HEADER HYDROLASE 27-DEC-17 6FDW TITLE CRYSTAL STRUCTURE OF T. BRUCEI PDE-B1 CATALYTIC DOMAIN WITH INHIBITOR TITLE 2 NPD-356 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHODIESTERASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.1.4.-; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: RESIDUES 565-918 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI; SOURCE 3 ORGANISM_TAXID: 5691; SOURCE 4 GENE: PDEB1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS PARASITIC PHOSPHODIESTERASE, HYDROLASE, AFRICAN TRYPANOSOMIASIS, KEYWDS 2 SLEEPING SICKNESS EXPDTA X-RAY DIFFRACTION AUTHOR A.K.SINGH,D.G.BROWN REVDAT 2 17-JAN-24 6FDW 1 LINK REVDAT 1 10-APR-19 6FDW 0 JRNL AUTH I.G.SALADO,C.MORENO,G.SAKAINE,A.K.SINGH,A.R.BLAAZER, JRNL AUTH 2 M.SIDERIUS,A.MATHEEUSSEN,S.GUL,L.MAES,R.LEURS,D.G.BROWN, JRNL AUTH 3 K.AUGUSTYNS JRNL TITL TBRPDEB1 STRUCTURE WITH INHIBITOR NPD-356 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.96 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0189 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.96 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.91 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 57112 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3068 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.96 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.01 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4263 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.80 REMARK 3 BIN R VALUE (WORKING SET) : 0.3610 REMARK 3 BIN FREE R VALUE SET COUNT : 214 REMARK 3 BIN FREE R VALUE : 0.3480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5252 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 88 REMARK 3 SOLVENT ATOMS : 232 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.32 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.64000 REMARK 3 B22 (A**2) : -0.56000 REMARK 3 B33 (A**2) : -2.56000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.07000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.152 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.148 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.148 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.708 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5453 ; 0.017 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5042 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7384 ; 1.796 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11663 ; 1.078 ; 2.984 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 663 ; 6.276 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 259 ;34.987 ;24.054 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 933 ;16.810 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;16.444 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 830 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6080 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1144 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2658 ; 4.658 ; 5.097 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2657 ; 4.655 ; 5.095 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3319 ; 6.398 ; 7.625 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3320 ; 6.399 ; 7.628 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2795 ; 5.002 ; 5.453 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2796 ; 5.001 ; 5.453 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4066 ; 7.118 ; 8.015 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6426 ; 9.105 ;60.629 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6408 ; 9.105 ;60.609 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 6FDW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-DEC-17. REMARK 100 THE DEPOSITION ID IS D_1200008150. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-FEB-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97625 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : CRL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.31 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60184 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.960 REMARK 200 RESOLUTION RANGE LOW (A) : 33.910 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.96 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.01 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.93700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.400 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: 4I15 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.4 M SODIUM FORMATE, REMARK 280 0.3 M GUANIDINE, 0.1 M MES, PH 6.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 277K 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 55.84500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 59.63000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 55.84500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 59.63000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 HOH A1152 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 559 REMARK 465 SER A 560 REMARK 465 HIS A 561 REMARK 465 MET A 562 REMARK 465 ALA A 563 REMARK 465 SER A 564 REMARK 465 GLU A 565 REMARK 465 LEU A 566 REMARK 465 ASN A 567 REMARK 465 GLU A 568 REMARK 465 HIS A 569 REMARK 465 ARG A 570 REMARK 465 ALA A 571 REMARK 465 THR A 572 REMARK 465 LEU A 573 REMARK 465 PHE A 574 REMARK 465 ASN A 575 REMARK 465 LYS A 576 REMARK 465 ASN A 577 REMARK 465 VAL A 578 REMARK 465 PRO A 579 REMARK 465 SER A 580 REMARK 465 ARG A 581 REMARK 465 ALA A 582 REMARK 465 VAL A 583 REMARK 465 LYS A 584 REMARK 465 ARG A 585 REMARK 465 GLY B 559 REMARK 465 SER B 560 REMARK 465 HIS B 561 REMARK 465 MET B 562 REMARK 465 ALA B 563 REMARK 465 SER B 564 REMARK 465 GLU B 565 REMARK 465 LEU B 566 REMARK 465 ASN B 567 REMARK 465 GLU B 568 REMARK 465 HIS B 569 REMARK 465 ARG B 570 REMARK 465 ALA B 571 REMARK 465 THR B 572 REMARK 465 LEU B 573 REMARK 465 PHE B 574 REMARK 465 ASN B 575 REMARK 465 LYS B 576 REMARK 465 ASN B 577 REMARK 465 VAL B 578 REMARK 465 PRO B 579 REMARK 465 SER B 580 REMARK 465 ARG B 581 REMARK 465 ALA B 582 REMARK 465 VAL B 583 REMARK 465 LYS B 584 REMARK 465 ARG B 585 REMARK 465 THR B 917 REMARK 465 ARG B 918 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 623 73.73 -116.62 REMARK 500 ASP A 710 40.99 -140.63 REMARK 500 VAL A 881 -67.30 -120.38 REMARK 500 CYS A 893 -5.67 -170.73 REMARK 500 LEU A 894 55.51 -101.26 REMARK 500 THR B 587 116.79 -17.13 REMARK 500 LYS B 623 69.44 -115.29 REMARK 500 TYR B 668 -59.17 -121.71 REMARK 500 LEU B 711 129.28 -37.14 REMARK 500 ASP B 801 60.93 -154.03 REMARK 500 ASP B 805 88.09 -150.97 REMARK 500 ASN B 867 47.68 30.00 REMARK 500 VAL B 881 -65.97 -128.10 REMARK 500 CYS B 893 -11.08 -168.32 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 ZN A1002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 673 NE2 REMARK 620 2 HIS A 709 NE2 93.9 REMARK 620 3 ASP A 710 OD2 106.2 76.0 REMARK 620 4 ASP A 822 OD1 89.9 91.3 159.9 REMARK 620 5 HOH A1105 O 164.3 101.8 77.4 90.3 REMARK 620 6 HOH A1165 O 90.3 172.6 108.7 82.6 74.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1003 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 710 OD1 REMARK 620 2 HOH A1105 O 87.8 REMARK 620 3 HOH A1107 O 78.7 102.8 REMARK 620 4 HOH A1134 O 80.9 157.7 93.8 REMARK 620 5 HOH A1140 O 162.3 105.5 86.9 90.0 REMARK 620 6 HOH A1193 O 101.8 83.8 173.4 79.8 91.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 673 NE2 REMARK 620 2 HIS B 709 NE2 93.1 REMARK 620 3 ASP B 710 OD2 96.7 81.9 REMARK 620 4 ASP B 822 OD1 86.8 91.0 172.2 REMARK 620 5 HOH B1109 O 172.4 94.4 85.4 92.0 REMARK 620 6 HOH B1158 O 93.5 170.7 103.8 82.9 79.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1003 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 710 OD1 REMARK 620 2 HOH B1107 O 75.9 REMARK 620 3 HOH B1109 O 93.3 95.3 REMARK 620 4 HOH B1146 O 164.1 89.1 93.4 REMARK 620 5 HOH B1166 O 91.3 85.8 175.4 82.1 REMARK 620 6 HOH B1182 O 105.5 174.0 90.4 88.8 88.4 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue D62 A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GAI 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 D62 B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 1003 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6FDI RELATED DB: PDB REMARK 900 RELATED ID: 6FDS RELATED DB: PDB DBREF 6FDW A 565 918 UNP Q8WQX9 Q8WQX9_9TRYP 565 918 DBREF 6FDW B 565 918 UNP Q8WQX9 Q8WQX9_9TRYP 565 918 SEQADV 6FDW GLY A 559 UNP Q8WQX9 EXPRESSION TAG SEQADV 6FDW SER A 560 UNP Q8WQX9 EXPRESSION TAG SEQADV 6FDW HIS A 561 UNP Q8WQX9 EXPRESSION TAG SEQADV 6FDW MET A 562 UNP Q8WQX9 EXPRESSION TAG SEQADV 6FDW ALA A 563 UNP Q8WQX9 EXPRESSION TAG SEQADV 6FDW SER A 564 UNP Q8WQX9 EXPRESSION TAG SEQADV 6FDW GLY B 559 UNP Q8WQX9 EXPRESSION TAG SEQADV 6FDW SER B 560 UNP Q8WQX9 EXPRESSION TAG SEQADV 6FDW HIS B 561 UNP Q8WQX9 EXPRESSION TAG SEQADV 6FDW MET B 562 UNP Q8WQX9 EXPRESSION TAG SEQADV 6FDW ALA B 563 UNP Q8WQX9 EXPRESSION TAG SEQADV 6FDW SER B 564 UNP Q8WQX9 EXPRESSION TAG SEQRES 1 A 360 GLY SER HIS MET ALA SER GLU LEU ASN GLU HIS ARG ALA SEQRES 2 A 360 THR LEU PHE ASN LYS ASN VAL PRO SER ARG ALA VAL LYS SEQRES 3 A 360 ARG VAL THR ALA ILE THR LYS VAL GLU ARG GLU ALA VAL SEQRES 4 A 360 LEU VAL CYS GLU LEU PRO SER PHE ASP VAL THR ASP VAL SEQRES 5 A 360 GLU PHE ASP LEU PHE ARG ALA ARG GLU SER THR ASP LYS SEQRES 6 A 360 PRO LEU ASP VAL ALA ALA ALA ILE ALA TYR ARG LEU LEU SEQRES 7 A 360 LEU GLY SER GLY LEU PRO GLN LYS PHE GLY CYS SER ASP SEQRES 8 A 360 GLU VAL LEU LEU ASN PHE ILE LEU GLN CYS ARG LYS LYS SEQRES 9 A 360 TYR ARG ASN VAL PRO TYR HIS ASN PHE TYR HIS VAL VAL SEQRES 10 A 360 ASP VAL CYS GLN THR ILE HIS THR PHE LEU TYR ARG GLY SEQRES 11 A 360 ASN VAL TYR GLU LYS LEU THR GLU LEU GLU CYS PHE VAL SEQRES 12 A 360 LEU LEU ILE THR ALA LEU VAL HIS ASP LEU ASP HIS MET SEQRES 13 A 360 GLY LEU ASN ASN SER PHE TYR LEU LYS THR GLU SER PRO SEQRES 14 A 360 LEU GLY ILE LEU SER SER ALA SER GLY ASN THR SER VAL SEQRES 15 A 360 LEU GLU VAL HIS HIS CYS ASN LEU ALA VAL GLU ILE LEU SEQRES 16 A 360 SER ASP PRO GLU SER ASP VAL PHE ASP GLY LEU GLU GLY SEQRES 17 A 360 ALA GLU ARG THR LEU ALA PHE ARG SER MET ILE ASP CYS SEQRES 18 A 360 VAL LEU ALA THR ASP MET ALA LYS HIS GLY SER ALA LEU SEQRES 19 A 360 GLU ALA PHE LEU ALA SER ALA ALA ASP GLN SER SER ASP SEQRES 20 A 360 GLU ALA ALA PHE HIS ARG MET THR MET GLU ILE ILE LEU SEQRES 21 A 360 LYS ALA GLY ASP ILE SER ASN VAL THR LYS PRO PHE ASP SEQRES 22 A 360 ILE SER ARG GLN TRP ALA MET ALA VAL THR GLU GLU PHE SEQRES 23 A 360 TYR ARG GLN GLY ASP MET GLU LYS GLU ARG GLY VAL GLU SEQRES 24 A 360 VAL LEU PRO MET PHE ASP ARG SER LYS ASN MET GLU LEU SEQRES 25 A 360 ALA LYS GLY GLN ILE GLY PHE ILE ASP PHE VAL ALA ALA SEQRES 26 A 360 PRO PHE PHE GLN LYS ILE VAL ASP ALA CYS LEU GLN GLY SEQRES 27 A 360 MET GLN TRP THR VAL ASP ARG ILE LYS SER ASN ARG ALA SEQRES 28 A 360 GLN TRP GLU ARG VAL LEU GLU THR ARG SEQRES 1 B 360 GLY SER HIS MET ALA SER GLU LEU ASN GLU HIS ARG ALA SEQRES 2 B 360 THR LEU PHE ASN LYS ASN VAL PRO SER ARG ALA VAL LYS SEQRES 3 B 360 ARG VAL THR ALA ILE THR LYS VAL GLU ARG GLU ALA VAL SEQRES 4 B 360 LEU VAL CYS GLU LEU PRO SER PHE ASP VAL THR ASP VAL SEQRES 5 B 360 GLU PHE ASP LEU PHE ARG ALA ARG GLU SER THR ASP LYS SEQRES 6 B 360 PRO LEU ASP VAL ALA ALA ALA ILE ALA TYR ARG LEU LEU SEQRES 7 B 360 LEU GLY SER GLY LEU PRO GLN LYS PHE GLY CYS SER ASP SEQRES 8 B 360 GLU VAL LEU LEU ASN PHE ILE LEU GLN CYS ARG LYS LYS SEQRES 9 B 360 TYR ARG ASN VAL PRO TYR HIS ASN PHE TYR HIS VAL VAL SEQRES 10 B 360 ASP VAL CYS GLN THR ILE HIS THR PHE LEU TYR ARG GLY SEQRES 11 B 360 ASN VAL TYR GLU LYS LEU THR GLU LEU GLU CYS PHE VAL SEQRES 12 B 360 LEU LEU ILE THR ALA LEU VAL HIS ASP LEU ASP HIS MET SEQRES 13 B 360 GLY LEU ASN ASN SER PHE TYR LEU LYS THR GLU SER PRO SEQRES 14 B 360 LEU GLY ILE LEU SER SER ALA SER GLY ASN THR SER VAL SEQRES 15 B 360 LEU GLU VAL HIS HIS CYS ASN LEU ALA VAL GLU ILE LEU SEQRES 16 B 360 SER ASP PRO GLU SER ASP VAL PHE ASP GLY LEU GLU GLY SEQRES 17 B 360 ALA GLU ARG THR LEU ALA PHE ARG SER MET ILE ASP CYS SEQRES 18 B 360 VAL LEU ALA THR ASP MET ALA LYS HIS GLY SER ALA LEU SEQRES 19 B 360 GLU ALA PHE LEU ALA SER ALA ALA ASP GLN SER SER ASP SEQRES 20 B 360 GLU ALA ALA PHE HIS ARG MET THR MET GLU ILE ILE LEU SEQRES 21 B 360 LYS ALA GLY ASP ILE SER ASN VAL THR LYS PRO PHE ASP SEQRES 22 B 360 ILE SER ARG GLN TRP ALA MET ALA VAL THR GLU GLU PHE SEQRES 23 B 360 TYR ARG GLN GLY ASP MET GLU LYS GLU ARG GLY VAL GLU SEQRES 24 B 360 VAL LEU PRO MET PHE ASP ARG SER LYS ASN MET GLU LEU SEQRES 25 B 360 ALA LYS GLY GLN ILE GLY PHE ILE ASP PHE VAL ALA ALA SEQRES 26 B 360 PRO PHE PHE GLN LYS ILE VAL ASP ALA CYS LEU GLN GLY SEQRES 27 B 360 MET GLN TRP THR VAL ASP ARG ILE LYS SER ASN ARG ALA SEQRES 28 B 360 GLN TRP GLU ARG VAL LEU GLU THR ARG HET D62 A1001 37 HET ZN A1002 1 HET MG A1003 1 HET GAI A1004 4 HET GOL A1005 6 HET D62 B1001 37 HET ZN B1002 1 HET MG B1003 1 HETNAM D62 (4AS,8AR)-2-(1-{2-AMINOTHIENO[2,3-D]PYRIMIDIN-4- HETNAM 2 D62 YL}PIPERIDIN-4-YL)-4-(3,4- DIMETHOXYPHENYL)-1,2,4A,5, HETNAM 3 D62 8,8A-HEXAHYDROPHTHALAZIN-1-ONE HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION HETNAM GAI GUANIDINE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 D62 2(C27 H30 N6 O3 S) FORMUL 4 ZN 2(ZN 2+) FORMUL 5 MG 2(MG 2+) FORMUL 6 GAI C H5 N3 FORMUL 7 GOL C3 H8 O3 FORMUL 11 HOH *232(H2 O) HELIX 1 AA1 THR A 590 CYS A 600 1 11 HELIX 2 AA2 ASP A 613 SER A 620 1 8 HELIX 3 AA3 LYS A 623 GLY A 640 1 18 HELIX 4 AA4 GLY A 640 PHE A 645 1 6 HELIX 5 AA5 SER A 648 LYS A 661 1 14 HELIX 6 AA6 ASN A 670 ARG A 687 1 18 HELIX 7 AA7 ASN A 689 LEU A 694 5 6 HELIX 8 AA8 THR A 695 HIS A 709 1 15 HELIX 9 AA9 ASN A 717 THR A 724 1 8 HELIX 10 AB1 SER A 726 SER A 735 1 10 HELIX 11 AB2 SER A 739 SER A 754 1 16 HELIX 12 AB3 ASP A 755 ASP A 759 5 5 HELIX 13 AB4 GLU A 765 ALA A 782 1 18 HELIX 14 AB5 THR A 783 ALA A 786 5 4 HELIX 15 AB6 LYS A 787 ASP A 801 1 15 HELIX 16 AB7 ASP A 805 ILE A 823 1 19 HELIX 17 AB8 SER A 824 LYS A 828 5 5 HELIX 18 AB9 PRO A 829 ARG A 854 1 26 HELIX 19 AC1 LEU A 859 ASP A 863 5 5 HELIX 20 AC2 GLU A 869 VAL A 881 1 13 HELIX 21 AC3 VAL A 881 CYS A 893 1 13 HELIX 22 AC4 LEU A 894 GLY A 896 5 3 HELIX 23 AC5 MET A 897 THR A 917 1 21 HELIX 24 AC6 THR B 590 VAL B 599 1 10 HELIX 25 AC7 ASP B 613 SER B 620 1 8 HELIX 26 AC8 LYS B 623 SER B 639 1 17 HELIX 27 AC9 GLY B 640 PHE B 645 1 6 HELIX 28 AD1 SER B 648 LYS B 662 1 15 HELIX 29 AD2 ASN B 670 ARG B 687 1 18 HELIX 30 AD3 ASN B 689 LEU B 694 5 6 HELIX 31 AD4 THR B 695 HIS B 709 1 15 HELIX 32 AD5 ASN B 717 THR B 724 1 8 HELIX 33 AD6 SER B 726 GLY B 736 1 11 HELIX 34 AD7 SER B 739 ASP B 755 1 17 HELIX 35 AD8 PRO B 756 ASP B 759 5 4 HELIX 36 AD9 GLU B 765 THR B 783 1 19 HELIX 37 AE1 ASP B 784 ALA B 786 5 3 HELIX 38 AE2 LYS B 787 ALA B 800 1 14 HELIX 39 AE3 ASP B 805 ILE B 823 1 19 HELIX 40 AE4 SER B 824 LYS B 828 5 5 HELIX 41 AE5 PRO B 829 GLY B 855 1 27 HELIX 42 AE6 LEU B 859 ASN B 867 5 9 HELIX 43 AE7 GLU B 869 VAL B 881 1 13 HELIX 44 AE8 VAL B 881 CYS B 893 1 13 HELIX 45 AE9 LEU B 894 GLY B 896 5 3 HELIX 46 AF1 MET B 897 GLU B 916 1 20 LINK NE2 HIS A 673 ZN ZN A1002 1555 1555 2.11 LINK NE2 HIS A 709 ZN ZN A1002 1555 1555 2.17 LINK OD2 ASP A 710 ZN ZN A1002 1555 1555 1.92 LINK OD1 ASP A 710 MG MG A1003 1555 1555 2.04 LINK OD1 ASP A 822 ZN ZN A1002 1555 1555 2.30 LINK ZN ZN A1002 O HOH A1105 1555 1555 1.88 LINK ZN ZN A1002 O HOH A1165 1555 1555 2.18 LINK MG MG A1003 O HOH A1105 1555 1555 2.21 LINK MG MG A1003 O HOH A1107 1555 1555 1.73 LINK MG MG A1003 O HOH A1134 1555 1555 2.06 LINK MG MG A1003 O HOH A1140 1555 1555 1.96 LINK MG MG A1003 O HOH A1193 1555 1555 2.21 LINK NE2 HIS B 673 ZN ZN B1002 1555 1555 2.09 LINK NE2 HIS B 709 ZN ZN B1002 1555 1555 2.22 LINK OD2 ASP B 710 ZN ZN B1002 1555 1555 2.09 LINK OD1 ASP B 710 MG MG B1003 1555 1555 2.06 LINK OD1 ASP B 822 ZN ZN B1002 1555 1555 2.18 LINK ZN ZN B1002 O HOH B1109 1555 1555 2.26 LINK ZN ZN B1002 O HOH B1158 1555 1555 2.12 LINK MG MG B1003 O HOH B1107 1555 1555 1.99 LINK MG MG B1003 O HOH B1109 1555 1555 2.03 LINK MG MG B1003 O HOH B1146 1555 1555 2.05 LINK MG MG B1003 O HOH B1166 1555 1555 2.01 LINK MG MG B1003 O HOH B1182 1555 1555 1.99 SITE 1 AC1 10 MET A 785 ASN A 825 ALA A 837 VAL A 840 SITE 2 AC1 10 MET A 861 GLN A 874 GLY A 876 PHE A 877 SITE 3 AC1 10 PHE A 880 VAL A 881 SITE 1 AC2 6 HIS A 673 HIS A 709 ASP A 710 ASP A 822 SITE 2 AC2 6 HOH A1105 HOH A1165 SITE 1 AC3 6 ASP A 710 HOH A1105 HOH A1107 HOH A1134 SITE 2 AC3 6 HOH A1140 HOH A1193 SITE 1 AC4 3 SER A 798 ALA A 799 ASP A 801 SITE 1 AC5 3 TYR A 691 LEU A 694 GLU A 696 SITE 1 AC6 8 MET B 785 ASN B 825 VAL B 840 MET B 861 SITE 2 AC6 8 GLN B 874 GLY B 876 HOH B1160 HOH B1167 SITE 1 AC7 6 HIS B 673 HIS B 709 ASP B 710 ASP B 822 SITE 2 AC7 6 HOH B1109 HOH B1158 SITE 1 AC8 6 ASP B 710 HOH B1107 HOH B1109 HOH B1146 SITE 2 AC8 6 HOH B1166 HOH B1182 CRYST1 111.690 119.260 67.970 90.00 108.38 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 0.008953 0.000000 0.002975 0.00000 SCALE2 0.000000 0.008385 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015503 0.00000