 495 GLY ASN VAL GLY VAL LYS LEU THR PRO LYS GLY GLY VAL SEQRES 25 B 495 GLN VAL ASP GLU PHE SER ARG THR ASN VAL PRO ASN ILE SEQRES 26 B 495 TYR ALA ILE GLY ASP ILE THR ASP ARG LEU MET LEU THR SEQRES 27 B 495 PRO VAL ALA ILE ASN GLU GLY ALA ALA LEU VAL ASP THR SEQRES 28 B 495 VAL PHE GLY ASN LYS PRO ARG LYS THR ASP HIS THR ARG SEQRES 29 B 495 VAL ALA SER ALA VAL PHE SER ILE PRO PRO ILE GLY THR SEQRES 30 B 495 CYS GLY LEU ILE GLU GLU VAL ALA ALA LYS GLU PHE GLU SEQRES 31 B 495 LYS VAL ALA VAL TYR MET SER SER PHE THR PRO LEU MET SEQRES 32 B 495 HIS ASN ILE SER GLY SER LYS TYR LYS LYS PHE VAL ALA SEQRES 33 B 495 LYS ILE VAL THR ASN HIS SER ASP GLY THR VAL LEU GLY SEQRES 34 B 495 VAL HIS LEU LEU GLY ASP GLY ALA PRO GLU ILE ILE GLN SEQRES 35 B 495 ALA VAL GLY VAL CYS LEU ARG LEU ASN ALA LYS ILE SER SEQRES 36 B 495 ASP PHE TYR ASN THR ILE GLY VAL HIS PRO THR SER ALA SEQRES 37 B 495 GLU GLU LEU CYS SER MET ARG THR PRO SER TYR TYR TYR SEQRES 38 B 495 VAL LYS GLY GLU LYS MET GLU LYS LEU PRO ASP SER ASN SEQRES 39 B 495 LEU SEQRES 1 A 495 GLY SER HIS MET SER LYS ALA PHE ASP LEU VAL VAL ILE SEQRES 2 A 495 GLY ALA GLY SER GLY GLY LEU GLU ALA GLY TRP ASN ALA SEQRES 3 A 495 ALA THR LEU TYR GLY LYS ARG VAL ALA VAL VAL ASP VAL SEQRES 4 A 495 GLN THR SER HIS GLY PRO PRO PHE TYR ALA ALA LEU GLY SEQRES 5 A 495 GLY THR CYS VAL ASN VAL GLY CYS VAL PRO LYS LYS LEU SEQRES 6 A 495 MET VAL THR GLY ALA GLN TYR MET ASP HIS LEU ARG GLU SEQRES 7 A 495 SER ALA GLY PHE GLY TRP GLU PHE ASP GLY SER SER VAL SEQRES 8 A 495 LYS ALA ASN TRP LYS LYS LEU ILE ALA ALA LYS ASN GLU SEQRES 9 A 495 ALA VAL LEU ASP ILE ASN LYS SER TYR GLU GLY MET PHE SEQRES 10 A 495 ASN ASP THR GLU GLY LEU ASP PHE PHE LEU GLY TRP GLY SEQRES 11 A 495 SER LEU GLU SER LYS ASN VAL VAL VAL VAL ARG GLU THR SEQRES 12 A 495 ALA ASP PRO LYS SER ALA VAL LYS GLU ARG LEU GLN ALA SEQRES 13 A 495 ASP HIS ILE LEU LEU ALA THR GLY SER TRP PRO GLN MET SEQRES 14 A 495 PRO ALA ILE PRO GLY ILE GLU HIS CYS ILE SER SER ASN SEQRES 15 A 495 GLU ALA PHE TYR LEU PRO GLU PRO PRO ARG ARG VAL LEU SEQRES 16 A 495 THR VAL GLY GLY GLY PHE ILE SER VAL GLU PHE ALA GLY SEQRES 17 A 495 ILE PHE ASN ALA TYR LYS PRO PRO GLY GLY LYS VAL THR SEQRES 18 A 495 LEU CYS TYR ARG ASN ASN LEU ILE LEU ARG GLY PHE ASP SEQRES 19 A 495 GLU THR ILE ARG GLU GLU VAL THR LYS GLN LEU THR ALA SEQRES 20 A 495 ASN GLY ILE GLU ILE MET THR ASN GLU ASN PRO ALA LYS SEQRES 21 A 495 VAL SER LEU ASN THR ASP GLY SER LYS HIS VAL THR PHE SEQRES 22 A 495 GLU SER GLY LYS THR LEU ASP VAL ASP VAL VAL MET MET SEQRES 23 A 495 ALA ILE GLY ARG ILE PRO ARG THR ASN ASP LEU GLN LEU SEQRES 24 A 495 GLY ASN VAL GLY VAL LYS LEU THR PRO LYS GLY GLY VAL SEQRES 25 A 495 GLN VAL ASP GLU PHE SER ARG THR ASN VAL PRO ASN ILE SEQRES 26 A 495 TYR ALA ILE GLY ASP ILE THR ASP ARG LEU MET LEU THR SEQRES 27 A 495 PRO VAL ALA ILE ASN GLU GLY ALA ALA LEU VAL ASP THR SEQRES 28 A 495 VAL PHE GLY ASN LYS PRO ARG LYS THR ASP HIS THR ARG SEQRES 29 A 495 VAL ALA SER ALA VAL PHE SER ILE PRO PRO ILE GLY THR SEQRES 30 A 495 CYS GLY LEU ILE GLU GLU VAL ALA ALA LYS GLU PHE GLU SEQRES 31 A 495 LYS VAL ALA VAL TYR MET SER SER PHE THR PRO LEU MET SEQRES 32 A 495 HIS ASN ILE SER GLY SER LYS TYR LYS LYS PHE VAL ALA SEQRES 33 A 495 LYS ILE VAL THR ASN HIS SER ASP GLY THR VAL LEU GLY SEQRES 34 A 495 VAL HIS LEU LEU GLY ASP GLY ALA PRO GLU ILE ILE GLN SEQRES 35 A 495 ALA VAL GLY VAL CYS LEU ARG LEU ASN ALA LYS ILE SER SEQRES 36 A 495 ASP PHE TYR ASN THR ILE GLY VAL HIS PRO THR SER ALA SEQRES 37 A 495 GLU GLU LEU CYS SER MET ARG THR PRO SER TYR TYR TYR SEQRES 38 A 495 VAL LYS GLY GLU LYS MET GLU LYS LEU PRO ASP SER ASN SEQRES 39 A 495 LEU HET FAD B 501 53 HET EPE B 502 15 HET M9J B 503 40 HET FAD A 501 53 HET EPE A 502 15 HET M9J A 503 40 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETNAM M9J N-(CYCLOBUTYLMETHYL)-3-{5-[1-(PYRROLIDIN-1-YL) HETNAM 2 M9J CYCLOHEXYL]-2-(1-{[(2S)-PYRROLIDIN-2-YL]METHYL}-1H- HETNAM 3 M9J INDOL-5-YL)-1,3-THIAZOL-4-YL}PROP-2-YN-1-AMINE HETSYN EPE HEPES FORMUL 3 FAD 2(C27 H33 N9 O15 P2) FORMUL 4 EPE 2(C8 H18 N2 O4 S) FORMUL 5 M9J 2(C34 H45 N5 S) FORMUL 9 HOH *204(H2 O) HELIX 1 AA1 GLY B 13 GLY B 28 1 16 HELIX 2 AA2 GLY B 49 GLY B 56 1 8 HELIX 3 AA3 GLY B 56 GLN B 68 1 13 HELIX 4 AA4 GLN B 68 SER B 76 1 9 HELIX 5 AA5 ALA B 77 PHE B 79 5 3 HELIX 6 AA6 ASP B 84 VAL B 88 5 5 HELIX 7 AA7 ASN B 91 THR B 117 1 27 HELIX 8 AA8 GLY B 171 CYS B 175 5 5 HELIX 9 AA9 SER B 177 PHE B 182 1 6 HELIX 10 AB1 GLY B 197 LYS B 211 1 15 HELIX 11 AB2 ASP B 231 ASN B 245 1 15 HELIX 12 AB3 GLN B 295 GLY B 300 1 6 HELIX 13 AB4 GLY B 326 ASP B 330 5 5 HELIX 14 AB5 LEU B 334 GLY B 351 1 18 HELIX 15 AB6 ILE B 378 PHE B 386 1 9 HELIX 16 AB7 PRO B 398 GLY B 405 1 8 HELIX 17 AB8 GLY B 433 LEU B 447 1 15 HELIX 18 AB9 LYS B 450 ASN B 456 1 7 HELIX 19 AC1 SER B 464 SER B 470 5 7 HELIX 20 AC2 GLY A 13 LEU A 26 1 14 HELIX 21 AC3 GLY A 50 GLY A 56 1 7 HELIX 22 AC4 GLY A 56 SER A 76 1 21 HELIX 23 AC5 ALA A 77 PHE A 79 5 3 HELIX 24 AC6 ASP A 84 VAL A 88 5 5 HELIX 25 AC7 ASN A 91 ASP A 116 1 26 HELIX 26 AC8 GLY A 171 CYS A 175 5 5 HELIX 27 AC9 SER A 177 PHE A 182 1 6 HELIX 28 AD1 GLY A 197 LYS A 211 1 15 HELIX 29 AD2 ASP A 231 ASN A 245 1 15 HELIX 30 AD3 GLN A 295 VAL A 299 5 5 HELIX 31 AD4 GLY A 326 ASP A 330 5 5 HELIX 32 AD5 LEU A 334 GLY A 351 1 18 HELIX 33 AD6 ILE A 378 LYS A 384 1 7 HELIX 34 AD7 PRO A 398 ILE A 403 5 6 HELIX 35 AD8 GLY A 433 LEU A 447 1 15 HELIX 36 AD9 LYS A 450 ASN A 456 1 7 HELIX 37 AE1 SER A 464 SER A 470 5 7 SHEET 1 AA1 4 ALA B 4 PHE B 5 0 SHEET 2 AA1 4 VAL B 147 ALA B 153 1 O GLN B 152 N PHE B 5 SHEET 3 AA1 4 VAL B 134 ARG B 138 -1 N VAL B 137 O LYS B 148 SHEET 4 AA1 4 TRP B 126 SER B 131 -1 N TRP B 126 O ARG B 138 SHEET 1 AA2 5 LEU B 120 LEU B 124 0 SHEET 2 AA2 5 VAL B 31 ASP B 35 1 N VAL B 33 O PHE B 123 SHEET 3 AA2 5 LEU B 7 ILE B 10 1 N VAL B 9 O ALA B 32 SHEET 4 AA2 5 ILE B 156 LEU B 158 1 O LEU B 157 N ILE B 10 SHEET 5 AA2 5 ILE B 322 ALA B 324 1 O TYR B 323 N LEU B 158 SHEET 1 AA3 2 TRP B 81 GLU B 82 0 SHEET 2 AA3 2 LYS A 89 ALA A 90 -1 O LYS A 89 N GLU B 82 SHEET 1 AA4 2 LYS B 89 ALA B 90 0 SHEET 2 AA4 2 TRP A 81 GLU A 82 -1 O GLU A 82 N LYS B 89 SHEET 1 AA5 2 SER B 162 PRO B 164 0 SHEET 2 AA5 2 ARG B 287 PRO B 289 -1 O ILE B 288 N TRP B 163 SHEET 1 AA6 4 GLU B 248 THR B 251 0 SHEET 2 AA6 4 LYS B 216 TYR B 221 1 N LEU B 219 O MET B 250 SHEET 3 AA6 4 ARG B 190 VAL B 194 1 N VAL B 191 O THR B 218 SHEET 4 AA6 4 VAL B 280 MET B 283 1 O MET B 282 N VAL B 194 SHEET 1 AA7 3 PRO B 255 LEU B 260 0 SHEET 2 AA7 3 LYS B 266 PHE B 270 -1 O THR B 269 N ALA B 256 SHEET 3 AA7 3 THR B 275 VAL B 278 -1 O VAL B 278 N LYS B 266 SHEET 1 AA8 7 ALA B 363 VAL B 366 0 SHEET 2 AA8 7 ILE B 372 GLY B 376 -1 O ILE B 372 N VAL B 366 SHEET 3 AA8 7 VAL B 424 LEU B 430 -1 O LEU B 429 N GLY B 373 SHEET 4 AA8 7 PHE B 411 ASN B 418 -1 N VAL B 416 O GLY B 426 SHEET 5 AA8 7 LYS B 388 PHE B 396 -1 N PHE B 396 O PHE B 411 SHEET 6 AA8 7 TYR B 476 VAL B 479 -1 O TYR B 478 N VAL B 389 SHEET 7 AA8 7 GLU B 482 MET B 484 -1 O MET B 484 N TYR B 477 SHEET 1 AA9 5 LEU A 120 LEU A 124 0 SHEET 2 AA9 5 VAL A 31 ASP A 35 1 N VAL A 33 O PHE A 123 SHEET 3 AA9 5 LEU A 7 ILE A 10 1 N VAL A 9 O ALA A 32 SHEET 4 AA9 5 ILE A 156 LEU A 158 1 O LEU A 157 N VAL A 8 SHEET 5 AA9 5 ILE A 322 ALA A 324 1 O TYR A 323 N LEU A 158 SHEET 1 AB1 3 TRP A 126 SER A 131 0 SHEET 2 AB1 3 VAL A 134 ARG A 138 -1 O ARG A 138 N TRP A 126 SHEET 3 AB1 3 VAL A 147 GLN A 152 -1 O LYS A 148 N VAL A 137 SHEET 1 AB2 2 SER A 162 PRO A 164 0 SHEET 2 AB2 2 ARG A 287 PRO A 289 -1 O ILE A 288 N TRP A 163 SHEET 1 AB3 4 GLU A 248 THR A 251 0 SHEET 2 AB3 4 LYS A 216 TYR A 221 1 N LEU A 219 O MET A 250 SHEET 3 AB3 4 ARG A 190 VAL A 194 1 N VAL A 191 O THR A 218 SHEET 4 AB3 4 VAL A 280 MET A 283 1 O MET A 282 N VAL A 194 SHEET 1 AB4 3 PRO A 255 LEU A 260 0 SHEET 2 AB4 3 LYS A 266 PHE A 270 -1 O THR A 269 N ALA A 256 SHEET 3 AB4 3 THR A 275 VAL A 278 -1 O LEU A 276 N VAL A 268 SHEET 1 AB5 7 ALA A 363 VAL A 366 0 SHEET 2 AB5 7 ILE A 372 GLY A 376 -1 O ILE A 372 N VAL A 366 SHEET 3 AB5 7 VAL A 424 LEU A 430 -1 O LEU A 429 N GLY A 373 SHEET 4 AB5 7 PHE A 411 ASN A 418 -1 N VAL A 416 O LEU A 425 SHEET 5 AB5 7 LYS A 388 PHE A 396 -1 N PHE A 396 O PHE A 411 SHEET 6 AB5 7 TYR A 476 VAL A 479 -1 O TYR A 478 N VAL A 389 SHEET 7 AB5 7 GLU A 482 MET A 484 -1 O MET A 484 N TYR A 477 SSBOND 1 CYS B 52 CYS B 57 1555 1555 2.04 SSBOND 2 CYS A 52 CYS A 57 1555 1555 2.03 CISPEP 1 PRO B 42 PRO B 43 0 1.52 CISPEP 2 ILE B 369 PRO B 370 0 -5.77 CISPEP 3 HIS B 461 PRO B 462 0 -6.74 CISPEP 4 PRO A 42 PRO A 43 0 1.87 CISPEP 5 ILE A 369 PRO A 370 0 6.81 CISPEP 6 HIS A 461 PRO A 462 0 -8.77 SITE 1 AC1 37 HIS A 461 HOH A 660 ILE B 10 GLY B 11 SITE 2 AC1 37 GLY B 13 SER B 14 GLY B 15 VAL B 34 SITE 3 AC1 37 ASP B 35 ALA B 46 ALA B 47 GLY B 50 SITE 4 AC1 37 THR B 51 CYS B 52 GLY B 56 CYS B 57 SITE 5 AC1 37 LYS B 60 GLY B 125 TRP B 126 GLY B 127 SITE 6 AC1 37 ALA B 159 THR B 160 GLY B 161 ARG B 287 SITE 7 AC1 37 ARG B 290 GLY B 326 ASP B 327 MET B 333 SITE 8 AC1 37 LEU B 334 THR B 335 PRO B 336 HOH B 604 SITE 9 AC1 37 HOH B 632 HOH B 645 HOH B 647 HOH B 663 SITE 10 AC1 37 HOH B 666 SITE 1 AC2 8 ASN B 91 LYS B 93 THR B 140 ALA B 141 SITE 2 AC2 8 TRP B 163 ARG B 290 ASP B 293 HOH B 601 SITE 1 AC3 7 HIS A 461 TRP B 21 VAL B 58 SER B 109 SITE 2 AC3 7 TYR B 110 MET B 113 ASP B 116 SITE 1 AC4 35 ILE A 10 GLY A 11 GLY A 13 SER A 14 SITE 2 AC4 35 GLY A 15 VAL A 34 ASP A 35 ALA A 46 SITE 3 AC4 35 ALA A 47 GLY A 50 THR A 51 CYS A 52 SITE 4 AC4 35 GLY A 56 CYS A 57 LYS A 60 GLY A 125 SITE 5 AC4 35 TRP A 126 GLY A 127 ALA A 159 THR A 160 SITE 6 AC4 35 GLY A 161 ARG A 287 ARG A 290 GLY A 326 SITE 7 AC4 35 ASP A 327 MET A 333 LEU A 334 THR A 335 SITE 8 AC4 35 PRO A 336 HOH A 625 HOH A 633 HOH A 658 SITE 9 AC4 35 HOH A 670 HIS B 461 HOH B 659 SITE 1 AC5 11 PHE A 396 PRO A 398 LEU A 399 PRO A 462 SITE 2 AC5 11 THR A 463 SER A 464 GLU A 466 GLU A 467 SITE 3 AC5 11 SER A 470 HOH A 662 LYS B 61 SITE 1 AC6 9 LEU A 17 GLU A 18 TRP A 21 TYR A 110 SITE 2 AC6 9 GLY A 112 MET A 113 ASP A 116 ILE A 339 SITE 3 AC6 9 HIS B 461 CRYST1 117.526 117.526 224.522 90.00 90.00 90.00 P 43 21 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 0.008509 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008509 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004454 0.00000