HEADER HYDROLASE 24-MAR-19 6R51 TITLE CRYSTAL STRUCTURE OF APO PPEP-1(E143A/Y178F) IN COMPLEX WITH TITLE 2 FIBRINOGEN-DERIVED SUBSTRATE PEPTIDE AC-SLRPAPP-CONH2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PRO-PRO ENDOPEPTIDASE; COMPND 3 CHAIN: B, A, C; COMPND 4 SYNONYM: PPEP-1,ZINC METALLOPROTEASE ZMP1; COMPND 5 EC: 3.4.24.89; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: ACE-SER-LEU-ARG-PRO-ALA-PRO-LPD; COMPND 9 CHAIN: E, D, F; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PEPTOCLOSTRIDIUM DIFFICILE; SOURCE 3 ORGANISM_TAXID: 1496; SOURCE 4 GENE: ZMP1, PPEP-1, CD630_28300; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: STAR; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_TAXID: 9606 KEYWDS PRO-PRO ENDOPEPTIDASE 1, ZINC METALLOPEPTIDASE, CLOSTRIDIUM KEYWDS 2 DIFFICILE, VIRULENCE FACTOR, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR C.PICHLO,U.BAUMANN REVDAT 4 24-JAN-24 6R51 1 REMARK REVDAT 3 07-AUG-19 6R51 1 JRNL REVDAT 2 26-JUN-19 6R51 1 JRNL REVDAT 1 12-JUN-19 6R51 0 JRNL AUTH C.PICHLO,L.JUETTEN,F.WOJTALLA,M.SCHACHERL,D.DIAZ,U.BAUMANN JRNL TITL MOLECULAR DETERMINANTS OF THE MECHANISM AND SUBSTRATE JRNL TITL 2 SPECIFICITY OFCLOSTRIDIUM DIFFICILEPROLINE-PROLINE JRNL TITL 3 ENDOPEPTIDASE-1. JRNL REF J.BIOL.CHEM. V. 294 11525 2019 JRNL REFN ESSN 1083-351X JRNL PMID 31182482 JRNL DOI 10.1074/JBC.RA119.009029 REMARK 2 REMARK 2 RESOLUTION. 1.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.15_3448: ???) 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.49 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.440 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 56155 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.155 REMARK 3 R VALUE (WORKING SET) : 0.155 REMARK 3 FREE R VALUE : 0.179 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.540 REMARK 3 FREE R VALUE TEST SET COUNT : 1987 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 48.5043 - 4.6750 0.97 4035 145 0.1668 0.1623 REMARK 3 2 4.6750 - 3.7111 0.98 3892 145 0.1252 0.1471 REMARK 3 3 3.7111 - 3.2421 0.99 3896 139 0.1430 0.1691 REMARK 3 4 3.2421 - 2.9457 0.99 3895 145 0.1590 0.2093 REMARK 3 5 2.9457 - 2.7346 0.99 3872 138 0.1605 0.1967 REMARK 3 6 2.7346 - 2.5734 0.99 3854 148 0.1493 0.1600 REMARK 3 7 2.5734 - 2.4445 1.00 3863 139 0.1451 0.1627 REMARK 3 8 2.4445 - 2.3381 1.00 3861 140 0.1431 0.1813 REMARK 3 9 2.3381 - 2.2481 1.00 3836 144 0.1498 0.1863 REMARK 3 10 2.2481 - 2.1705 1.00 3882 141 0.1575 0.1916 REMARK 3 11 2.1705 - 2.1026 1.00 3803 138 0.1688 0.2124 REMARK 3 12 2.1026 - 2.0425 1.00 3845 143 0.1823 0.1910 REMARK 3 13 2.0425 - 1.9888 1.00 3828 136 0.1988 0.2505 REMARK 3 14 1.9888 - 1.9402 0.99 3806 146 0.2248 0.2449 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.040 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 : 0.004 4906 REMARK 3 ANGLE : 0.838 6641 REMARK 3 CHIRALITY : 0.046 723 REMARK 3 PLANARITY : 0.005 867 REMARK 3 DIHEDRAL : 10.590 2941 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 25:157) REMARK 3 ORIGIN FOR THE GROUP (A): -4.0491 6.4768 99.5733 REMARK 3 T TENSOR REMARK 3 T11: 0.1934 T22: 0.1421 REMARK 3 T33: 0.2117 T12: -0.0031 REMARK 3 T13: 0.0132 T23: -0.0111 REMARK 3 L TENSOR REMARK 3 L11: 1.5428 L22: 1.4667 REMARK 3 L33: 1.8544 L12: -0.3769 REMARK 3 L13: 0.3767 L23: -0.7094 REMARK 3 S TENSOR REMARK 3 S11: 0.0037 S12: -0.0356 S13: -0.1443 REMARK 3 S21: 0.0011 S22: 0.0171 S23: 0.0342 REMARK 3 S31: 0.0626 S32: -0.0781 S33: -0.0157 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 158:220) REMARK 3 ORIGIN FOR THE GROUP (A): 9.7085 18.8514 99.6278 REMARK 3 T TENSOR REMARK 3 T11: 0.2006 T22: 0.1506 REMARK 3 T33: 0.2149 T12: -0.0107 REMARK 3 T13: 0.0237 T23: -0.0070 REMARK 3 L TENSOR REMARK 3 L11: 2.2456 L22: 3.5081 REMARK 3 L33: 1.2040 L12: 0.1967 REMARK 3 L13: 0.1148 L23: 0.3332 REMARK 3 S TENSOR REMARK 3 S11: 0.0524 S12: -0.0355 S13: 0.1805 REMARK 3 S21: -0.1508 S22: -0.0354 S23: -0.2022 REMARK 3 S31: -0.1437 S32: 0.1100 S33: 0.0059 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN B AND RESID 25:157) REMARK 3 ORIGIN FOR THE GROUP (A): -8.3540 30.5685 70.1650 REMARK 3 T TENSOR REMARK 3 T11: 0.1868 T22: 0.1881 REMARK 3 T33: 0.2084 T12: 0.0161 REMARK 3 T13: 0.0151 T23: 0.0155 REMARK 3 L TENSOR REMARK 3 L11: 1.5602 L22: 0.9943 REMARK 3 L33: 2.6760 L12: -0.3467 REMARK 3 L13: -0.3907 L23: 0.5442 REMARK 3 S TENSOR REMARK 3 S11: 0.0807 S12: 0.1316 S13: 0.1493 REMARK 3 S21: -0.0878 S22: -0.0733 S23: 0.0353 REMARK 3 S31: -0.2071 S32: -0.1305 S33: -0.0012 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN B AND RESID 158:220) REMARK 3 ORIGIN FOR THE GROUP (A): 9.2570 25.0141 68.3297 REMARK 3 T TENSOR REMARK 3 T11: 0.1886 T22: 0.2705 REMARK 3 T33: 0.2269 T12: 0.0087 REMARK 3 T13: 0.0224 T23: -0.0046 REMARK 3 L TENSOR REMARK 3 L11: 2.8440 L22: 1.9947 REMARK 3 L33: 2.9281 L12: -0.6752 REMARK 3 L13: -0.5568 L23: 0.2814 REMARK 3 S TENSOR REMARK 3 S11: 0.1228 S12: 0.0655 S13: 0.1576 REMARK 3 S21: -0.1011 S22: 0.0390 S23: -0.1549 REMARK 3 S31: -0.1052 S32: 0.2459 S33: -0.1624 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN C AND RESID 26:155) REMARK 3 ORIGIN FOR THE GROUP (A): 8.3099 15.7085 35.2073 REMARK 3 T TENSOR REMARK 3 T11: 0.2106 T22: 0.2385 REMARK 3 T33: 0.1980 T12: 0.0277 REMARK 3 T13: -0.0443 T23: -0.0039 REMARK 3 L TENSOR REMARK 3 L11: 2.0332 L22: 0.4545 REMARK 3 L33: 1.2750 L12: -0.1885 REMARK 3 L13: -0.8226 L23: 0.2457 REMARK 3 S TENSOR REMARK 3 S11: 0.0506 S12: 0.2127 S13: 0.0980 REMARK 3 S21: -0.0959 S22: -0.0102 S23: 0.0280 REMARK 3 S31: -0.1040 S32: -0.3287 S33: -0.0391 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN C AND RESID 156:220) REMARK 3 ORIGIN FOR THE GROUP (A): 9.2211 2.2786 48.3729 REMARK 3 T TENSOR REMARK 3 T11: 0.2163 T22: 0.2295 REMARK 3 T33: 0.2780 T12: -0.0305 REMARK 3 T13: -0.0233 T23: -0.0339 REMARK 3 L TENSOR REMARK 3 L11: 2.4606 L22: 2.1294 REMARK 3 L33: 2.6786 L12: 0.2208 REMARK 3 L13: 0.6298 L23: -0.7883 REMARK 3 S TENSOR REMARK 3 S11: 0.0587 S12: 0.1167 S13: -0.3743 REMARK 3 S21: -0.0823 S22: 0.0578 S23: 0.1029 REMARK 3 S31: 0.3049 S32: -0.2194 S33: -0.0925 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 6R51 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-MAR-19. REMARK 100 THE DEPOSITION ID IS D_1292100808. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-OCT-15 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS 25-OCT-2015 REMARK 200 DATA SCALING SOFTWARE : XDS 25-OCT-2015 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56159 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.940 REMARK 200 RESOLUTION RANGE LOW (A) : 48.489 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.94 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.01 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: PHENIX REMARK 200 STARTING MODEL: 5A0P REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1 MICROL 12 MG PER ML RPPEP-1 E143A REMARK 280 Y178F WITH 6 MM SUBSTRATE PEPTIDE IN 20 MM TRIS PH 7.5, 200 MM REMARK 280 NACL WAS MIXED WITH 2 MICROL PRECIPITANT SOLUTION CONTAINING: REMARK 280 100 MM TRIS PH 8.5, 2.1 M AMMONIUM PHOSPHATE DIBASIC. RESERVOIR REMARK 280 VOLUME: 200 MICROL, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 35.59450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 70.33000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.53450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 70.33000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.59450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.53450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: 1850 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9290 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, E 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1940 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D 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: 3 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: 1720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, F 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 GLY B 23 REMARK 465 SER B 24 REMARK 465 GLY A 23 REMARK 465 SER A 24 REMARK 465 GLY C 23 REMARK 465 SER C 24 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 HIS C 25 CG ND1 CD2 CE1 NE2 REMARK 470 MET C 26 CG SD CE 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 500 O HOH A 531 1.96 REMARK 500 NZ LYS B 158 OE2 GLU B 184 2.06 REMARK 500 O HOH B 304 O HOH B 424 2.14 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 PHE B 178 -59.11 -121.40 REMARK 500 PHE A 178 -60.11 -121.59 REMARK 500 MET C 26 -63.66 -163.47 REMARK 500 PHE C 178 -60.17 -122.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide ACE D 31 and SER D REMARK 800 32 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide PRO D 37 and LPD D REMARK 800 38 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide ACE F 31 and SER F REMARK 800 32 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide PRO F 37 and LPD F REMARK 800 38 DBREF 6R51 B 27 220 UNP Q183R7 PPEP1_PEPD6 27 220 DBREF 6R51 E 31 38 PDB 6R51 6R51 31 38 DBREF 6R51 A 27 220 UNP Q183R7 PPEP1_PEPD6 27 220 DBREF 6R51 C 27 220 UNP Q183R7 PPEP1_PEPD6 27 220 DBREF 6R51 D 31 38 PDB 6R51 6R51 31 38 DBREF 6R51 F 31 38 PDB 6R51 6R51 31 38 SEQADV 6R51 GLY B 23 UNP Q183R7 EXPRESSION TAG SEQADV 6R51 SER B 24 UNP Q183R7 EXPRESSION TAG SEQADV 6R51 HIS B 25 UNP Q183R7 EXPRESSION TAG SEQADV 6R51 MET B 26 UNP Q183R7 EXPRESSION TAG SEQADV 6R51 ALA B 143 UNP Q183R7 GLU 143 CONFLICT SEQADV 6R51 PHE B 178 UNP Q183R7 TYR 178 CONFLICT SEQADV 6R51 GLY A 23 UNP Q183R7 EXPRESSION TAG SEQADV 6R51 SER A 24 UNP Q183R7 EXPRESSION TAG SEQADV 6R51 HIS A 25 UNP Q183R7 EXPRESSION TAG SEQADV 6R51 MET A 26 UNP Q183R7 EXPRESSION TAG SEQADV 6R51 ALA A 143 UNP Q183R7 GLU 143 CONFLICT SEQADV 6R51 PHE A 178 UNP Q183R7 TYR 178 CONFLICT SEQADV 6R51 GLY C 23 UNP Q183R7 EXPRESSION TAG SEQADV 6R51 SER C 24 UNP Q183R7 EXPRESSION TAG SEQADV 6R51 HIS C 25 UNP Q183R7 EXPRESSION TAG SEQADV 6R51 MET C 26 UNP Q183R7 EXPRESSION TAG SEQADV 6R51 ALA C 143 UNP Q183R7 GLU 143 CONFLICT SEQADV 6R51 PHE C 178 UNP Q183R7 TYR 178 CONFLICT SEQRES 1 B 198 GLY SER HIS MET ASP SER THR THR ILE GLN GLN ASN LYS SEQRES 2 B 198 ASP THR LEU SER GLN ILE VAL VAL PHE PRO THR GLY ASN SEQRES 3 B 198 TYR ASP LYS ASN GLU ALA ASN ALA MET VAL ASN ARG LEU SEQRES 4 B 198 ALA ASN ILE ASP GLY LYS TYR LEU ASN ALA LEU LYS GLN SEQRES 5 B 198 ASN ASN LEU LYS ILE LYS LEU LEU SER GLY LYS LEU THR SEQRES 6 B 198 ASP GLU LYS GLU TYR ALA TYR LEU LYS GLY VAL VAL PRO SEQRES 7 B 198 LYS GLY TRP GLU GLY THR GLY LYS THR TRP ASP ASP VAL SEQRES 8 B 198 PRO GLY LEU GLY GLY SER THR VAL ALA LEU ARG ILE GLY SEQRES 9 B 198 PHE SER ASN LYS GLY LYS GLY HIS ASP ALA ILE ASN LEU SEQRES 10 B 198 GLU LEU HIS ALA THR ALA HIS ALA ILE ASP HIS ILE VAL SEQRES 11 B 198 LEU ASN ASP ILE SER LYS SER ALA GLN PHE LYS GLN ILE SEQRES 12 B 198 PHE ALA LYS GLU GLY ARG SER LEU GLY ASN VAL ASN PHE SEQRES 13 B 198 LEU GLY VAL TYR PRO GLU GLU PHE PHE ALA GLU SER PHE SEQRES 14 B 198 ALA TYR TYR TYR LEU ASN GLN ASP THR ASN SER LYS LEU SEQRES 15 B 198 LYS SER ALA CYS PRO GLN THR TYR SER PHE LEU GLN ASN SEQRES 16 B 198 LEU ALA LYS SEQRES 1 E 8 ACE SER LEU ARG PRO ALA PRO LPD SEQRES 1 A 198 GLY SER HIS MET ASP SER THR THR ILE GLN GLN ASN LYS SEQRES 2 A 198 ASP THR LEU SER GLN ILE VAL VAL PHE PRO THR GLY ASN SEQRES 3 A 198 TYR ASP LYS ASN GLU ALA ASN ALA MET VAL ASN ARG LEU SEQRES 4 A 198 ALA ASN ILE ASP GLY LYS TYR LEU ASN ALA LEU LYS GLN SEQRES 5 A 198 ASN ASN LEU LYS ILE LYS LEU LEU SER GLY LYS LEU THR SEQRES 6 A 198 ASP GLU LYS GLU TYR ALA TYR LEU LYS GLY VAL VAL PRO SEQRES 7 A 198 LYS GLY TRP GLU GLY THR GLY LYS THR TRP ASP ASP VAL SEQRES 8 A 198 PRO GLY LEU GLY GLY SER THR VAL ALA LEU ARG ILE GLY SEQRES 9 A 198 PHE SER ASN LYS GLY LYS GLY HIS ASP ALA ILE ASN LEU SEQRES 10 A 198 GLU LEU HIS ALA THR ALA HIS ALA ILE ASP HIS ILE VAL SEQRES 11 A 198 LEU ASN ASP ILE SER LYS SER ALA GLN PHE LYS GLN ILE SEQRES 12 A 198 PHE ALA LYS GLU GLY ARG SER LEU GLY ASN VAL ASN PHE SEQRES 13 A 198 LEU GLY VAL TYR PRO GLU GLU PHE PHE ALA GLU SER PHE SEQRES 14 A 198 ALA TYR TYR TYR LEU ASN GLN ASP THR ASN SER LYS LEU SEQRES 15 A 198 LYS SER ALA CYS PRO GLN THR TYR SER PHE LEU GLN ASN SEQRES 16 A 198 LEU ALA LYS SEQRES 1 C 198 GLY SER HIS MET ASP SER THR THR ILE GLN GLN ASN LYS SEQRES 2 C 198 ASP THR LEU SER GLN ILE VAL VAL PHE PRO THR GLY ASN SEQRES 3 C 198 TYR ASP LYS ASN GLU ALA ASN ALA MET VAL ASN ARG LEU SEQRES 4 C 198 ALA ASN ILE ASP GLY LYS TYR LEU ASN ALA LEU LYS GLN SEQRES 5 C 198 ASN ASN LEU LYS ILE LYS LEU LEU SER GLY LYS LEU THR SEQRES 6 C 198 ASP GLU LYS GLU TYR ALA TYR LEU LYS GLY VAL VAL PRO SEQRES 7 C 198 LYS GLY TRP GLU GLY THR GLY LYS THR TRP ASP ASP VAL SEQRES 8 C 198 PRO GLY LEU GLY GLY SER THR VAL ALA LEU ARG ILE GLY SEQRES 9 C 198 PHE SER ASN LYS GLY LYS GLY HIS ASP ALA ILE ASN LEU SEQRES 10 C 198 GLU LEU HIS ALA THR ALA HIS ALA ILE ASP HIS ILE VAL SEQRES 11 C 198 LEU ASN ASP ILE SER LYS SER ALA GLN PHE LYS GLN ILE SEQRES 12 C 198 PHE ALA LYS GLU GLY ARG SER LEU GLY ASN VAL ASN PHE SEQRES 13 C 198 LEU GLY VAL TYR PRO GLU GLU PHE PHE ALA GLU SER PHE SEQRES 14 C 198 ALA TYR TYR TYR LEU ASN GLN ASP THR ASN SER LYS LEU SEQRES 15 C 198 LYS SER ALA CYS PRO GLN THR TYR SER PHE LEU GLN ASN SEQRES 16 C 198 LEU ALA LYS SEQRES 1 D 8 ACE SER LEU ARG PRO ALA PRO LPD SEQRES 1 F 8 ACE SER LEU ARG PRO ALA PRO LPD HET ACE E 31 6 HET LPD E 38 17 HET ACE D 31 6 HET LPD D 38 17 HET ACE F 31 6 HET LPD F 38 17 HET PO4 A 301 5 HETNAM ACE ACETYL GROUP HETNAM LPD L-PROLINAMIDE HETNAM PO4 PHOSPHATE ION FORMUL 2 ACE 3(C2 H4 O) FORMUL 2 LPD 3(C5 H10 N2 O) FORMUL 7 PO4 O4 P 3- FORMUL 8 HOH *432(H2 O) HELIX 1 AA1 ASP B 27 ILE B 41 1 15 HELIX 2 AA2 ASP B 50 ALA B 62 1 13 HELIX 3 AA3 ASP B 65 ASN B 75 1 11 HELIX 4 AA4 LYS B 85 LYS B 96 5 12 HELIX 5 AA5 THR B 109 VAL B 113 5 5 HELIX 6 AA6 ASN B 138 VAL B 152 1 15 HELIX 7 AA7 ASP B 155 LYS B 158 5 4 HELIX 8 AA8 SER B 159 GLY B 170 1 12 HELIX 9 AA9 ASN B 175 GLY B 180 1 6 HELIX 10 AB1 TYR B 182 ASN B 197 1 16 HELIX 11 AB2 ASN B 197 CYS B 208 1 12 HELIX 12 AB3 CYS B 208 ALA B 219 1 12 HELIX 13 AB4 ASP A 27 ILE A 41 1 15 HELIX 14 AB5 ASP A 50 ALA A 62 1 13 HELIX 15 AB6 ASP A 65 ASN A 75 1 11 HELIX 16 AB7 LYS A 85 LYS A 96 5 12 HELIX 17 AB8 THR A 109 VAL A 113 5 5 HELIX 18 AB9 ASN A 138 VAL A 152 1 15 HELIX 19 AC1 ASP A 155 LYS A 158 5 4 HELIX 20 AC2 SER A 159 GLY A 170 1 12 HELIX 21 AC3 ASN A 175 GLY A 180 1 6 HELIX 22 AC4 TYR A 182 ASN A 197 1 16 HELIX 23 AC5 ASN A 197 CYS A 208 1 12 HELIX 24 AC6 CYS A 208 ALA A 219 1 12 HELIX 25 AC7 ASP C 27 SER C 39 1 13 HELIX 26 AC8 ASP C 50 ALA C 62 1 13 HELIX 27 AC9 ASP C 65 ASN C 75 1 11 HELIX 28 AD1 LYS C 85 LYS C 96 5 12 HELIX 29 AD2 THR C 109 VAL C 113 5 5 HELIX 30 AD3 ASN C 138 VAL C 152 1 15 HELIX 31 AD4 ASP C 155 LYS C 158 5 4 HELIX 32 AD5 SER C 159 GLY C 170 1 12 HELIX 33 AD6 TYR C 182 ASN C 197 1 16 HELIX 34 AD7 ASN C 197 CYS C 208 1 12 HELIX 35 AD8 CYS C 208 LYS C 220 1 13 SHEET 1 AA1 5 VAL B 42 VAL B 43 0 SHEET 2 AA1 5 ILE B 79 LEU B 82 1 O ILE B 79 N VAL B 43 SHEET 3 AA1 5 VAL B 121 ARG B 124 1 O LEU B 123 N LEU B 82 SHEET 4 AA1 5 GLY B 115 GLY B 118 -1 N LEU B 116 O ALA B 122 SHEET 5 AA1 5 LEU E 33 PRO E 35 -1 O ARG E 34 N GLY B 117 SHEET 1 AA2 5 VAL A 42 VAL A 43 0 SHEET 2 AA2 5 ILE A 79 LEU A 82 1 O ILE A 79 N VAL A 43 SHEET 3 AA2 5 VAL A 121 ARG A 124 1 O LEU A 123 N LEU A 82 SHEET 4 AA2 5 GLY A 115 GLY A 118 -1 N LEU A 116 O ALA A 122 SHEET 5 AA2 5 LEU D 33 PRO D 35 -1 O ARG D 34 N GLY A 117 SHEET 1 AA3 5 VAL C 42 VAL C 43 0 SHEET 2 AA3 5 ILE C 79 LEU C 82 1 O ILE C 79 N VAL C 43 SHEET 3 AA3 5 VAL C 121 ARG C 124 1 O LEU C 123 N LEU C 82 SHEET 4 AA3 5 GLY C 115 GLY C 118 -1 N LEU C 116 O ALA C 122 SHEET 5 AA3 5 LEU F 33 PRO F 35 -1 O ARG F 34 N GLY C 117 LINK C ACE E 31 N SER E 32 1555 1555 1.33 LINK C PRO E 37 N LPD E 38 1555 1555 1.33 LINK C ACE D 31 N SER D 32 1555 1555 1.32 LINK C PRO D 37 N LPD D 38 1555 1555 1.33 LINK C ACE F 31 N SER F 32 1555 1555 1.32 LINK C PRO F 37 N LPD F 38 1555 1555 1.33 SITE 1 AC1 6 HIS A 25 TYR A 194 HOH A 402 HOH A 412 SITE 2 AC1 6 HOH A 425 HOH A 471 SITE 1 AC2 8 GLY A 117 GLY A 118 SER A 119 LEU D 33 SITE 2 AC2 8 ARG D 34 HOH D 101 ACE F 31 SER F 32 SITE 1 AC3 10 GLY A 102 TRP A 103 HIS A 134 ASP A 135 SITE 2 AC3 10 ALA A 136 HIS A 142 ASN A 175 PHE A 178 SITE 3 AC3 10 HOH A 513 ALA D 36 SITE 1 AC4 9 GLY C 117 GLY C 118 SER C 119 HIS C 150 SITE 2 AC4 9 ACE D 31 SER D 32 LEU F 33 ARG F 34 SITE 3 AC4 9 HOH F 102 SITE 1 AC5 8 GLY C 102 TRP C 103 HIS C 134 ASP C 135 SITE 2 AC5 8 ALA C 136 HIS C 142 PHE C 178 ALA F 36 CRYST1 71.189 75.069 140.660 90.00 90.00 90.00 P 21 21 21 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 0.014047 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013321 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007109 0.00000