PDB Short entry for 1P05 HEADER HYDROLASE/HYDROLASE INHIBITOR 24-APR-89 1P05 TITLE STRUCTURE ANALYSIS OF SPECIFICITY. ALPHA-LYTIC PROTEASE COMPLEXES WITH TITLE 2 ANALOGUES OF REACTION INTERMEDIATES COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-LYTIC PROTEASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.4.21.12; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: METHOXYSUCCINYL-ALA-ALA-PRO-NORLEUCINE BORONIC ACID COMPND 8 INHIBITOR; COMPND 9 CHAIN: P; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LYSOBACTER ENZYMOGENES; SOURCE 3 ORGANISM_TAXID: 69; SOURCE 4 MOL_ID: 2; SOURCE 5 SYNTHETIC: YES KEYWDS HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.BONE,D.A.AGARD REVDAT 4 13-JUL-11 1P05 1 VERSN REVDAT 3 25-AUG-09 1P05 1 SOURCE REVDAT 2 24-FEB-09 1P05 1 VERSN REVDAT 1 15-APR-90 1P05 0 JRNL AUTH R.BONE,D.FRANK,C.A.KETTNER,D.A.AGARD JRNL TITL STRUCTURAL ANALYSIS OF SPECIFICITY: ALPHA-LYTIC PROTEASE JRNL TITL 2 COMPLEXES WITH ANALOGUES OF REACTION INTERMEDIATES. JRNL REF BIOCHEMISTRY V. 28 7600 1989 JRNL REFN ISSN 0006-2960 JRNL PMID 2611204 JRNL DOI 10.1021/BI00445A015 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.BONE,J.L.SILEN,D.A.AGARD REMARK 1 TITL STRUCTURAL PLASTICITY AS A DETERMINANT OF ENZYME REMARK 1 TITL 2 SPECIFICITY. CREATING BROADLY SPECIFIC PROTEASES REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 1 REFERENCE 2 REMARK 1 AUTH C.A.KETTNER,R.BONE,D.A.AGARD,W.W.BACHOVCHIN REMARK 1 TITL KINETIC PROPERTIES OF THE BINDING OF ALPHA-LYTIC PROTEASE TO REMARK 1 TITL 2 PEPTIDE BORONIC ACIDS REMARK 1 REF BIOCHEMISTRY V. 27 7682 1988 REMARK 1 REFN ISSN 0006-2960 REMARK 1 REFERENCE 3 REMARK 1 AUTH R.BONE,A.B.SHENVI,C.A.KETTNER,D.A.AGARD REMARK 1 TITL SERINE PROTEASE MECHANISM. STRUCTURE OF AN INHIBITORY REMARK 1 TITL 2 COMPLEX OF ALPHA-LYTIC PROTEASE AND A TIGHTLY BOUND PEPTIDE REMARK 1 TITL 3 BORONIC ACID REMARK 1 REF BIOCHEMISTRY V. 26 7609 1987 REMARK 1 REFN ISSN 0006-2960 REMARK 1 REFERENCE 4 REMARK 1 AUTH M.FUJINAGA,L.T.J.DELBAERE,G.D.BRAYER,M.N.G.JAMES REMARK 1 TITL REFINED STRUCTURE OF ALPHA-LYTIC PROTEASE AT 1.7 ANGSTROMS REMARK 1 TITL 2 RESOLUTION. ANALYSIS OF HYDROGEN BONDING AND SOLVENT REMARK 1 TITL 3 STRUCTURE REMARK 1 REF J.MOL.BIOL. V. 184 479 1985 REMARK 1 REFN ISSN 0022-2836 REMARK 1 REFERENCE 5 REMARK 1 AUTH G.D.BRAYER,L.T.J.DELBAERE,M.N.G.JAMES REMARK 1 TITL MOLECULAR STRUCTURE OF THE ALPHA-LYTIC PROTEASE FROM REMARK 1 TITL 2 MYXOBACTER 495 AT 2.8 ANGSTROMS RESOLUTION REMARK 1 REF J.MOL.BIOL. V. 131 743 1979 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PROLSQ REMARK 3 AUTHORS : KONNERT,HENDRICKSON REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.139 REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1417 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 174 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE METHOXYSUCCINYL PORTION OF THE REMARK 3 INHIBITOR WAS DISORDERED AND NO COORDINATES ARE INCLUDED FOR IT REMARK 3 IN THIS ENTRY REMARK 4 REMARK 4 1P05 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : NULL 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 <I/SIGMA(I)> 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL 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 (%): 51.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 53.56667 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 26.78333 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 26.78333 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 53.56667 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, P 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 400 REMARK 400 COMPOUND REMARK 400 INHIBITORY PEPTIDE BORONIC ACIDS ARE PEPTIDE ANALOGS IN WHICH THE C REMARK 400 -TERMINAL CARBOXYL GROUP HAS BEEN REPLACED WITH THE BORONIC ACID REMARK 400 GROUP (B(OH)2). 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 MSU P 5 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 GLY A 244 O HOH A 367 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 174 CD GLU A 174 OE1 -0.066 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 ARG A 48B CB - CG - CD ANGL. DEV. = -17.0 DEGREES REMARK 500 ARG A 48B CD - NE - CZ ANGL. DEV. = 53.2 DEGREES REMARK 500 ARG A 48B NH1 - CZ - NH2 ANGL. DEV. = 10.5 DEGREES REMARK 500 ARG A 48B NE - CZ - NH1 ANGL. DEV. = -11.6 DEGREES REMARK 500 ARG A 67 NE - CZ - NH1 ANGL. DEV. = 8.5 DEGREES REMARK 500 ARG A 67 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 91 CD - NE - CZ ANGL. DEV. = 12.1 DEGREES REMARK 500 ARG A 91 NH1 - CZ - NH2 ANGL. DEV. = -12.2 DEGREES REMARK 500 ARG A 91 NE - CZ - NH2 ANGL. DEV. = 12.3 DEGREES REMARK 500 SER A 107 CA - CB - OG ANGL. DEV. = -17.1 DEGREES REMARK 500 SER A 110 CB - CA - C ANGL. DEV. = -13.2 DEGREES REMARK 500 SER A 110 CA - CB - OG ANGL. DEV. = -20.5 DEGREES REMARK 500 ARG A 117 NE - CZ - NH2 ANGL. DEV. = 4.5 DEGREES REMARK 500 SER A 120C CB - CA - C ANGL. DEV. = -11.5 DEGREES REMARK 500 SER A 120D N - CA - CB ANGL. DEV. = -16.9 DEGREES REMARK 500 ARG A 125 CD - NE - CZ ANGL. DEV. = 10.7 DEGREES REMARK 500 ARG A 125 NH1 - CZ - NH2 ANGL. DEV. = 12.4 DEGREES REMARK 500 ARG A 125 NE - CZ - NH1 ANGL. DEV. = -6.9 DEGREES REMARK 500 ARG A 125 NE - CZ - NH2 ANGL. DEV. = -5.5 DEGREES REMARK 500 GLU A 129 OE1 - CD - OE2 ANGL. DEV. = 7.7 DEGREES REMARK 500 GLU A 129 CG - CD - OE2 ANGL. DEV. = -12.0 DEGREES REMARK 500 SER A 139 N - CA - CB ANGL. DEV. = -13.7 DEGREES REMARK 500 SER A 139 CA - CB - OG ANGL. DEV. = -16.8 DEGREES REMARK 500 TYR A 171 CB - CG - CD2 ANGL. DEV. = 6.0 DEGREES REMARK 500 TYR A 171 CB - CG - CD1 ANGL. DEV. = -6.8 DEGREES REMARK 500 GLU A 174 CG - CD - OE2 ANGL. DEV. = -17.3 DEGREES REMARK 500 ARG A 178 CD - NE - CZ ANGL. DEV. = -8.5 DEGREES REMARK 500 ARG A 178 NE - CZ - NH1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 178 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 192B CG - CD - NE ANGL. DEV. = -13.0 DEGREES REMARK 500 ARG A 192B CD - NE - CZ ANGL. DEV. = -11.6 DEGREES REMARK 500 ARG A 192B NE - CZ - NH1 ANGL. DEV. = -3.2 DEGREES REMARK 500 ALA A 209 N - CA - CB ANGL. DEV. = -9.9 DEGREES REMARK 500 ARG A 224 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 224 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG A 230 CD - NE - CZ ANGL. DEV. = -8.4 DEGREES REMARK 500 ARG A 230 NE - CZ - NH1 ANGL. DEV. = 8.6 DEGREES REMARK 500 ARG A 230 NE - CZ - NH2 ANGL. DEV. = -5.0 DEGREES REMARK 500 VAL A 242 N - CA - CB ANGL. DEV. = -15.3 DEGREES REMARK 500 ALA P 4 N - CA - CB ANGL. DEV. = 12.1 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 ALA A 39 -85.31 -127.32 REMARK 500 PRO A 99A -159.09 -81.94 REMARK 500 PRO A 116 49.46 -83.78 REMARK 500 SER A 214 -61.57 -107.67 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 91 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 ASN A 64 24.5 L L OUTSIDE RANGE REMARK 500 SER A 120D 46.6 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 322 DISTANCE = 5.19 ANGSTROMS REMARK 525 HOH A 364 DISTANCE = 5.20 ANGSTROMS REMARK 600 REMARK 600 HETEROGEN REMARK 600 INHIBITORY PEPTIDE BORONIC ACIDS ARE PEPTIDE ANALOGUES IN REMARK 600 WHICH THE C-TERMINAL CARBOXY GROUP (COOH) HAS BEEN REPLACED REMARK 600 WITH THE BORONIC ACID GROUP (B(OH)2). REMARK 600 REMARK 600 THE INHIBITOR NUMBERING (CHAIN P, 4 - 3 - 2 - 1) IS BY REMARK 600 ANALOGY TO PROTEASE SUBSTRATE NOMENCLATURE IN WHICH THE REMARK 600 RESIDUE PRIOR TO THE SCISSILE BOND IS THE P 1 RESIDUE AND REMARK 600 THE NEXT TOWARDS THE N-TERMINUS IS P 2, ETC. (SEE REMARK 600 I.SCHECTER,A.BERGER, BIOCHEM.BIOPHYS.RES.COMM., V. 27, REMARK 600 P. 157 (1967).) REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN P OF METHOXYSUCCINYL-ALA- REMARK 800 ALA-PRO-NORLEUCINE BORONIC ACID REMARK 999 REMARK 999 SEQUENCE REMARK 999 CHAIN A RESIDUE NUMBERING IS DONE BY HOMOLOGY WITH CHYMOTRYPSIN FOR REMARK 999 RESIDUES 15A - 244 AS DESCRIBED IN REFERENCE 4. CHAIN P RESIDUE REMARK 999 NUMBERING ISDONE BY ANALOGY TO PROTEASE SUBSTRATE NOMENCLATURE IN REMARK 999 WHICH THE RESIDUE PRIOR TO THE SCISSILE BOND IS THE P 1 RESIDUE AND REMARK 999 THE NEXT TOWARDS THE N-TERMINUS IS P 2, ETC. SEE I.SCHECTER, REMARK 999 A.BERGER, BIOCHEM.BIOPHYS.RES.COMM., V. 27, P. 157 (1967) DBREF 1P05 A 15A 244 UNP P00778 PRLA_LYSEN 200 397 DBREF 1P05 P 1 5 PDB 1P05 1P05 5 1 SEQRES 1 A 198 ALA ASN ILE VAL GLY GLY ILE GLU TYR SER ILE ASN ASN SEQRES 2 A 198 ALA SER LEU CYS SER VAL GLY PHE SER VAL THR ARG GLY SEQRES 3 A 198 ALA THR LYS GLY PHE VAL THR ALA GLY HIS CYS GLY THR SEQRES 4 A 198 VAL ASN ALA THR ALA ARG ILE GLY GLY ALA VAL VAL GLY SEQRES 5 A 198 THR PHE ALA ALA ARG VAL PHE PRO GLY ASN ASP ARG ALA SEQRES 6 A 198 TRP VAL SER LEU THR SER ALA GLN THR LEU LEU PRO ARG SEQRES 7 A 198 VAL ALA ASN GLY SER SER PHE VAL THR VAL ARG GLY SER SEQRES 8 A 198 THR GLU ALA ALA VAL GLY ALA ALA VAL CYS ARG SER GLY SEQRES 9 A 198 ARG THR THR GLY TYR GLN CYS GLY THR ILE THR ALA LYS SEQRES 10 A 198 ASN VAL THR ALA ASN TYR ALA GLU GLY ALA VAL ARG GLY SEQRES 11 A 198 LEU THR GLN GLY ASN ALA CYS MET GLY ARG GLY ASP SER SEQRES 12 A 198 GLY GLY SER TRP ILE THR SER ALA GLY GLN ALA GLN GLY SEQRES 13 A 198 VAL MET SER GLY GLY ASN VAL GLN SER ASN GLY ASN ASN SEQRES 14 A 198 CYS GLY ILE PRO ALA SER GLN ARG SER SER LEU PHE GLU SEQRES 15 A 198 ARG LEU GLN PRO ILE LEU SER GLN TYR GLY LEU SER LEU SEQRES 16 A 198 VAL THR GLY SEQRES 1 P 5 MSU ALA ALA PRO BNO HET BNO P 1 9 HET SO4 A 1 5 HETNAM BNO NORLEUCINE BORONIC ACID HETNAM SO4 SULFATE ION FORMUL 2 BNO C5 H14 B N O2 FORMUL 3 SO4 O4 S 2- FORMUL 4 HOH *174(H2 O) HELIX 1 1 ALA A 55 GLY A 59 5 5 HELIX 2 2 GLY A 221 ARG A 224 5 7 HELIX 3 3 LEU A 231 GLY A 238 1 9 SHEET 1 A 3 THR A 113 SER A 120C 0 SHEET 1 B 8 SER A 40 SER A 43 0 SHEET 2 B 8 GLU A 30 ILE A 33 -1 O TYR A 31 N CYS A 42 SHEET 3 B 8 ALA A 83 VAL A 93 -1 N ALA A 83 O ILE A 80 SHEET 4 B 8 ARG A 103 LEU A 108 -1 O ARG A 103 N VAL A 93 SHEET 5 B 8 THR A 49 THR A 54 -1 O LYS A 50 N LEU A 108 SHEET 6 B 8 SER A 240 LEU A 241 -1 SSBOND 1 CYS A 42 CYS A 58 1555 1555 2.04 SSBOND 2 CYS A 137 CYS A 159 1555 1555 2.01 SSBOND 3 CYS A 191 CYS A 220 1555 1555 1.99 LINK N BNO P 1 C PRO P 2 1555 1555 1.30 LINK B BNO P 1 OG SER A 195 1555 1555 1.64 CISPEP 1 PHE A 94 PRO A 99A 0 -4.64 SITE 1 AC1 7 ALA A 15A ASN A 15B ARG A 230 PRO A 233 SITE 2 AC1 7 HOH A 271 HOH A 282 HOH A 371 SITE 1 AC2 14 HIS A 57 ARG A 125 TYR A 171 ARG A 192B SITE 2 AC2 14 GLY A 193 ASP A 194 SER A 195 SER A 214 SITE 3 AC2 14 GLY A 215 GLY A 216 VAL A 217A HOH A 352 SITE 4 AC2 14 HOH P 90 HOH P 103 CRYST1 66.320 66.320 80.350 90.00 90.00 120.00 P 32 2 1 6 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 0.015078 0.008706 0.000000 0.00000 SCALE2 0.000000 0.017411 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012446 0.00000