HEADER HYDROLASE 24-MAR-19 6R57 TITLE CRYSTAL STRUCTURE OF PPEP-1(E143A/Y178F/E184A) IN COMPLEX WITH TITLE 2 SUBSTRATE PEPTIDE AC-EVNPPVP-CONH2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PRO-PRO ENDOPEPTIDASE; COMPND 3 CHAIN: A, B; 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-GLU-VAL-ASN-PRO-PRO-VAL-LPD; COMPND 9 CHAIN: C, D; 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: CLOSTRIDIOIDES DIFFICILE; SOURCE 11 ORGANISM_TAXID: 1496 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 6R57 1 LINK REVDAT 3 07-AUG-19 6R57 1 JRNL REVDAT 2 26-JUN-19 6R57 1 JRNL REVDAT 1 12-JUN-19 6R57 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. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (DEV_3409: ???) 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.52 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.440 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 30415 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.187 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1520 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 40.5337 - 4.2219 0.99 2729 141 0.1489 0.1376 REMARK 3 2 4.2219 - 3.3516 1.00 2640 144 0.1323 0.1544 REMARK 3 3 3.3516 - 2.9281 0.99 2664 131 0.1563 0.1908 REMARK 3 4 2.9281 - 2.6604 1.00 2614 139 0.1625 0.2317 REMARK 3 5 2.6604 - 2.4698 1.00 2626 132 0.1629 0.2179 REMARK 3 6 2.4698 - 2.3242 1.00 2636 146 0.1549 0.1925 REMARK 3 7 2.3242 - 2.2078 1.00 2631 133 0.1625 0.2268 REMARK 3 8 2.2078 - 2.1117 1.00 2626 144 0.1731 0.2123 REMARK 3 9 2.1117 - 2.0304 1.00 2593 130 0.1900 0.2290 REMARK 3 10 2.0304 - 1.9603 1.00 2557 153 0.2156 0.2257 REMARK 3 11 1.9603 - 1.8990 0.97 2579 127 0.2603 0.2908 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) : 18.950 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 : 0.003 3253 REMARK 3 ANGLE : 0.656 4433 REMARK 3 CHIRALITY : 0.039 487 REMARK 3 PLANARITY : 0.003 589 REMARK 3 DIHEDRAL : 10.407 1945 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 29 THROUGH 151) REMARK 3 ORIGIN FOR THE GROUP (A): 13.3384 28.9224 48.1175 REMARK 3 T TENSOR REMARK 3 T11: 0.2227 T22: 0.1765 REMARK 3 T33: 0.1909 T12: 0.0073 REMARK 3 T13: 0.0006 T23: 0.0044 REMARK 3 L TENSOR REMARK 3 L11: 1.3265 L22: 1.6368 REMARK 3 L33: 1.5144 L12: 0.0122 REMARK 3 L13: 0.0882 L23: 0.0282 REMARK 3 S TENSOR REMARK 3 S11: 0.0639 S12: -0.0201 S13: 0.0512 REMARK 3 S21: 0.0908 S22: -0.0355 S23: 0.0049 REMARK 3 S31: -0.0640 S32: 0.0167 S33: -0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN 'A' AND RESID 152 THROUGH 220) REMARK 3 ORIGIN FOR THE GROUP (A): 5.7418 13.3016 41.3079 REMARK 3 T TENSOR REMARK 3 T11: 0.2689 T22: 0.1853 REMARK 3 T33: 0.2077 T12: -0.0135 REMARK 3 T13: -0.0449 T23: 0.0122 REMARK 3 L TENSOR REMARK 3 L11: 1.1134 L22: 1.3893 REMARK 3 L33: 0.7852 L12: -0.1171 REMARK 3 L13: 0.3453 L23: 0.0743 REMARK 3 S TENSOR REMARK 3 S11: 0.0488 S12: 0.0271 S13: -0.0120 REMARK 3 S21: -0.1727 S22: -0.0291 S23: 0.1281 REMARK 3 S31: 0.2669 S32: -0.0764 S33: 0.0001 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN 'B' AND RESID 30 THROUGH 151) REMARK 3 ORIGIN FOR THE GROUP (A): -6.5809 26.0200 9.9119 REMARK 3 T TENSOR REMARK 3 T11: 0.1560 T22: 0.2041 REMARK 3 T33: 0.1740 T12: 0.0041 REMARK 3 T13: 0.0059 T23: -0.0003 REMARK 3 L TENSOR REMARK 3 L11: 1.6216 L22: 1.3065 REMARK 3 L33: 1.1115 L12: 0.0060 REMARK 3 L13: -0.4867 L23: 0.1107 REMARK 3 S TENSOR REMARK 3 S11: 0.0729 S12: 0.0760 S13: 0.0395 REMARK 3 S21: 0.0931 S22: -0.0502 S23: -0.0167 REMARK 3 S31: 0.0278 S32: -0.0600 S33: 0.0001 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN 'B' AND RESID 152 THROUGH 220) REMARK 3 ORIGIN FOR THE GROUP (A): -4.7327 9.1479 18.3721 REMARK 3 T TENSOR REMARK 3 T11: 0.3137 T22: 0.2245 REMARK 3 T33: 0.2995 T12: 0.0003 REMARK 3 T13: 0.0270 T23: 0.0138 REMARK 3 L TENSOR REMARK 3 L11: 1.0772 L22: 1.3895 REMARK 3 L33: 0.7834 L12: -0.1910 REMARK 3 L13: 0.4860 L23: -0.0654 REMARK 3 S TENSOR REMARK 3 S11: -0.0203 S12: -0.0621 S13: -0.2896 REMARK 3 S21: 0.4152 S22: -0.0813 S23: 0.0518 REMARK 3 S31: 0.2385 S32: 0.0861 S33: 0.0001 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN 'C' ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.8694 22.7744 40.1681 REMARK 3 T TENSOR REMARK 3 T11: 0.2540 T22: 0.2947 REMARK 3 T33: 0.2305 T12: 0.0128 REMARK 3 T13: 0.0471 T23: 0.0023 REMARK 3 L TENSOR REMARK 3 L11: 0.0749 L22: 0.1226 REMARK 3 L33: 0.0602 L12: 0.0550 REMARK 3 L13: -0.0348 L23: 0.0146 REMARK 3 S TENSOR REMARK 3 S11: 0.2152 S12: -0.0416 S13: -0.1909 REMARK 3 S21: -0.0892 S22: 0.0898 S23: -0.0621 REMARK 3 S31: 0.0648 S32: 0.3918 S33: 0.0019 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN 'D' ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.9150 20.2275 14.1879 REMARK 3 T TENSOR REMARK 3 T11: 0.3738 T22: 0.3611 REMARK 3 T33: 0.2526 T12: -0.0371 REMARK 3 T13: 0.0393 T23: -0.0437 REMARK 3 L TENSOR REMARK 3 L11: 0.1073 L22: 0.1022 REMARK 3 L33: 0.0979 L12: 0.0486 REMARK 3 L13: -0.0666 L23: -0.0975 REMARK 3 S TENSOR REMARK 3 S11: 0.1121 S12: 0.2972 S13: -0.0202 REMARK 3 S21: -0.0502 S22: 0.2374 S23: 0.3841 REMARK 3 S31: 0.1376 S32: -0.3472 S33: -0.0010 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 6R57 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_1292100968. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-OCT-16 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 20160617 REMARK 200 DATA SCALING SOFTWARE : XDS 20160617 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30422 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.899 REMARK 200 RESOLUTION RANGE LOW (A) : 40.525 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.9200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 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 (%): 42.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1 MICROL 12 MG PER ML RPPEP-1 E143A REMARK 280 Y178F E184A IN 6 MM SUBSTRATE PEPTIDE IN 20 MM TRIS PH 7.5, 200 REMARK 280 MM NACL WAS MIXED WITH 2 MICROL PRECIPITANT SOLUTION CONTAINING: REMARK 280 100 MM TRIS PH 9.0, 2.25 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 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 21.50250 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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: 1840 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -50.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 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 A 23 REMARK 465 SER A 24 REMARK 465 HIS A 25 REMARK 465 MET A 26 REMARK 465 ASP A 27 REMARK 465 SER A 28 REMARK 465 GLY B 23 REMARK 465 SER B 24 REMARK 465 HIS B 25 REMARK 465 MET B 26 REMARK 465 ASP B 27 REMARK 465 SER B 28 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 LYS A 90 CG CD CE NZ REMARK 470 LYS A 158 CG CD CE NZ REMARK 470 GLN A 164 CG CD OE1 NE2 REMARK 470 LYS A 168 CG CD CE NZ REMARK 470 THR B 29 OG1 CG2 REMARK 470 LYS B 90 CG CD CE NZ REMARK 470 LYS B 158 CG CD CE NZ REMARK 470 ASN B 177 CG OD1 ND2 REMARK 470 GLN B 198 CG CD OE1 NE2 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 HZ1 LYS A 101 O HOH A 301 1.48 REMARK 500 O THR B 29 O HOH B 401 1.96 REMARK 500 NZ LYS A 101 O HOH A 301 2.02 REMARK 500 OD1 ASN B 55 O HOH B 402 2.05 REMARK 500 O HOH A 302 O HOH A 431 2.14 REMARK 500 O HOH B 517 O HOH B 529 2.15 REMARK 500 O HOH B 485 O HOH B 531 2.15 REMARK 500 OD2 ASP A 88 O HOH A 302 2.16 REMARK 500 O HOH B 437 O HOH B 512 2.16 REMARK 500 O HOH A 427 O HOH A 437 2.17 REMARK 500 O HOH B 510 O HOH B 520 2.18 REMARK 500 O HOH A 416 O HOH A 433 2.19 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 A 178 -62.13 -122.88 REMARK 500 PHE B 178 -59.98 -121.57 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 438 DISTANCE = 5.96 ANGSTROMS REMARK 525 HOH A 439 DISTANCE = 7.09 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 ZN B 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 142 NE2 REMARK 620 2 HIS B 146 NE2 86.8 REMARK 620 3 GLU B 185 OE1 98.5 106.8 REMARK 620 4 GLU B 185 OE2 157.8 95.6 59.6 REMARK 620 5 PRO D 14 O 116.9 119.8 121.2 81.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide ACE C 10 and GLU C REMARK 800 11 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide VAL C 16 and LPD C REMARK 800 17 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide ACE D 10 and GLU D REMARK 800 11 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide VAL D 16 and LPD D REMARK 800 17 DBREF 6R57 A 27 220 UNP Q183R7 PPEP1_PEPD6 27 220 DBREF 6R57 B 27 220 UNP Q183R7 PPEP1_PEPD6 27 220 DBREF 6R57 C 10 17 PDB 6R57 6R57 10 17 DBREF 6R57 D 10 17 PDB 6R57 6R57 10 17 SEQADV 6R57 GLY A 23 UNP Q183R7 EXPRESSION TAG SEQADV 6R57 SER A 24 UNP Q183R7 EXPRESSION TAG SEQADV 6R57 HIS A 25 UNP Q183R7 EXPRESSION TAG SEQADV 6R57 MET A 26 UNP Q183R7 EXPRESSION TAG SEQADV 6R57 ALA A 143 UNP Q183R7 GLU 143 ENGINEERED MUTATION SEQADV 6R57 PHE A 178 UNP Q183R7 TYR 178 ENGINEERED MUTATION SEQADV 6R57 ALA A 184 UNP Q183R7 GLU 184 ENGINEERED MUTATION SEQADV 6R57 GLY B 23 UNP Q183R7 EXPRESSION TAG SEQADV 6R57 SER B 24 UNP Q183R7 EXPRESSION TAG SEQADV 6R57 HIS B 25 UNP Q183R7 EXPRESSION TAG SEQADV 6R57 MET B 26 UNP Q183R7 EXPRESSION TAG SEQADV 6R57 ALA B 143 UNP Q183R7 GLU 143 ENGINEERED MUTATION SEQADV 6R57 PHE B 178 UNP Q183R7 TYR 178 ENGINEERED MUTATION SEQADV 6R57 ALA B 184 UNP Q183R7 GLU 184 ENGINEERED MUTATION 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 ALA 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 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 ALA 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 C 8 ACE GLU VAL ASN PRO PRO VAL LPD SEQRES 1 D 8 ACE GLU VAL ASN PRO PRO VAL LPD HET ACE C 10 6 HET LPD C 17 17 HET ACE D 10 6 HET LPD D 17 17 HET ZN B 301 1 HETNAM ACE ACETYL GROUP HETNAM LPD L-PROLINAMIDE HETNAM ZN ZINC ION FORMUL 3 ACE 2(C2 H4 O) FORMUL 3 LPD 2(C5 H10 N2 O) FORMUL 5 ZN ZN 2+ FORMUL 6 HOH *283(H2 O) HELIX 1 AA1 THR A 29 GLN A 40 1 12 HELIX 2 AA2 ASP A 50 ALA A 62 1 13 HELIX 3 AA3 ASP A 65 ASN A 75 1 11 HELIX 4 AA4 LYS A 85 LYS A 96 5 12 HELIX 5 AA5 THR A 109 VAL A 113 5 5 HELIX 6 AA6 ASN A 138 ILE A 151 1 14 HELIX 7 AA7 ASP A 155 LYS A 158 5 4 HELIX 8 AA8 SER A 159 GLY A 170 1 12 HELIX 9 AA9 TYR A 182 ASN A 197 1 16 HELIX 10 AB1 ASN A 197 CYS A 208 1 12 HELIX 11 AB2 CYS A 208 ALA A 219 1 12 HELIX 12 AB3 THR B 30 ILE B 41 1 12 HELIX 13 AB4 ASP B 50 ALA B 62 1 13 HELIX 14 AB5 ASP B 65 ASN B 75 1 11 HELIX 15 AB6 LYS B 85 LYS B 96 5 12 HELIX 16 AB7 THR B 109 VAL B 113 5 5 HELIX 17 AB8 ASN B 138 ILE B 151 1 14 HELIX 18 AB9 ASP B 155 LYS B 158 5 4 HELIX 19 AC1 SER B 159 GLY B 170 1 12 HELIX 20 AC2 ASN B 175 GLY B 180 1 6 HELIX 21 AC3 TYR B 182 ASN B 197 1 16 HELIX 22 AC4 ASN B 197 CYS B 208 1 12 HELIX 23 AC5 CYS B 208 LYS B 220 1 13 SHEET 1 AA1 5 VAL A 42 VAL A 43 0 SHEET 2 AA1 5 ILE A 79 LEU A 82 1 O LEU A 81 N VAL A 43 SHEET 3 AA1 5 VAL A 121 ARG A 124 1 O LEU A 123 N LEU A 82 SHEET 4 AA1 5 GLY A 115 GLY A 118 -1 N LEU A 116 O ALA A 122 SHEET 5 AA1 5 VAL C 12 ASN C 13 -1 O ASN C 13 N GLY A 117 SHEET 1 AA2 5 VAL B 42 VAL B 43 0 SHEET 2 AA2 5 ILE B 79 LEU B 82 1 O LEU B 81 N VAL B 43 SHEET 3 AA2 5 VAL B 121 ARG B 124 1 O LEU B 123 N LEU B 82 SHEET 4 AA2 5 GLY B 115 GLY B 118 -1 N LEU B 116 O ALA B 122 SHEET 5 AA2 5 VAL D 12 ASN D 13 -1 O ASN D 13 N GLY B 117 LINK C ACE C 10 N GLU C 11 1555 1555 1.33 LINK C VAL C 16 N LPD C 17 1555 1555 1.33 LINK C ACE D 10 N GLU D 11 1555 1555 1.33 LINK C VAL D 16 N LPD D 17 1555 1555 1.33 LINK NE2 HIS B 142 ZN ZN B 301 1555 1555 2.09 LINK NE2 HIS B 146 ZN ZN B 301 1555 1555 2.22 LINK OE1 GLU B 185 ZN ZN B 301 1555 1555 1.79 LINK OE2 GLU B 185 ZN ZN B 301 1555 1555 2.47 LINK ZN ZN B 301 O PRO D 14 1555 1555 2.03 SITE 1 AC1 4 HIS B 142 HIS B 146 GLU B 185 PRO D 14 SITE 1 AC2 7 GLY A 118 SER A 119 HIS A 150 GLN A 198 SITE 2 AC2 7 VAL C 12 ASN C 13 HOH C 104 SITE 1 AC3 7 GLY A 102 HIS A 134 ASP A 135 ALA A 136 SITE 2 AC3 7 ASN A 175 PHE A 178 PRO C 15 SITE 1 AC4 8 THR B 30 GLY B 118 SER B 119 HIS B 150 SITE 2 AC4 8 HOH B 417 VAL D 12 ASN D 13 HOH D 101 SITE 1 AC5 10 GLU A 104 GLY A 105 TRP B 103 HIS B 134 SITE 2 AC5 10 ASP B 135 ALA B 136 ASN B 175 PHE B 178 SITE 3 AC5 10 HOH B 408 PRO D 15 CRYST1 37.202 43.005 121.908 90.00 96.71 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 0.026880 0.000000 0.003162 0.00000 SCALE2 0.000000 0.023253 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008259 0.00000