PDB Short entry for 3QH1 HEADER HYDROLASE/HYDROLASE INHIBITOR 25-JAN-11 3QH1 TITLE STRUCTURE OF THERMOLYSIN IN COMPLEX WITH N-BENZYLOXYCARBONYL-L- TITLE 2 ASPARTIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: THERMOLYSIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: THERMOSTABLE NEUTRAL PROTEINASE; COMPND 5 EC: 3.4.24.27 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS THERMOPROTEOLYTICUS; SOURCE 3 ORGANISM_TAXID: 1427 KEYWDS HYDROLASE, METALLOPROTEINASE, N-BENZYLOXYCARBONYL-L-ASPARTIC ACID, KEYWDS 2 HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR G.BIRRANE,B.BHYRAVBHATLA,M.NAVIA REVDAT 4 13-SEP-23 3QH1 1 REMARK LINK REVDAT 3 02-JUL-14 3QH1 1 JRNL REVDAT 2 30-APR-14 3QH1 1 JRNL REVDAT 1 04-JAN-12 3QH1 0 JRNL AUTH G.BIRRANE,B.BHYRAVBHATLA,M.A.NAVIA JRNL TITL SYNTHESIS OF ASPARTAME BY THERMOLYSIN: AN X-RAY STRUCTURAL JRNL TITL 2 STUDY. JRNL REF ACS MED.CHEM.LETT. V. 5 706 2014 JRNL REFN ISSN 1948-5875 JRNL PMID 24944748 JRNL DOI 10.1021/ML500101Z REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.11 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 45590 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) : 0.115 REMARK 3 R VALUE (WORKING SET) : 0.113 REMARK 3 FREE R VALUE : 0.150 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2434 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) : 1.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.58 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3268 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.71 REMARK 3 BIN R VALUE (WORKING SET) : 0.1520 REMARK 3 BIN FREE R VALUE SET COUNT : 199 REMARK 3 BIN FREE R VALUE : 0.2290 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2432 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 396 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.10000 REMARK 3 B22 (A**2) : -0.10000 REMARK 3 B33 (A**2) : 0.15000 REMARK 3 B12 (A**2) : -0.05000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.061 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.035 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.142 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.981 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.976 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2659 ; 0.019 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1701 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3658 ; 1.642 ; 1.930 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4165 ; 1.075 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 364 ; 5.494 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 135 ;32.331 ;24.593 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 397 ;11.849 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;14.738 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 393 ; 0.125 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3146 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 580 ; 0.001 ; 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): 1636 ; 1.838 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 687 ; 0.649 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2650 ; 2.649 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1023 ; 4.280 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 984 ; 5.900 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 4360 ; 1.742 ; 3.000 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 : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3QH1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-FEB-11. REMARK 100 THE DEPOSITION ID IS D_1000063634. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X12C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.075 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(III) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48259 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 19.40 REMARK 200 R MERGE (I) : 0.08700 REMARK 200 R SYM (I) : 0.10700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 27.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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 <I/SIGMA(I)> 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 8TLN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: THERMOLYSIN WAS DISSOLVED IN 30% DMSO, REMARK 280 36MM TRIS/HCL, 1M CALCIUM ACETATE PH 6.3 AT 100MG/ML, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 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+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 43.36733 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 86.73467 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 65.05100 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 108.41833 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 21.68367 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 43.36733 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 86.73467 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 108.41833 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 65.05100 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 21.68367 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 ASP A 150 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES 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 SER A 25 90.53 -160.28 REMARK 500 THR A 26 -59.51 70.91 REMARK 500 SER A 92 -172.53 55.95 REMARK 500 SER A 107 -163.24 60.56 REMARK 500 ASN A 111 51.26 -96.47 REMARK 500 THR A 152 -103.56 -119.58 REMARK 500 ASN A 159 -139.51 51.95 REMARK 500 THR A 194 75.18 40.18 REMARK 500 ILE A 232 -60.86 -105.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 57 OD1 REMARK 620 2 ASP A 57 OD2 52.6 REMARK 620 3 ASP A 59 OD1 123.2 70.8 REMARK 620 4 GLN A 61 O 95.3 89.9 88.3 REMARK 620 5 HOH A 459 O 81.0 132.4 155.3 84.2 REMARK 620 6 HOH A 476 O 157.7 146.5 76.4 95.9 81.0 REMARK 620 7 HOH A 477 O 85.8 88.1 88.2 176.4 99.3 84.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 138 OD2 REMARK 620 2 GLU A 177 OE1 79.5 REMARK 620 3 GLU A 177 OE2 128.5 49.5 REMARK 620 4 ASP A 185 OD1 160.3 120.1 70.7 REMARK 620 5 GLU A 187 O 84.4 148.7 142.7 79.3 REMARK 620 6 GLU A 190 OE2 97.9 82.4 71.9 83.2 126.5 REMARK 620 7 GLU A 190 OE1 83.7 127.9 119.4 81.6 75.9 51.6 REMARK 620 8 HOH A 447 O 100.5 80.4 80.1 86.4 76.4 152.0 151.5 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 405 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 142 NE2 REMARK 620 2 HIS A 146 NE2 104.3 REMARK 620 3 GLU A 166 OE2 121.9 96.1 REMARK 620 4 NX6 A 999 O 117.9 124.9 90.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 177 OE2 REMARK 620 2 ASN A 183 O 92.7 REMARK 620 3 ASP A 185 OD2 88.5 90.4 REMARK 620 4 GLU A 190 OE2 82.4 170.7 81.6 REMARK 620 5 HOH A 462 O 174.2 91.4 95.5 94.0 REMARK 620 6 HOH A 504 O 87.8 89.5 176.3 98.2 88.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 404 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 193 O REMARK 620 2 THR A 194 O 77.0 REMARK 620 3 THR A 194 OG1 75.7 74.0 REMARK 620 4 ILE A 197 O 154.9 79.5 106.2 REMARK 620 5 ASP A 200 OD1 121.3 134.6 72.0 82.1 REMARK 620 6 HOH A 479 O 83.1 150.7 121.7 114.7 74.4 REMARK 620 7 HOH A 495 O 85.8 81.8 152.2 82.1 135.8 75.4 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NX6 A 999 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3QGO RELATED DB: PDB REMARK 900 STRUCTURE OF THERMOLYSIN IN COMPLEX WITH L-PHENYLALANINE METHYL REMARK 900 ESTER REMARK 900 RELATED ID: 2TLX RELATED DB: PDB REMARK 900 THERMOLYSIN (NATIVE) REMARK 900 RELATED ID: 4TMN RELATED DB: PDB REMARK 900 THERMOLYSIN IN COMPLEX WITH CBZ-PHE==P==-LEU-ALA (ZF==P==LA) REMARK 900 RELATED ID: 5TMN RELATED DB: PDB REMARK 900 THERMOLYSIN IN COMPLEX WITH CBZ-GLY==P==-LEU-LEU (ZG==P==LL) REMARK 900 RELATED ID: 6TMN RELATED DB: PDB REMARK 900 THERMOLYSIN IN COMPLEX WITH CBZ-GLY==P==-(O)-LEU-LEU (ZG==P==(O)LL) REMARK 900 RELATED ID: 1THL RELATED DB: PDB REMARK 900 THERMOLYSIN IN COMPLEX WITH N-(1-(2(R,S)-CARBOXY-4-PHENYLBUTYL) REMARK 900 CYCLOPENTYLCARBONYL)-(S)-TRYPTOPHAN (CLT) REMARK 900 RELATED ID: 3QH5 RELATED DB: PDB DBREF 3QH1 A 1 316 UNP P00800 THER_BACTH 233 548 SEQRES 1 A 316 ILE THR GLY THR SER THR VAL GLY VAL GLY ARG GLY VAL SEQRES 2 A 316 LEU GLY ASP GLN LYS ASN ILE ASN THR THR TYR SER THR SEQRES 3 A 316 TYR TYR TYR LEU GLN ASP ASN THR ARG GLY ASN GLY ILE SEQRES 4 A 316 PHE THR TYR ASP ALA LYS TYR ARG THR THR LEU PRO GLY SEQRES 5 A 316 SER LEU TRP ALA ASP ALA ASP ASN GLN PHE PHE ALA SER SEQRES 6 A 316 TYR ASP ALA PRO ALA VAL ASP ALA HIS TYR TYR ALA GLY SEQRES 7 A 316 VAL THR TYR ASP TYR TYR LYS ASN VAL HIS ASN ARG LEU SEQRES 8 A 316 SER TYR ASP GLY ASN ASN ALA ALA ILE ARG SER SER VAL SEQRES 9 A 316 HIS TYR SER GLN GLY TYR ASN ASN ALA PHE TRP ASN GLY SEQRES 10 A 316 SER GLN MET VAL TYR GLY ASP GLY ASP GLY GLN THR PHE SEQRES 11 A 316 ILE PRO LEU SER GLY GLY ILE ASP VAL VAL ALA HIS GLU SEQRES 12 A 316 LEU THR HIS ALA VAL THR ASP TYR THR ALA GLY LEU ILE SEQRES 13 A 316 TYR GLN ASN GLU SER GLY ALA ILE ASN GLU ALA ILE SER SEQRES 14 A 316 ASP ILE PHE GLY THR LEU VAL GLU PHE TYR ALA ASN LYS SEQRES 15 A 316 ASN PRO ASP TRP GLU ILE GLY GLU ASP VAL TYR THR PRO SEQRES 16 A 316 GLY ILE SER GLY ASP SER LEU ARG SER MET SER ASP PRO SEQRES 17 A 316 ALA LYS TYR GLY ASP PRO ASP HIS TYR SER LYS ARG TYR SEQRES 18 A 316 THR GLY THR GLN ASP ASN GLY GLY VAL HIS ILE ASN SER SEQRES 19 A 316 GLY ILE ILE ASN LYS ALA ALA TYR LEU ILE SER GLN GLY SEQRES 20 A 316 GLY THR HIS TYR GLY VAL SER VAL VAL GLY ILE GLY ARG SEQRES 21 A 316 ASP LYS LEU GLY LYS ILE PHE TYR ARG ALA LEU THR GLN SEQRES 22 A 316 TYR LEU THR PRO THR SER ASN PHE SER GLN LEU ARG ALA SEQRES 23 A 316 ALA ALA VAL GLN SER ALA THR ASP LEU TYR GLY SER THR SEQRES 24 A 316 SER GLN GLU VAL ALA SER VAL LYS GLN ALA PHE ASP ALA SEQRES 25 A 316 VAL GLY VAL LYS HET CA A 401 1 HET CA A 402 1 HET CA A 403 1 HET CA A 404 1 HET ZN A 405 1 HET NX6 A 999 19 HETNAM CA CALCIUM ION HETNAM ZN ZINC ION HETNAM NX6 N-[(BENZYLOXY)CARBONYL]-L-ASPARTIC ACID FORMUL 2 CA 4(CA 2+) FORMUL 6 ZN ZN 2+ FORMUL 7 NX6 C12 H13 N O6 FORMUL 8 HOH *396(H2 O) HELIX 1 1 ALA A 64 TYR A 66 5 3 HELIX 2 2 ASP A 67 ASN A 89 1 23 HELIX 3 3 PRO A 132 GLY A 135 5 4 HELIX 4 4 GLY A 136 THR A 152 1 17 HELIX 5 5 GLN A 158 ASN A 181 1 24 HELIX 6 6 ASP A 207 GLY A 212 5 6 HELIX 7 7 HIS A 216 ARG A 220 5 5 HELIX 8 8 THR A 224 VAL A 230 1 7 HELIX 9 9 ASN A 233 GLY A 247 1 15 HELIX 10 10 GLY A 259 TYR A 274 1 16 HELIX 11 11 ASN A 280 GLY A 297 1 18 HELIX 12 12 SER A 300 VAL A 313 1 14 SHEET 1 A 5 ALA A 56 ASP A 57 0 SHEET 2 A 5 TYR A 28 TYR A 29 -1 N TYR A 28 O ASP A 57 SHEET 3 A 5 GLN A 17 TYR A 24 -1 N THR A 23 O TYR A 29 SHEET 4 A 5 THR A 4 ARG A 11 -1 N GLY A 8 O ILE A 20 SHEET 5 A 5 GLN A 61 PHE A 62 1 O PHE A 62 N VAL A 9 SHEET 1 B 3 GLN A 31 ASP A 32 0 SHEET 2 B 3 ILE A 39 ASP A 43 -1 O ILE A 39 N ASP A 32 SHEET 3 B 3 SER A 53 LEU A 54 -1 O SER A 53 N ASP A 43 SHEET 1 C 5 GLN A 31 ASP A 32 0 SHEET 2 C 5 ILE A 39 ASP A 43 -1 O ILE A 39 N ASP A 32 SHEET 3 C 5 ILE A 100 TYR A 106 1 O ILE A 100 N PHE A 40 SHEET 4 C 5 MET A 120 GLY A 123 1 O MET A 120 N ARG A 101 SHEET 5 C 5 ALA A 113 TRP A 115 -1 N PHE A 114 O VAL A 121 SHEET 1 D 2 GLU A 187 ILE A 188 0 SHEET 2 D 2 ARG A 203 SER A 204 -1 O ARG A 203 N ILE A 188 SHEET 1 E 2 GLY A 248 HIS A 250 0 SHEET 2 E 2 VAL A 253 VAL A 255 -1 O VAL A 255 N GLY A 248 LINK OD1 ASP A 57 CA CA A 403 1555 1555 2.41 LINK OD2 ASP A 57 CA CA A 403 1555 1555 2.56 LINK OD1 ASP A 59 CA CA A 403 1555 1555 2.34 LINK O GLN A 61 CA CA A 403 1555 1555 2.27 LINK OD2 ASP A 138 CA CA A 401 1555 1555 2.33 LINK NE2 HIS A 142 ZN ZN A 405 1555 1555 1.99 LINK NE2 HIS A 146 ZN ZN A 405 1555 1555 2.03 LINK OE2 GLU A 166 ZN ZN A 405 1555 1555 2.00 LINK OE1 GLU A 177 CA CA A 401 1555 1555 2.43 LINK OE2 GLU A 177 CA CA A 401 1555 1555 2.77 LINK OE2 GLU A 177 CA CA A 402 1555 1555 2.37 LINK O ASN A 183 CA CA A 402 1555 1555 2.29 LINK OD1 ASP A 185 CA CA A 401 1555 1555 2.49 LINK OD2 ASP A 185 CA CA A 402 1555 1555 2.35 LINK O GLU A 187 CA CA A 401 1555 1555 2.33 LINK OE2 GLU A 190 CA CA A 401 1555 1555 2.50 LINK OE1 GLU A 190 CA CA A 401 1555 1555 2.51 LINK OE2 GLU A 190 CA CA A 402 1555 1555 2.34 LINK O TYR A 193 CA CA A 404 1555 1555 2.39 LINK O THR A 194 CA CA A 404 1555 1555 2.39 LINK OG1 THR A 194 CA CA A 404 1555 1555 2.43 LINK O ILE A 197 CA CA A 404 1555 1555 2.27 LINK OD1 ASP A 200 CA CA A 404 1555 1555 2.39 LINK CA CA A 401 O HOH A 447 1555 1555 2.43 LINK CA CA A 402 O HOH A 462 1555 1555 2.33 LINK CA CA A 402 O HOH A 504 1555 1555 2.35 LINK CA CA A 403 O HOH A 459 1555 1555 2.46 LINK CA CA A 403 O HOH A 476 1555 1555 2.39 LINK CA CA A 403 O HOH A 477 1555 1555 2.36 LINK CA CA A 404 O HOH A 479 1555 1555 2.39 LINK CA CA A 404 O HOH A 495 1555 1555 2.40 LINK ZN ZN A 405 O NX6 A 999 1555 1555 1.93 CISPEP 1 LEU A 50 PRO A 51 0 3.76 SITE 1 AC1 6 ASP A 138 GLU A 177 ASP A 185 GLU A 187 SITE 2 AC1 6 GLU A 190 HOH A 447 SITE 1 AC2 6 GLU A 177 ASN A 183 ASP A 185 GLU A 190 SITE 2 AC2 6 HOH A 462 HOH A 504 SITE 1 AC3 6 ASP A 57 ASP A 59 GLN A 61 HOH A 459 SITE 2 AC3 6 HOH A 476 HOH A 477 SITE 1 AC4 6 TYR A 193 THR A 194 ILE A 197 ASP A 200 SITE 2 AC4 6 HOH A 479 HOH A 495 SITE 1 AC5 4 HIS A 142 HIS A 146 GLU A 166 NX6 A 999 SITE 1 AC6 14 ASN A 112 ALA A 113 LEU A 133 HIS A 142 SITE 2 AC6 14 GLU A 143 HIS A 146 TYR A 157 GLU A 166 SITE 3 AC6 14 ILE A 188 LEU A 202 HIS A 231 ZN A 405 SITE 4 AC6 14 HOH A 441 HOH A 565 CRYST1 92.503 92.503 130.102 90.00 90.00 120.00 P 61 2 2 12 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 0.010810 0.006241 0.000000 0.00000 SCALE2 0.000000 0.012483 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007686 0.00000