HEADER HYDROLASE/HYDROLASE INHIBITOR 25-APR-10 3AHO TITLE PZ PEPTIDASE A WITH INHIBITOR 2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: OLIGOPEPTIDASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PZ PEPTIDASE A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GEOBACILLUS SP. MO-1; SOURCE 3 ORGANISM_TAXID: 295930 KEYWDS HYDROLASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.NAKANO REVDAT 4 21-FEB-24 3AHO 1 REMARK LINK REVDAT 3 16-DEC-15 3AHO 1 JRNL REVDAT 2 13-JUL-11 3AHO 1 VERSN REVDAT 1 01-SEP-10 3AHO 0 JRNL AUTH A.KAWASAKI,H.NAKANO,A.HOSOKAWA,T.NAKATSU,H.KATO,K.WATANABE JRNL TITL THE EXQUISITE STRUCTURE AND REACTION MECHANISM OF BACTERIAL JRNL TITL 2 PZ-PEPTIDASE A TOWARD COLLAGENOUS PEPTIDES: X-RAY JRNL TITL 3 CRYSTALLOGRAPHIC STRUCTURE ANALYSIS OF PZ-PEPTIDASE A JRNL TITL 4 REVEALS DIFFERENCES FROM MAMMALIAN THIMET OLIGOPEPTIDASE. JRNL REF J.BIOL.CHEM. V. 285 34972 2010 JRNL REFN ISSN 0021-9258 JRNL PMID 20817732 JRNL DOI 10.1074/JBC.M110.141838 REMARK 2 REMARK 2 RESOLUTION. 1.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.78 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 95884 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) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5038 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) : 1.88 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.93 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7029 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.3270 REMARK 3 BIN FREE R VALUE SET COUNT : 359 REMARK 3 BIN FREE R VALUE : 0.3670 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 9374 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 108 REMARK 3 SOLVENT ATOMS : 1207 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.17 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 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): 0.162 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.130 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 9733 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 13136 ; 1.685 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1124 ; 1.587 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 536 ;38.076 ;24.179 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1667 ;12.198 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 60 ;15.755 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1311 ; 0.111 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7648 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 5071 ; 0.223 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 6823 ; 0.325 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 868 ; 0.118 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.073 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 31 ; 0.145 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.587 ; 0.200 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): 5629 ; 1.242 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 9048 ; 1.940 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 4104 ; 1.595 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 4082 ; 2.224 ; 3.000 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): 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 : 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 3AHO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-AUG-10. REMARK 100 THE DEPOSITION ID IS D_1000029266. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-NOV-06 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS VII REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 95884 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.880 REMARK 200 RESOLUTION RANGE LOW (A) : 19.780 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL 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 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: THE PURIFIED PROTEIN SOLUTION, REMARK 280 CONCENTRATED TO ABOUT 20 MG/ML IN 50 MM TRIS-HCL (PH7.5), WAS REMARK 280 INCUBATED IN THE PRESENCE OF THE INHIBITOR IN 12% (W/V) PEG 4000, REMARK 280 0.5 M MAGNESIUM ACETATE, AND 0.1 M TRIS-HCL (PH 7.0) FOR FIVE REMARK 280 DAYS BY THE HANGING-DROP VAPOR DIFFUSION METHOD AT 293 K. THE REMARK 280 INHIBITOR AT FINAL CONCENTRATIONS WERE 0.5 MM., VAPOR DIFFUSION, REMARK 280 HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 97.12950 REMARK 290 SMTRY3 2 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 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 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 MET B 1 REMARK 465 LEU B 564 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH B 807 O HOH B 816 1.98 REMARK 500 O HOH B 807 O HOH B 817 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 O HOH A 822 O HOH B 1031 2545 0.29 REMARK 500 REMARK 500 REMARK: NULL 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 LYS B 2 CD - CE - NZ ANGL. DEV. = 21.7 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 LYS A 281 35.76 -93.30 REMARK 500 LEU A 314 34.25 -88.91 REMARK 500 LYS A 403 -112.69 52.47 REMARK 500 TYR A 487 -46.89 -169.43 REMARK 500 LYS B 281 31.24 -82.76 REMARK 500 LEU B 314 43.06 -90.30 REMARK 500 LYS B 403 -114.37 50.16 REMARK 500 ASP B 463 46.34 39.08 REMARK 500 PHE B 485 -1.19 72.55 REMARK 500 TYR B 487 -46.27 -172.06 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 A 565 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 356 NE2 REMARK 620 2 HIS A 360 NE2 101.2 REMARK 620 3 GLU A 384 OE1 83.2 98.7 REMARK 620 4 GLU A 384 OE2 138.3 89.7 55.3 REMARK 620 5 3A2 A 566 O22 107.6 140.2 111.3 86.7 REMARK 620 6 3A2 A 566 O23 94.2 85.7 175.2 126.9 65.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 565 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 356 NE2 REMARK 620 2 HIS B 360 NE2 102.4 REMARK 620 3 GLU B 384 OE1 89.8 99.0 REMARK 620 4 GLU B 384 OE2 143.4 91.9 54.5 REMARK 620 5 3A2 B 566 O22 103.3 138.1 113.6 86.6 REMARK 620 6 3A2 B 566 O23 87.7 85.2 175.5 127.3 63.5 REMARK 620 N 1 2 3 4 5 REMARK 630 REMARK 630 MOLECULE TYPE: PEPTIDE-LIKE ENZYME INHIBITOR REMARK 630 MOLECULE NAME: 1-{3-[(R)-{(1R)-1-[(GLYCYL-L-PROLYL)AMINO]-2- REMARK 630 PHENYLETHYL}(HYDROXY)PHOSPHORYL]PROPANOYL}-L-PROLYL-D-NORLEUCINE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 3A2 A 566 REMARK 630 3A2 B 566 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: GLY PRO 00H PRO DNE REMARK 630 DETAILS: NULL 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 565 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 3A2 A 566 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 567 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 568 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 569 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 565 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 3A2 B 566 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 567 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 568 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3AHM RELATED DB: PDB REMARK 900 RELATED ID: 3AHN RELATED DB: PDB DBREF 3AHO A 1 564 UNP Q4W803 Q4W803_9BACI 1 564 DBREF 3AHO B 1 564 UNP Q4W803 Q4W803_9BACI 1 564 SEQRES 1 A 564 MET LYS PHE SER GLU PHE ARG TYR GLU ARG PRO ASN ILE SEQRES 2 A 564 GLU LYS LEU LYS ALA SER PHE GLN GLN ALA LEU GLN SER SEQRES 3 A 564 PHE GLN LYS ALA SER ASN ALA GLU GLU GLN ASN GLU ALA SEQRES 4 A 564 MET LYS GLU ILE ASN GLN LEU ARG ASN ASP PHE SER THR SEQRES 5 A 564 MET ALA GLN ILE CYS TYR ILE ARG HIS THR ILE ASP THR SEQRES 6 A 564 ASN ASP GLU PHE TYR LYS GLN GLU GLN ASP PHE PHE ASP SEQRES 7 A 564 GLU VAL GLU PRO ILE VAL LYS GLY LEU VAL ASN ASP TYR SEQRES 8 A 564 TYR ARG ALA LEU VAL SER SER PRO PHE ARG SER GLN LEU SEQRES 9 A 564 GLU GLY LYS TRP GLY LYS GLN LEU PHE ALA LEU ALA GLU SEQRES 10 A 564 ALA GLU LEU LYS THR TYR SER PRO ASP ILE VAL GLU ASP SEQRES 11 A 564 LEU GLN LEU GLU ASN LYS LEU THR SER GLU TYR THR LYS SEQRES 12 A 564 LEU VAL ALA SER ALA LYS ILE PHE PHE GLU GLY GLU GLU SEQRES 13 A 564 ARG THR LEU ALA GLN LEU GLN PRO PHE VAL GLU SER PRO SEQRES 14 A 564 ASP ARG ASP MET ARG LYS ARG ALA SER GLU ALA ARG PHE SEQRES 15 A 564 THR PHE PHE GLN GLU HIS GLU GLU LYS PHE ASP GLU ILE SEQRES 16 A 564 TYR ASP GLN LEU VAL LYS VAL ARG THR ALA ILE ALA GLN SEQRES 17 A 564 LYS LEU GLY PHE LYS ASN PHE VAL GLU LEU GLY TYR ALA SEQRES 18 A 564 ARG LEU GLY ARG THR ASP TYR ASN ALA GLU MET VAL ALA SEQRES 19 A 564 LYS PHE ARG LYS GLN VAL GLU LYS HIS ILE VAL PRO ILE SEQRES 20 A 564 ALA VAL LYS LEU ARG GLU ARG GLN ARG GLU ARG ILE GLY SEQRES 21 A 564 VAL GLU LYS LEU LYS TYR TYR ASP GLU ALA PHE VAL PHE SEQRES 22 A 564 PRO THR GLY ASN PRO MET PRO LYS GLY ASP ALA ASN TRP SEQRES 23 A 564 ILE ILE GLU ASN GLY LYS LYS MET TYR GLU GLU LEU SER SEQRES 24 A 564 PRO GLU THR GLY GLU PHE PHE ARG TYR MET ILE GLU HIS SEQRES 25 A 564 GLU LEU MET ASP LEU VAL ALA LYS LYS GLY LYS ALA SER SEQRES 26 A 564 GLY GLY TYR CYS THR TYR ILE GLU ASN TYR LYS ALA PRO SEQRES 27 A 564 PHE ILE PHE SER ASN PHE THR GLY THR SER GLY ASP ILE SEQRES 28 A 564 ASP VAL LEU THR HIS GLU ALA GLY HIS ALA PHE GLN VAL SEQRES 29 A 564 TYR GLU SER ARG HIS TYR GLU ILE PRO GLU TYR ASN TRP SEQRES 30 A 564 PRO THR LEU GLU ALA CYS GLU ILE HIS SER MET SER MET SEQRES 31 A 564 GLU PHE PHE THR TRP PRO TRP MET LYS LEU PHE PHE LYS SEQRES 32 A 564 GLU ASP ALA GLU LYS TYR GLN PHE TYR HIS LEU SER ASP SEQRES 33 A 564 ALA LEU LEU PHE LEU PRO TYR GLY VAL ALA VAL ASP GLU SEQRES 34 A 564 PHE GLN HIS PHE VAL TYR GLU ASN PRO ASN ALA THR PRO SEQRES 35 A 564 ALA GLU ARG LYS GLN ALA TRP ARG ALA ILE GLU ARG LYS SEQRES 36 A 564 TYR MET PRO THR LYS ASP TYR ASP GLY ASN ASP TYR LEU SEQRES 37 A 564 GLU ARG GLY GLY PHE TRP GLN ARG GLN SER HIS ILE TYR SEQRES 38 A 564 THR THR ALA PHE TYR TYR ILE ASP TYR THR LEU ALA GLN SEQRES 39 A 564 ILE CYS ALA PHE GLN PHE TRP LYS ARG SER ARG GLU ASN SEQRES 40 A 564 TYR LYS GLU ALA TRP ASN ASP TYR LEU THR LEU CYS ARG SEQRES 41 A 564 GLN GLY GLY SER LYS PRO PHE THR GLU LEU VAL ARG VAL SEQRES 42 A 564 ALA ASN LEU ILE SER PRO PHE GLU ASP GLY CYS VAL GLN SEQRES 43 A 564 SER VAL VAL GLY GLY ILE GLU GLY TRP LEU ASN SER VAL SEQRES 44 A 564 ASP ASP GLN SER LEU SEQRES 1 B 564 MET LYS PHE SER GLU PHE ARG TYR GLU ARG PRO ASN ILE SEQRES 2 B 564 GLU LYS LEU LYS ALA SER PHE GLN GLN ALA LEU GLN SER SEQRES 3 B 564 PHE GLN LYS ALA SER ASN ALA GLU GLU GLN ASN GLU ALA SEQRES 4 B 564 MET LYS GLU ILE ASN GLN LEU ARG ASN ASP PHE SER THR SEQRES 5 B 564 MET ALA GLN ILE CYS TYR ILE ARG HIS THR ILE ASP THR SEQRES 6 B 564 ASN ASP GLU PHE TYR LYS GLN GLU GLN ASP PHE PHE ASP SEQRES 7 B 564 GLU VAL GLU PRO ILE VAL LYS GLY LEU VAL ASN ASP TYR SEQRES 8 B 564 TYR ARG ALA LEU VAL SER SER PRO PHE ARG SER GLN LEU SEQRES 9 B 564 GLU GLY LYS TRP GLY LYS GLN LEU PHE ALA LEU ALA GLU SEQRES 10 B 564 ALA GLU LEU LYS THR TYR SER PRO ASP ILE VAL GLU ASP SEQRES 11 B 564 LEU GLN LEU GLU ASN LYS LEU THR SER GLU TYR THR LYS SEQRES 12 B 564 LEU VAL ALA SER ALA LYS ILE PHE PHE GLU GLY GLU GLU SEQRES 13 B 564 ARG THR LEU ALA GLN LEU GLN PRO PHE VAL GLU SER PRO SEQRES 14 B 564 ASP ARG ASP MET ARG LYS ARG ALA SER GLU ALA ARG PHE SEQRES 15 B 564 THR PHE PHE GLN GLU HIS GLU GLU LYS PHE ASP GLU ILE SEQRES 16 B 564 TYR ASP GLN LEU VAL LYS VAL ARG THR ALA ILE ALA GLN SEQRES 17 B 564 LYS LEU GLY PHE LYS ASN PHE VAL GLU LEU GLY TYR ALA SEQRES 18 B 564 ARG LEU GLY ARG THR ASP TYR ASN ALA GLU MET VAL ALA SEQRES 19 B 564 LYS PHE ARG LYS GLN VAL GLU LYS HIS ILE VAL PRO ILE SEQRES 20 B 564 ALA VAL LYS LEU ARG GLU ARG GLN ARG GLU ARG ILE GLY SEQRES 21 B 564 VAL GLU LYS LEU LYS TYR TYR ASP GLU ALA PHE VAL PHE SEQRES 22 B 564 PRO THR GLY ASN PRO MET PRO LYS GLY ASP ALA ASN TRP SEQRES 23 B 564 ILE ILE GLU ASN GLY LYS LYS MET TYR GLU GLU LEU SER SEQRES 24 B 564 PRO GLU THR GLY GLU PHE PHE ARG TYR MET ILE GLU HIS SEQRES 25 B 564 GLU LEU MET ASP LEU VAL ALA LYS LYS GLY LYS ALA SER SEQRES 26 B 564 GLY GLY TYR CYS THR TYR ILE GLU ASN TYR LYS ALA PRO SEQRES 27 B 564 PHE ILE PHE SER ASN PHE THR GLY THR SER GLY ASP ILE SEQRES 28 B 564 ASP VAL LEU THR HIS GLU ALA GLY HIS ALA PHE GLN VAL SEQRES 29 B 564 TYR GLU SER ARG HIS TYR GLU ILE PRO GLU TYR ASN TRP SEQRES 30 B 564 PRO THR LEU GLU ALA CYS GLU ILE HIS SER MET SER MET SEQRES 31 B 564 GLU PHE PHE THR TRP PRO TRP MET LYS LEU PHE PHE LYS SEQRES 32 B 564 GLU ASP ALA GLU LYS TYR GLN PHE TYR HIS LEU SER ASP SEQRES 33 B 564 ALA LEU LEU PHE LEU PRO TYR GLY VAL ALA VAL ASP GLU SEQRES 34 B 564 PHE GLN HIS PHE VAL TYR GLU ASN PRO ASN ALA THR PRO SEQRES 35 B 564 ALA GLU ARG LYS GLN ALA TRP ARG ALA ILE GLU ARG LYS SEQRES 36 B 564 TYR MET PRO THR LYS ASP TYR ASP GLY ASN ASP TYR LEU SEQRES 37 B 564 GLU ARG GLY GLY PHE TRP GLN ARG GLN SER HIS ILE TYR SEQRES 38 B 564 THR THR ALA PHE TYR TYR ILE ASP TYR THR LEU ALA GLN SEQRES 39 B 564 ILE CYS ALA PHE GLN PHE TRP LYS ARG SER ARG GLU ASN SEQRES 40 B 564 TYR LYS GLU ALA TRP ASN ASP TYR LEU THR LEU CYS ARG SEQRES 41 B 564 GLN GLY GLY SER LYS PRO PHE THR GLU LEU VAL ARG VAL SEQRES 42 B 564 ALA ASN LEU ILE SER PRO PHE GLU ASP GLY CYS VAL GLN SEQRES 43 B 564 SER VAL VAL GLY GLY ILE GLU GLY TRP LEU ASN SER VAL SEQRES 44 B 564 ASP ASP GLN SER LEU HET ZN A 565 1 HET 3A2 A 566 43 HET ACT A 567 4 HET ACT A 568 4 HET ACT A 569 4 HET ZN B 565 1 HET 3A2 B 566 43 HET ACT B 567 4 HET ACT B 568 4 HETNAM ZN ZINC ION HETNAM 3A2 1-{3-[(R)-{(1R)-1-[(GLYCYL-L-PROLYL)AMINO]-2- HETNAM 2 3A2 PHENYLETHYL}(HYDROXY)PHOSPHORYL]PROPANOYL}-L-PROLYL-D- HETNAM 3 3A2 NORLEUCINE HETNAM ACT ACETATE ION FORMUL 3 ZN 2(ZN 2+) FORMUL 4 3A2 2(C29 H44 N5 O8 P) FORMUL 5 ACT 5(C2 H3 O2 1-) FORMUL 12 HOH *1207(H2 O) HELIX 1 1 LYS A 2 PHE A 6 5 5 HELIX 2 2 ASN A 12 LYS A 29 1 18 HELIX 3 3 ASN A 32 ASP A 64 1 33 HELIX 4 4 ASP A 67 SER A 97 1 31 HELIX 5 5 PHE A 100 GLY A 109 1 10 HELIX 6 6 GLY A 109 LYS A 121 1 13 HELIX 7 7 THR A 122 TYR A 123 5 2 HELIX 8 8 SER A 124 ASP A 126 5 3 HELIX 9 9 ILE A 127 SER A 147 1 21 HELIX 10 10 LEU A 159 GLN A 161 5 3 HELIX 11 11 LEU A 162 GLU A 167 1 6 HELIX 12 12 ASP A 170 HIS A 188 1 19 HELIX 13 13 HIS A 188 LEU A 210 1 23 HELIX 14 14 ASN A 214 LEU A 223 1 10 HELIX 15 15 ASN A 229 ILE A 244 1 16 HELIX 16 16 ILE A 244 GLY A 260 1 17 HELIX 17 17 LYS A 265 GLU A 269 5 5 HELIX 18 18 ASP A 283 SER A 299 1 17 HELIX 19 19 SER A 299 HIS A 312 1 14 HELIX 20 20 GLU A 333 LYS A 336 5 4 HELIX 21 21 SER A 348 SER A 367 1 20 HELIX 22 22 ILE A 372 ASN A 376 5 5 HELIX 23 23 THR A 379 THR A 394 1 16 HELIX 24 24 TRP A 397 LYS A 403 1 7 HELIX 25 25 ASP A 405 ASN A 437 1 33 HELIX 26 26 THR A 441 MET A 457 1 17 HELIX 27 27 ASN A 465 ARG A 470 1 6 HELIX 28 28 GLY A 472 ARG A 476 5 5 HELIX 29 29 GLN A 477 THR A 483 1 7 HELIX 30 30 TYR A 487 ASN A 507 1 21 HELIX 31 31 ASN A 507 GLN A 521 1 15 HELIX 32 32 PRO A 526 ALA A 534 1 9 HELIX 33 33 GLY A 543 ASN A 557 1 15 HELIX 34 34 SER A 558 VAL A 559 5 2 HELIX 35 35 ASP A 560 LEU A 564 5 5 HELIX 36 36 LYS B 2 PHE B 6 5 5 HELIX 37 37 ASN B 12 ALA B 30 1 19 HELIX 38 38 ASN B 32 ASP B 64 1 33 HELIX 39 39 ASP B 67 SER B 97 1 31 HELIX 40 40 PHE B 100 GLY B 109 1 10 HELIX 41 41 GLY B 109 LYS B 121 1 13 HELIX 42 42 THR B 122 TYR B 123 5 2 HELIX 43 43 SER B 124 ASP B 126 5 3 HELIX 44 44 ILE B 127 SER B 147 1 21 HELIX 45 45 LEU B 159 GLN B 161 5 3 HELIX 46 46 LEU B 162 GLU B 167 1 6 HELIX 47 47 ASP B 170 HIS B 188 1 19 HELIX 48 48 HIS B 188 LEU B 210 1 23 HELIX 49 49 ASN B 214 LEU B 223 1 10 HELIX 50 50 ASN B 229 ILE B 244 1 16 HELIX 51 51 ILE B 244 GLY B 260 1 17 HELIX 52 52 LYS B 265 GLU B 269 5 5 HELIX 53 53 ASP B 283 SER B 299 1 17 HELIX 54 54 SER B 299 HIS B 312 1 14 HELIX 55 55 GLU B 333 LYS B 336 5 4 HELIX 56 56 SER B 348 GLU B 366 1 19 HELIX 57 57 ILE B 372 ASN B 376 5 5 HELIX 58 58 THR B 379 THR B 394 1 16 HELIX 59 59 TRP B 397 LYS B 403 1 7 HELIX 60 60 ASP B 405 ASN B 437 1 33 HELIX 61 61 THR B 441 MET B 457 1 17 HELIX 62 62 ASN B 465 ARG B 470 1 6 HELIX 63 63 GLY B 472 ARG B 476 5 5 HELIX 64 64 GLN B 477 THR B 483 1 7 HELIX 65 65 TYR B 487 ASN B 507 1 21 HELIX 66 66 ASN B 507 GLY B 522 1 16 HELIX 67 67 PRO B 526 ALA B 534 1 9 HELIX 68 68 GLY B 543 ASN B 557 1 15 SHEET 1 A 2 ILE A 150 PHE A 152 0 SHEET 2 A 2 GLU A 155 ARG A 157 -1 O ARG A 157 N ILE A 150 SHEET 1 B 3 MET A 315 VAL A 318 0 SHEET 2 B 3 ALA A 337 PHE A 344 1 O PHE A 344 N LEU A 317 SHEET 3 B 3 TYR A 328 ILE A 332 -1 N TYR A 328 O PHE A 341 SHEET 1 C 2 ILE B 150 PHE B 152 0 SHEET 2 C 2 GLU B 155 ARG B 157 -1 O ARG B 157 N ILE B 150 SHEET 1 D 3 MET B 315 VAL B 318 0 SHEET 2 D 3 ALA B 337 PHE B 344 1 O PHE B 344 N LEU B 317 SHEET 3 D 3 TYR B 328 ILE B 332 -1 N ILE B 332 O ALA B 337 LINK NE2 HIS A 356 ZN ZN A 565 1555 1555 2.22 LINK NE2 HIS A 360 ZN ZN A 565 1555 1555 2.17 LINK OE1 GLU A 384 ZN ZN A 565 1555 1555 2.23 LINK OE2 GLU A 384 ZN ZN A 565 1555 1555 2.43 LINK ZN ZN A 565 O22 3A2 A 566 1555 1555 2.16 LINK ZN ZN A 565 O23 3A2 A 566 1555 1555 2.41 LINK NE2 HIS B 356 ZN ZN B 565 1555 1555 2.19 LINK NE2 HIS B 360 ZN ZN B 565 1555 1555 2.13 LINK OE1 GLU B 384 ZN ZN B 565 1555 1555 2.22 LINK OE2 GLU B 384 ZN ZN B 565 1555 1555 2.54 LINK ZN ZN B 565 O22 3A2 B 566 1555 1555 1.95 LINK ZN ZN B 565 O23 3A2 B 566 1555 1555 2.64 SITE 1 AC1 5 HIS A 356 HIS A 360 GLU A 384 SER A 387 SITE 2 AC1 5 3A2 A 566 SITE 1 AC2 18 GLY A 327 TYR A 328 CYS A 329 HIS A 356 SITE 2 AC2 18 GLU A 357 HIS A 360 GLU A 384 ARG A 476 SITE 3 AC2 18 GLN A 477 HIS A 479 TYR A 486 TYR A 487 SITE 4 AC2 18 TYR A 490 ZN A 565 ACT A 567 HOH A 815 SITE 5 AC2 18 HOH A 881 HOH A1072 SITE 1 AC3 4 VAL A 353 3A2 A 566 HOH A 801 HOH A1132 SITE 1 AC4 5 ARG A 47 VAL A 88 HOH A 671 HOH A 890 SITE 2 AC4 5 HOH A 972 SITE 1 AC5 5 ARG A 171 LYS A 265 TYR A 267 HOH A 973 SITE 2 AC5 5 HOH A1191 SITE 1 AC6 5 HIS B 356 HIS B 360 GLU B 384 SER B 387 SITE 2 AC6 5 3A2 B 566 SITE 1 AC7 17 GLY B 327 TYR B 328 CYS B 329 HIS B 356 SITE 2 AC7 17 GLU B 357 HIS B 360 TRP B 377 GLU B 384 SITE 3 AC7 17 ARG B 476 GLN B 477 HIS B 479 TYR B 486 SITE 4 AC7 17 TYR B 487 TYR B 490 ZN B 565 HOH B 867 SITE 5 AC7 17 HOH B 890 SITE 1 AC8 5 ARG B 47 VAL B 88 HOH B 575 HOH B 717 SITE 2 AC8 5 HOH B 761 SITE 1 AC9 4 ARG B 171 LYS B 265 TYR B 267 HOH B 753 CRYST1 56.813 194.259 60.092 90.00 106.28 90.00 P 1 21 1 4 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 0.017602 0.000000 0.005140 0.00000 SCALE2 0.000000 0.005148 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017336 0.00000