HEADER HYDROLASE 07-JUN-16 5L8C TITLE CRYSTAL STRUCTURE OF T. BRUCEI PDE-B1 CATALYTIC DOMAIN WITH INHIBITOR TITLE 2 NPD-039 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 PDE, AFRICAN TRYPANOSOMIASIS, SLEEPING SICKNESS, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.K.SINGH,E.S.ANTHONYRAJAH,D.G.BROWN REVDAT 3 23-MAY-18 5L8C 1 JRNL REVDAT 2 02-MAY-18 5L8C 1 JRNL REVDAT 1 14-MAR-18 5L8C 0 JRNL AUTH A.R.BLAAZER,A.K.SINGH,E.DE HEUVEL,E.EDINK,K.M.ORRLING, JRNL AUTH 2 J.J.N.VEERMAN,T.VAN DEN BERGH,C.JANSEN,E.BALASUBRAMANIAM, JRNL AUTH 3 W.J.MOOIJ,H.CUSTERS,M.SIJM,D.N.A.TAGOE,T.D.KALEJAIYE, JRNL AUTH 4 J.C.MUNDAY,H.TENOR,A.MATHEEUSSEN,M.WIJTMANS,M.SIDERIUS, JRNL AUTH 5 C.DE GRAAF,L.MAES,H.P.DE KONING,D.S.BAILEY,G.J.STERK, JRNL AUTH 6 I.J.P.DE ESCH,D.G.BROWN,R.LEURS JRNL TITL TARGETING A SUBPOCKET IN TRYPANOSOMA BRUCEI JRNL TITL 2 PHOSPHODIESTERASE B1 (TBRPDEB1) ENABLES THE STRUCTURE-BASED JRNL TITL 3 DISCOVERY OF SELECTIVE INHIBITORS WITH TRYPANOCIDAL JRNL TITL 4 ACTIVITY. JRNL REF J. MED. CHEM. V. 61 3870 2018 JRNL REFN ISSN 1520-4804 JRNL PMID 29672041 JRNL DOI 10.1021/ACS.JMEDCHEM.7B01670 REMARK 2 REMARK 2 RESOLUTION. 2.01 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 2.01 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 57.06 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 53212 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) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 2682 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) : 2.01 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.06 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3925 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.28 REMARK 3 BIN R VALUE (WORKING SET) : 0.4040 REMARK 3 BIN FREE R VALUE SET COUNT : 195 REMARK 3 BIN FREE R VALUE : 0.4340 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5260 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 122 REMARK 3 SOLVENT ATOMS : 335 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.76 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 6.71000 REMARK 3 B22 (A**2) : -0.85000 REMARK 3 B33 (A**2) : -4.24000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.10000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.174 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.159 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.202 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.835 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.955 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5478 ; 0.014 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5205 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7397 ; 1.693 ; 1.954 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11947 ; 1.300 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 663 ; 5.847 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 257 ;35.528 ;24.163 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 933 ;15.815 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;15.351 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 834 ; 0.100 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6363 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1285 ; 0.006 ; 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): 2660 ; 3.692 ; 4.616 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2661 ; 3.692 ; 4.617 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3319 ; 5.437 ; 6.908 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3320 ; 5.436 ; 6.911 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2818 ; 4.500 ; 5.098 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2818 ; 4.492 ; 5.098 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4079 ; 6.685 ; 7.469 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6682 ; 8.692 ;37.498 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6682 ; 8.689 ;37.497 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 586 916 B 586 916 40948 0.08 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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 5L8C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1200000313. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-MAR-16 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) : 0.97623 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 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55896 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.010 REMARK 200 RESOLUTION RANGE LOW (A) : 57.560 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.09400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.01 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 1.20300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.76 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 57.30000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 57.56500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 57.30000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 57.56500 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 A1143 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 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 SER A 604 12.18 84.65 REMARK 500 ASN A 670 -166.36 -111.19 REMARK 500 LYS A 866 -67.70 -93.79 REMARK 500 MET A 868 21.23 -155.15 REMARK 500 CYS A 893 -40.54 -171.28 REMARK 500 LEU A 894 55.90 -98.80 REMARK 500 ALA B 588 150.00 -49.25 REMARK 500 SER B 604 -4.50 89.39 REMARK 500 ASN B 670 -168.23 -115.81 REMARK 500 LEU B 711 126.42 -38.83 REMARK 500 GLU B 725 48.89 39.26 REMARK 500 ASP B 801 -112.60 72.11 REMARK 500 GLN B 802 -42.14 95.84 REMARK 500 ASP B 805 85.78 -160.60 REMARK 500 ASN B 867 -107.56 -49.83 REMARK 500 MET B 868 117.34 49.67 REMARK 500 VAL B 881 -70.50 -112.57 REMARK 500 CYS B 893 -39.48 -171.19 REMARK 500 LEU B 894 55.83 -100.65 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 A1001 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 85.2 79.5 REMARK 620 4 ASP A 822 OD1 91.4 89.0 167.8 REMARK 620 5 HOH A1126 O 161.7 99.8 85.5 100.8 REMARK 620 6 HOH A1166 O 87.7 178.0 99.4 92.1 78.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1002 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 710 OD1 REMARK 620 2 HOH A1170 O 168.1 REMARK 620 3 HOH A1199 O 88.9 102.7 REMARK 620 4 HOH A1203 O 96.9 81.7 86.1 REMARK 620 5 HOH A1115 O 90.4 77.8 175.4 89.4 REMARK 620 6 HOH A1126 O 88.6 94.0 88.5 172.2 96.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 673 NE2 REMARK 620 2 HIS B 709 NE2 92.1 REMARK 620 3 ASP B 710 OD2 87.1 81.4 REMARK 620 4 ASP B 822 OD1 88.7 89.6 170.0 REMARK 620 5 HOH B1186 O 95.4 170.7 104.4 85.1 REMARK 620 6 HOH B1133 O 164.3 101.7 87.6 98.7 71.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1002 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 710 OD1 REMARK 620 2 HOH B1216 O 102.3 REMARK 620 3 HOH B1128 O 83.7 173.9 REMARK 620 4 HOH B1184 O 96.9 93.9 84.8 REMARK 620 5 HOH B1191 O 163.1 94.5 79.4 82.0 REMARK 620 6 HOH B1133 O 97.6 84.7 95.1 165.3 83.6 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 ZN A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GAI A 1006 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 908 A 1007 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1008 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 1006 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 908 B 1007 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 1008 DBREF 5L8C A 565 918 UNP Q8WQX9 Q8WQX9_9TRYP 565 918 DBREF 5L8C B 565 918 UNP Q8WQX9 Q8WQX9_9TRYP 565 918 SEQADV 5L8C GLY A 559 UNP Q8WQX9 EXPRESSION TAG SEQADV 5L8C SER A 560 UNP Q8WQX9 EXPRESSION TAG SEQADV 5L8C HIS A 561 UNP Q8WQX9 EXPRESSION TAG SEQADV 5L8C MET A 562 UNP Q8WQX9 EXPRESSION TAG SEQADV 5L8C ALA A 563 UNP Q8WQX9 EXPRESSION TAG SEQADV 5L8C SER A 564 UNP Q8WQX9 EXPRESSION TAG SEQADV 5L8C GLY B 559 UNP Q8WQX9 EXPRESSION TAG SEQADV 5L8C SER B 560 UNP Q8WQX9 EXPRESSION TAG SEQADV 5L8C HIS B 561 UNP Q8WQX9 EXPRESSION TAG SEQADV 5L8C MET B 562 UNP Q8WQX9 EXPRESSION TAG SEQADV 5L8C ALA B 563 UNP Q8WQX9 EXPRESSION TAG SEQADV 5L8C 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 ZN A1001 1 HET MG A1002 1 HET FMT A1003 3 HET FMT A1004 3 HET FMT A1005 3 HET GAI A1006 4 HET 908 A1007 35 HET GOL A1008 6 HET ZN B1001 1 HET MG B1002 1 HET GOL B1003 6 HET GOL B1004 6 HET PEG B1005 7 HET PEG B1006 7 HET 908 B1007 35 HET FMT B1008 3 HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION HETNAM FMT FORMIC ACID HETNAM GAI GUANIDINE HETNAM 908 4-[5-[(4~{A}~{R},8~{A}~{S})-4-OXIDANYLIDENE-3-PROPAN-2- HETNAM 2 908 YL-4~{A},5,8,8~{A}-TETRAHYDROPHTHALAZIN-1-YL]-2- HETNAM 3 908 METHOXY-PHENYL]-~{N}-(2-AZANYL-2-OXIDANYLIDENE-ETHYL) HETNAM 4 908 BENZAMIDE HETNAM GOL GLYCEROL HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 ZN 2(ZN 2+) FORMUL 4 MG 2(MG 2+) FORMUL 5 FMT 4(C H2 O2) FORMUL 8 GAI C H5 N3 FORMUL 9 908 2(C27 H30 N4 O4) FORMUL 10 GOL 3(C3 H8 O3) FORMUL 15 PEG 2(C4 H10 O3) FORMUL 19 HOH *335(H2 O) HELIX 1 AA1 THR A 590 VAL A 599 1 10 HELIX 2 AA2 ASP A 613 SER A 620 1 8 HELIX 3 AA3 LYS A 623 SER A 639 1 17 HELIX 4 AA4 GLY A 640 PHE A 645 1 6 HELIX 5 AA5 SER A 648 LYS A 662 1 15 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 GLY A 736 1 11 HELIX 11 AB2 SER A 739 ASP A 755 1 17 HELIX 12 AB3 PRO A 756 ASP A 759 5 4 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 ALA A 800 1 14 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 ALA B 782 1 18 HELIX 37 AE1 THR B 783 ALA B 786 5 4 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 ARG B 854 1 26 HELIX 42 AE6 LEU B 859 ASP B 863 5 5 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 THR B 917 1 21 LINK NE2 HIS A 673 ZN ZN A1001 1555 1555 2.25 LINK NE2 HIS A 709 ZN ZN A1001 1555 1555 2.29 LINK OD1 ASP A 710 MG MG A1002 1555 1555 2.05 LINK OD2 ASP A 710 ZN ZN A1001 1555 1555 1.98 LINK OD1 ASP A 822 ZN ZN A1001 1555 1555 2.13 LINK NE2 HIS B 673 ZN ZN B1001 1555 1555 2.30 LINK NE2 HIS B 709 ZN ZN B1001 1555 1555 2.28 LINK OD1 ASP B 710 MG MG B1002 1555 1555 1.94 LINK OD2 ASP B 710 ZN ZN B1001 1555 1555 2.05 LINK OD1 ASP B 822 ZN ZN B1001 1555 1555 2.15 LINK ZN ZN A1001 O HOH A1126 1555 1555 2.28 LINK ZN ZN A1001 O HOH A1166 1555 1555 2.33 LINK MG MG A1002 O HOH A1170 1555 1555 2.16 LINK MG MG A1002 O HOH A1199 1555 1555 2.24 LINK MG MG A1002 O HOH A1203 1555 1555 1.84 LINK MG MG A1002 O HOH A1115 1555 1555 1.99 LINK MG MG A1002 O HOH A1126 1555 1555 1.78 LINK ZN ZN B1001 O HOH B1186 1555 1555 2.42 LINK ZN ZN B1001 O HOH B1133 1555 1555 2.49 LINK MG MG B1002 O HOH B1216 1555 1555 2.06 LINK MG MG B1002 O HOH B1128 1555 1555 1.98 LINK MG MG B1002 O HOH B1184 1555 1555 1.97 LINK MG MG B1002 O HOH B1191 1555 1555 2.05 LINK MG MG B1002 O HOH B1133 1555 1555 1.73 SITE 1 AC1 6 HIS A 673 HIS A 709 ASP A 710 ASP A 822 SITE 2 AC1 6 HOH A1126 HOH A1166 SITE 1 AC2 6 ASP A 710 HOH A1115 HOH A1126 HOH A1170 SITE 2 AC2 6 HOH A1199 HOH A1203 SITE 1 AC3 1 GLU A 768 SITE 1 AC4 4 GLU A 765 ALA A 767 GLU A 768 HOH A1194 SITE 1 AC5 2 PHE A 605 ASP A 606 SITE 1 AC6 9 LEU A 753 SER A 754 PRO A 756 ASP A 759 SITE 2 AC6 9 ASP A 762 ARG A 769 LEU A 915 ARG A 918 SITE 3 AC6 9 HOH A1111 SITE 1 AC7 9 MET A 785 ASP A 822 TYR A 845 ASN A 867 SITE 2 AC7 9 GLU A 869 GLY A 873 GLN A 874 PHE A 877 SITE 3 AC7 9 HOH A1142 SITE 1 AC8 8 GLY A 688 ASN A 689 GLU A 692 LYS A 693 SITE 2 AC8 8 LEU A 894 GLN A 895 GLY A 896 HOH A1110 SITE 1 AC9 6 HIS B 673 HIS B 709 ASP B 710 ASP B 822 SITE 2 AC9 6 HOH B1133 HOH B1186 SITE 1 AD1 6 ASP B 710 HOH B1128 HOH B1133 HOH B1184 SITE 2 AD1 6 HOH B1191 HOH B1216 SITE 1 AD2 7 TYR A 691 LEU A 694 GLU A 696 TYR B 691 SITE 2 AD2 7 LEU B 694 HOH B1142 HOH B1169 SITE 1 AD3 7 GLY B 688 ASN B 689 GLU B 692 LYS B 693 SITE 2 AD3 7 LEU B 894 GLN B 895 GLY B 896 SITE 1 AD4 8 ASN A 747 HOH A1158 LEU B 728 SER B 732 SITE 2 AD4 8 VAL B 740 VAL B 743 HIS B 744 ASN B 747 SITE 1 AD5 9 TYR A 691 HOH A1131 PHE B 645 THR B 695 SITE 2 AD5 9 GLU B 696 LEU B 697 GLU B 768 HOH B1131 SITE 3 AD5 9 HOH B1185 SITE 1 AD6 11 MET B 785 ASP B 822 VAL B 840 THR B 841 SITE 2 AD6 11 TYR B 845 MET B 861 GLU B 869 GLY B 873 SITE 3 AD6 11 GLN B 874 HOH B1223 HOH B1241 SITE 1 AD7 4 SER B 604 PHE B 605 ASP B 606 HOH B1152 CRYST1 114.600 115.130 68.630 90.00 108.12 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 0.008726 0.000000 0.002855 0.00000 SCALE2 0.000000 0.008686 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015331 0.00000