HEADER HYDROLASE 27-JUL-23 8PZM TITLE INTRACELLULAR LEUCINE AMINOPEPTIDASE OF PSEUDOMONAS AERUGINOSA PA14 TITLE 2 BOUND TO BESTATIN INHIBITOR AND MANGANESE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE CYTOSOL AMINOPEPTIDASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA PA14; SOURCE 3 ORGANISM_TAXID: 652611; SOURCE 4 GENE: PEPA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS AMINOPEPTIDASE, METALLOENZYME, HEXAMER, HYDROLASE, BESTATIN, KEYWDS 2 INHIBITOR, MANGANESE EXPDTA X-RAY DIFFRACTION AUTHOR M.C.SIMPSON,C.M.CZEKSTER,C.J.HARDING REVDAT 2 06-DEC-23 8PZM 1 JRNL REVDAT 1 15-NOV-23 8PZM 0 JRNL AUTH M.C.SIMPSON,C.J.HARDING,R.M.CZEKSTER,L.REMMEL,B.E.BODE, JRNL AUTH 2 C.M.CZEKSTER JRNL TITL UNVEILING THE CATALYTIC MECHANISM OF A PROCESSIVE JRNL TITL 2 METALLOAMINOPEPTIDASE. JRNL REF BIOCHEMISTRY V. 62 3188 2023 JRNL REFN ISSN 0006-2960 JRNL PMID 37924287 JRNL DOI 10.1021/ACS.BIOCHEM.3C00420 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.20.1_4487: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.78 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 93542 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 4725 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 43.7800 - 5.2800 1.00 3229 193 0.1561 0.1601 REMARK 3 2 5.2800 - 4.1900 1.00 3085 145 0.1313 0.1416 REMARK 3 3 4.1900 - 3.6600 1.00 3035 159 0.1437 0.1611 REMARK 3 4 3.6600 - 3.3300 1.00 3015 165 0.1600 0.2038 REMARK 3 5 3.3300 - 3.0900 1.00 2998 159 0.1625 0.1666 REMARK 3 6 3.0900 - 2.9100 1.00 2995 144 0.1646 0.1751 REMARK 3 7 2.9100 - 2.7600 1.00 2977 162 0.1682 0.1958 REMARK 3 8 2.7600 - 2.6400 1.00 2977 148 0.1641 0.1831 REMARK 3 9 2.6400 - 2.5400 1.00 2975 148 0.1604 0.2129 REMARK 3 10 2.5400 - 2.4500 1.00 2958 156 0.1609 0.1830 REMARK 3 11 2.4500 - 2.3800 1.00 2923 171 0.1625 0.2110 REMARK 3 12 2.3800 - 2.3100 1.00 2976 137 0.1602 0.2025 REMARK 3 13 2.3100 - 2.2500 1.00 2943 158 0.1668 0.1841 REMARK 3 14 2.2500 - 2.1900 1.00 2940 164 0.1637 0.1803 REMARK 3 15 2.1900 - 2.1400 1.00 2926 169 0.1684 0.1644 REMARK 3 16 2.1400 - 2.1000 1.00 2964 151 0.1747 0.1831 REMARK 3 17 2.1000 - 2.0500 1.00 2928 167 0.1784 0.1826 REMARK 3 18 2.0500 - 2.0200 1.00 2926 156 0.1845 0.2312 REMARK 3 19 2.0200 - 1.9800 1.00 2905 177 0.1873 0.2111 REMARK 3 20 1.9800 - 1.9500 1.00 2921 154 0.1962 0.2261 REMARK 3 21 1.9500 - 1.9100 1.00 2929 164 0.2109 0.2101 REMARK 3 22 1.9100 - 1.8900 1.00 2923 161 0.2323 0.2501 REMARK 3 23 1.8900 - 1.8600 1.00 2921 150 0.2437 0.3113 REMARK 3 24 1.8600 - 1.8300 1.00 2965 140 0.2896 0.3162 REMARK 3 25 1.8300 - 1.8100 1.00 2904 156 0.2875 0.2960 REMARK 3 26 1.8100 - 1.7800 1.00 2930 149 0.3186 0.3230 REMARK 3 27 1.7800 - 1.7600 1.00 2908 161 0.3017 0.3023 REMARK 3 28 1.7600 - 1.7400 1.00 2928 150 0.2958 0.2833 REMARK 3 29 1.7400 - 1.7200 1.00 2891 162 0.3062 0.3220 REMARK 3 30 1.7200 - 1.7000 1.00 2922 149 0.3139 0.3153 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.090 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.007 3800 REMARK 3 ANGLE : 0.901 5122 REMARK 3 CHIRALITY : 0.055 592 REMARK 3 PLANARITY : 0.013 664 REMARK 3 DIHEDRAL : 6.044 536 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 58.8560 50.5455 36.8031 REMARK 3 T TENSOR REMARK 3 T11: 0.2057 T22: 0.2197 REMARK 3 T33: 0.1323 T12: -0.0097 REMARK 3 T13: 0.0258 T23: -0.0170 REMARK 3 L TENSOR REMARK 3 L11: 0.7855 L22: 0.5241 REMARK 3 L33: 0.2145 L12: -0.4156 REMARK 3 L13: 0.1528 L23: -0.1550 REMARK 3 S TENSOR REMARK 3 S11: -0.0239 S12: -0.0684 S13: -0.0236 REMARK 3 S21: 0.0459 S22: 0.0112 S23: 0.0654 REMARK 3 S31: -0.0010 S32: -0.0769 S33: 0.0131 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8PZM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-JUL-23. REMARK 100 THE DEPOSITION ID IS D_1292132264. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-OCT-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 93600 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 43.790 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 40.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.73 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 : 0.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5 MM MNCL2, 20 % PEG 3350, 172 MM REMARK 280 AMMONIUM NITRATE, PH 7.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 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 REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z+1/2 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/2 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 0.00000 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 0.00000 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 43.78500 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 43.78500 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 43.78500 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 0.00000 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 0.00000 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 43.78500 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 43.78500 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 43.78500 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 31660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 100580 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -75.0 KCAL/MOL 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 BIOMT1 2 -0.500000 -0.866025 0.000000 182.05000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 91.02500 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 157.65992 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.500000 -0.866025 0.000000 91.02500 REMARK 350 BIOMT2 4 -0.866025 -0.500000 0.000000 157.65992 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 43.78500 REMARK 350 BIOMT1 5 -1.000000 0.000000 0.000000 182.05000 REMARK 350 BIOMT2 5 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 43.78500 REMARK 350 BIOMT1 6 0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 6 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 43.78500 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 A1108 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1189 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1198 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1227 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 MET A 0 REMARK 465 HIS A 1 REMARK 465 HIS A 2 REMARK 465 HIS A 3 REMARK 465 HIS A 4 REMARK 465 HIS A 5 REMARK 465 HIS A 6 REMARK 465 ASP A 7 REMARK 465 TYR A 8 REMARK 465 ASP A 9 REMARK 465 ILE A 10 REMARK 465 PRO A 11 REMARK 465 THR A 12 REMARK 465 THR A 13 REMARK 465 GLU A 14 REMARK 465 ASN A 15 REMARK 465 LEU A 16 REMARK 465 TYR A 17 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 A 987 O HOH A 1080 2.03 REMARK 500 O HOH A 1209 O HOH A 1213 2.13 REMARK 500 O HOH A 1148 O HOH A 1174 2.16 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 GLN A 84 -138.16 -90.53 REMARK 500 ALA A 132 61.78 -103.40 REMARK 500 LEU A 439 52.73 -106.88 REMARK 500 PRO A 503 44.04 -103.42 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 350 0.11 SIDE CHAIN 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 A1224 DISTANCE = 5.90 ANGSTROMS REMARK 525 HOH A1225 DISTANCE = 6.25 ANGSTROMS REMARK 525 HOH A1226 DISTANCE = 6.41 ANGSTROMS REMARK 525 HOH A1227 DISTANCE = 6.43 ANGSTROMS REMARK 525 HOH A1228 DISTANCE = 6.57 ANGSTROMS REMARK 525 HOH A1229 DISTANCE = 7.54 ANGSTROMS REMARK 525 HOH A1230 DISTANCE = 7.92 ANGSTROMS 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 MN A 605 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 287 NZ REMARK 620 2 ASP A 292 OD2 169.8 REMARK 620 3 ASP A 310 OD2 96.6 92.4 REMARK 620 4 GLU A 371 OE2 93.6 81.0 94.6 REMARK 620 5 BES A 601 N2 89.0 94.8 95.3 169.4 REMARK 620 6 BES A 601 O2 91.8 79.7 169.2 91.5 78.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 606 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 292 OD2 REMARK 620 2 ASP A 369 O 171.9 REMARK 620 3 ASP A 369 OD1 97.6 85.9 REMARK 620 4 GLU A 371 OE1 89.3 82.6 115.7 REMARK 620 5 BES A 601 O2 84.1 96.2 153.0 91.3 REMARK 620 6 BES A 601 O3 109.8 77.9 80.3 153.9 73.9 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8PZO RELATED DB: PDB REMARK 900 8PZO CONTAINS THE SAME PROTEIN IN THE ABSENCE OF BESTATIN AND REMARK 900 MANGANESE DBREF 8PZM A 22 515 UNP Q02RY8 AMPA_PSEAB 1 495 SEQADV 8PZM MET A 0 UNP Q02RY8 INITIATING METHIONINE SEQADV 8PZM HIS A 1 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM HIS A 2 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM HIS A 3 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM HIS A 4 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM HIS A 5 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM HIS A 6 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM ASP A 7 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM TYR A 8 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM ASP A 9 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM ILE A 10 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM PRO A 11 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM THR A 12 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM THR A 13 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM GLU A 14 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM ASN A 15 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM LEU A 16 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM TYR A 17 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM PHE A 18 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM GLN A 19 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM GLY A 20 UNP Q02RY8 EXPRESSION TAG SEQADV 8PZM GLY A 21 UNP Q02RY8 EXPRESSION TAG SEQRES 1 A 517 MET HIS HIS HIS HIS HIS HIS ASP TYR ASP ILE PRO THR SEQRES 2 A 517 THR GLU ASN LEU TYR PHE GLN GLY GLY MET GLU PHE LEU SEQRES 3 A 517 VAL LYS SER VAL ARG PRO GLU THR LEU LYS THR ALA THR SEQRES 4 A 517 LEU VAL LEU ALA VAL GLY GLU GLY ARG LYS LEU GLY ALA SEQRES 5 A 517 SER ALA LYS ALA VAL ASP ASP ALA THR GLY GLY ALA ILE SEQRES 6 A 517 SER ALA VAL LEU LYS ARG GLY ASP LEU ALA GLY LYS VAL SEQRES 7 A 517 GLY GLN THR LEU LEU LEU GLN SER LEU PRO ASN LEU LYS SEQRES 8 A 517 ALA GLU ARG VAL LEU LEU VAL GLY ALA GLY LYS GLU ARG SEQRES 9 A 517 GLU LEU GLY ASP ARG GLN TYR ARG LYS LEU ALA SER ALA SEQRES 10 A 517 VAL LEU SER THR LEU LYS GLY LEU ALA GLY ALA ASP ALA SEQRES 11 A 517 ALA LEU ALA LEU GLY ASP LEU ALA VAL LYS GLY ARG GLY SEQRES 12 A 517 ALA HIS ALA LYS ALA ARG LEU LEU VAL GLU THR LEU ALA SEQRES 13 A 517 ASP GLY LEU TYR VAL PHE ASP ARG TYR LYS SER GLN LYS SEQRES 14 A 517 ALA GLU PRO LEU LYS LEU LYS LYS LEU THR LEU LEU ALA SEQRES 15 A 517 ASP LYS ALA ASP SER ALA ALA VAL GLU GLN GLY SER LYS SEQRES 16 A 517 GLU ALA GLN ALA ILE ALA ASN GLY MET ALA LEU THR ARG SEQRES 17 A 517 ASP LEU GLY ASN LEU PRO PRO ASN VAL CYS HIS PRO THR SEQRES 18 A 517 PHE LEU GLY GLU GLN ALA LYS GLY LEU ALA LYS GLU PHE SEQRES 19 A 517 LYS SER LEU LYS VAL GLU VAL LEU ASP GLU LYS LYS LEU SEQRES 20 A 517 ARG GLU LEU GLY MET GLY SER PHE LEU ALA VAL ALA GLN SEQRES 21 A 517 GLY SER ASP GLN PRO PRO ARG LEU ILE ILE LEU GLN TYR SEQRES 22 A 517 ASN GLY ALA LYS LYS ASP GLN ALA PRO HIS VAL LEU VAL SEQRES 23 A 517 GLY LYS GLY ILE THR PHE ASP THR GLY GLY ILE SER LEU SEQRES 24 A 517 LYS PRO GLY LEU GLY MET ASP GLU MET LYS PHE ASP MET SEQRES 25 A 517 CYS GLY ALA ALA SER VAL PHE GLY THR PHE ARG ALA VAL SEQRES 26 A 517 LEU GLU LEU GLN LEU PRO ILE ASN LEU VAL GLY LEU LEU SEQRES 27 A 517 ALA CYS ALA GLU ASN MET PRO SER GLY GLY ALA THR ARG SEQRES 28 A 517 PRO GLY ASP ILE VAL THR THR MET SER GLY GLN THR VAL SEQRES 29 A 517 GLU ILE LEU ASN THR ASP ALA GLU GLY ARG LEU VAL LEU SEQRES 30 A 517 CYS ASP ALA LEU THR TYR ALA GLU ARG PHE LYS PRO GLN SEQRES 31 A 517 SER VAL ILE ASP ILE ALA THR LEU THR GLY ALA CYS ILE SEQRES 32 A 517 VAL ALA LEU GLY SER ASN THR SER GLY LEU MET GLY ASN SEQRES 33 A 517 ASN GLU ALA LEU VAL ARG GLN LEU LEU LYS ALA GLY GLU SEQRES 34 A 517 PHE ALA ASP ASP ARG ALA TRP GLN LEU PRO LEU PHE ASP SEQRES 35 A 517 GLU TYR GLN GLU GLN LEU ASP SER PRO PHE ALA ASP ILE SEQRES 36 A 517 ALA ASN ILE GLY GLY PRO LYS ALA GLY THR ILE THR ALA SEQRES 37 A 517 GLY CYS PHE LEU SER ARG PHE ALA LYS LYS TYR HIS TRP SEQRES 38 A 517 ALA HIS LEU ASP ILE ALA GLY THR ALA TRP ILE SER GLY SEQRES 39 A 517 GLY LYS ASP LYS GLY ALA THR GLY ARG PRO VAL PRO LEU SEQRES 40 A 517 LEU THR GLN TYR LEU LEU GLU ARG ALA LYS HET BES A 601 22 HET EDO A 602 4 HET BCT A 603 4 HET EDO A 604 4 HET MN A 605 1 HET MN A 606 1 HETNAM BES 2-(3-AMINO-2-HYDROXY-4-PHENYL-BUTYRYLAMINO)-4-METHYL- HETNAM 2 BES PENTANOIC ACID HETNAM EDO 1,2-ETHANEDIOL HETNAM BCT BICARBONATE ION HETNAM MN MANGANESE (II) ION HETSYN BES BESTATIN HETSYN EDO ETHYLENE GLYCOL FORMUL 2 BES C16 H24 N2 O4 FORMUL 3 EDO 2(C2 H6 O2) FORMUL 4 BCT C H O3 1- FORMUL 6 MN 2(MN 2+) FORMUL 8 HOH *530(H2 O) HELIX 1 AA1 ARG A 30 LEU A 34 5 5 HELIX 2 AA2 GLY A 50 THR A 60 1 11 HELIX 3 AA3 GLY A 62 ARG A 70 1 9 HELIX 4 AA4 GLY A 106 LEU A 124 1 19 HELIX 5 AA5 GLY A 142 LEU A 158 1 17 HELIX 6 AA6 ASP A 182 LEU A 212 1 31 HELIX 7 AA7 HIS A 218 PHE A 233 1 16 HELIX 8 AA8 ASP A 242 GLY A 250 1 9 HELIX 9 AA9 MET A 251 GLN A 259 1 9 HELIX 10 AB1 GLY A 303 ASP A 310 5 8 HELIX 11 AB2 MET A 311 GLN A 328 1 18 HELIX 12 AB3 GLU A 371 GLU A 384 1 14 HELIX 13 AB4 ARG A 385 LYS A 387 5 3 HELIX 14 AB5 THR A 398 GLY A 406 1 9 HELIX 15 AB6 ASN A 416 ASP A 431 1 16 HELIX 16 AB7 PHE A 440 ASP A 448 5 9 HELIX 17 AB8 ALA A 462 ARG A 473 1 12 HELIX 18 AB9 PRO A 503 ALA A 514 1 13 SHEET 1 AA1 6 GLU A 23 LYS A 27 0 SHEET 2 AA1 6 LYS A 176 LEU A 180 1 O LEU A 179 N LEU A 25 SHEET 3 AA1 6 ASP A 128 ALA A 132 1 N LEU A 131 O THR A 178 SHEET 4 AA1 6 THR A 36 VAL A 43 1 N THR A 38 O ALA A 130 SHEET 5 AA1 6 ALA A 91 GLY A 98 1 O LEU A 95 N LEU A 41 SHEET 6 AA1 6 THR A 80 LEU A 83 -1 N LEU A 83 O VAL A 94 SHEET 1 AA2 8 LEU A 236 LEU A 241 0 SHEET 2 AA2 8 ARG A 266 ASN A 273 -1 O ILE A 269 N GLU A 239 SHEET 3 AA2 8 ASN A 332 ASN A 342 -1 O CYS A 339 N ARG A 266 SHEET 4 AA2 8 HIS A 282 ASP A 292 1 N LEU A 284 O VAL A 334 SHEET 5 AA2 8 SER A 390 ALA A 395 1 O ILE A 392 N VAL A 285 SHEET 6 AA2 8 TRP A 480 ASP A 484 1 O LEU A 483 N ASP A 393 SHEET 7 AA2 8 SER A 410 GLY A 414 -1 N MET A 413 O HIS A 482 SHEET 8 AA2 8 ALA A 434 GLN A 436 1 O TRP A 435 N LEU A 412 SHEET 1 AA3 3 ASP A 353 THR A 356 0 SHEET 2 AA3 3 THR A 362 ILE A 365 -1 O ILE A 365 N ASP A 353 SHEET 3 AA3 3 ILE A 454 ALA A 455 1 O ILE A 454 N GLU A 364 SHEET 1 AA4 2 TRP A 490 ILE A 490A 0 SHEET 2 AA4 2 GLY A 497 ALA A 498 -1 O GLY A 497 N ILE A 490A LINK NZ LYS A 287 MN MN A 605 1555 1555 2.33 LINK OD2 ASP A 292 MN MN A 605 1555 1555 2.42 LINK OD2 ASP A 292 MN MN A 606 1555 1555 2.17 LINK OD2 ASP A 310 MN MN A 605 1555 1555 2.06 LINK O ASP A 369 MN MN A 606 1555 1555 2.16 LINK OD1 ASP A 369 MN MN A 606 1555 1555 2.11 LINK OE2 GLU A 371 MN MN A 605 1555 1555 2.17 LINK OE1 GLU A 371 MN MN A 606 1555 1555 2.18 LINK N2 BES A 601 MN MN A 605 1555 1555 2.31 LINK O2 BES A 601 MN MN A 605 1555 1555 2.12 LINK O2 BES A 601 MN MN A 606 1555 1555 2.19 LINK O3 BES A 601 MN MN A 606 1555 1555 2.49 CISPEP 1 ARG A 501 PRO A 503 0 7.21 CRYST1 182.050 182.050 87.570 90.00 90.00 120.00 P 63 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 0.005493 0.003171 0.000000 0.00000 SCALE2 0.000000 0.006343 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011419 0.00000