HEADER HYDROLASE 24-MAR-19 6R4X TITLE CRYSTAL STRUCTURE OF PPEP-1(E143A/Y178F) IN COMPLEX WITH SUBSTRATE TITLE 2 PEPTIDE AC-EVNPAVP-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-ALA-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 6R4X 1 LINK REVDAT 3 07-AUG-19 6R4X 1 JRNL REMARK REVDAT 2 26-JUN-19 6R4X 1 JRNL REVDAT 1 12-JUN-19 6R4X 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. 1.83 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) : 1.83 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 60.21 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.450 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 33600 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.980 REMARK 3 FREE R VALUE TEST SET COUNT : 1674 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 60.2391 - 4.1924 0.99 2773 144 0.1541 0.1865 REMARK 3 2 4.1924 - 3.3277 0.99 2672 139 0.1396 0.1706 REMARK 3 3 3.3277 - 2.9071 1.00 2706 146 0.1604 0.2116 REMARK 3 4 2.9071 - 2.6413 0.99 2654 133 0.1712 0.2237 REMARK 3 5 2.6413 - 2.4520 1.00 2657 144 0.1733 0.2096 REMARK 3 6 2.4520 - 2.3074 1.00 2668 140 0.1733 0.1991 REMARK 3 7 2.3074 - 2.1918 0.99 2612 138 0.1889 0.2017 REMARK 3 8 2.1918 - 2.0964 0.99 2639 136 0.2018 0.2496 REMARK 3 9 2.0964 - 2.0157 0.99 2678 132 0.2199 0.2423 REMARK 3 10 2.0157 - 1.9462 0.99 2598 146 0.2444 0.2573 REMARK 3 11 1.9462 - 1.8853 1.00 2665 139 0.2646 0.3012 REMARK 3 12 1.8853 - 1.8314 0.99 2604 137 0.3048 0.3405 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) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.570 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 3280 REMARK 3 ANGLE : 0.581 4454 REMARK 3 CHIRALITY : 0.039 488 REMARK 3 PLANARITY : 0.003 587 REMARK 3 DIHEDRAL : 2.947 2667 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 26 THROUGH 151) REMARK 3 ORIGIN FOR THE GROUP (A): 1.4092 15.4916 -12.1851 REMARK 3 T TENSOR REMARK 3 T11: 0.1950 T22: 0.1286 REMARK 3 T33: 0.1274 T12: 0.0128 REMARK 3 T13: -0.0263 T23: 0.0069 REMARK 3 L TENSOR REMARK 3 L11: 1.2637 L22: 2.0754 REMARK 3 L33: 1.5305 L12: 0.0594 REMARK 3 L13: -0.1292 L23: 0.1630 REMARK 3 S TENSOR REMARK 3 S11: 0.0498 S12: 0.0081 S13: 0.0483 REMARK 3 S21: 0.0061 S22: -0.0417 S23: 0.0039 REMARK 3 S31: -0.0618 S32: 0.0016 S33: -0.0008 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN 'B' AND RESID 29 THROUGH 151) REMARK 3 ORIGIN FOR THE GROUP (A): -18.2024 12.7513 -50.3735 REMARK 3 T TENSOR REMARK 3 T11: 0.1021 T22: 0.1435 REMARK 3 T33: 0.1218 T12: 0.0051 REMARK 3 T13: -0.0045 T23: 0.0072 REMARK 3 L TENSOR REMARK 3 L11: 1.1523 L22: 1.2869 REMARK 3 L33: 1.1733 L12: 0.0710 REMARK 3 L13: -0.4590 L23: -0.0161 REMARK 3 S TENSOR REMARK 3 S11: 0.0503 S12: 0.0777 S13: 0.0449 REMARK 3 S21: 0.0791 S22: -0.0335 S23: 0.0023 REMARK 3 S31: 0.0051 S32: -0.0502 S33: -0.0208 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN 'A' AND RESID 152 THROUGH 220) REMARK 3 ORIGIN FOR THE GROUP (A): -5.6830 -0.1215 -19.3344 REMARK 3 T TENSOR REMARK 3 T11: 0.2496 T22: 0.1412 REMARK 3 T33: 0.1479 T12: 0.0032 REMARK 3 T13: -0.0622 T23: -0.0011 REMARK 3 L TENSOR REMARK 3 L11: 1.9981 L22: 2.7041 REMARK 3 L33: 2.1526 L12: -0.1167 REMARK 3 L13: -0.0626 L23: 0.4385 REMARK 3 S TENSOR REMARK 3 S11: 0.0714 S12: 0.0714 S13: -0.0957 REMARK 3 S21: -0.2385 S22: -0.0873 S23: 0.1616 REMARK 3 S31: 0.1856 S32: -0.0735 S33: 0.0016 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN 'B' AND RESID 152 THROUGH 220) REMARK 3 ORIGIN FOR THE GROUP (A): -16.5733 -3.8884 -41.8379 REMARK 3 T TENSOR REMARK 3 T11: 0.2329 T22: 0.1452 REMARK 3 T33: 0.1950 T12: 0.0096 REMARK 3 T13: 0.0133 T23: 0.0084 REMARK 3 L TENSOR REMARK 3 L11: 2.2335 L22: 2.7766 REMARK 3 L33: 2.3185 L12: 0.1345 REMARK 3 L13: 0.1560 L23: -0.2010 REMARK 3 S TENSOR REMARK 3 S11: -0.0233 S12: -0.0372 S13: -0.1691 REMARK 3 S21: 0.3103 S22: -0.0600 S23: 0.0321 REMARK 3 S31: 0.2076 S32: 0.0571 S33: 0.0767 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN 'C' ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.7986 7.1385 -46.3420 REMARK 3 T TENSOR REMARK 3 T11: 0.2577 T22: 0.2743 REMARK 3 T33: 0.2675 T12: -0.0255 REMARK 3 T13: 0.0390 T23: 0.0091 REMARK 3 L TENSOR REMARK 3 L11: 6.8390 L22: 5.4780 REMARK 3 L33: 2.5207 L12: 0.2985 REMARK 3 L13: 4.1424 L23: 0.1208 REMARK 3 S TENSOR REMARK 3 S11: -0.0901 S12: 0.2929 S13: -0.0969 REMARK 3 S21: -0.4442 S22: 0.3757 S23: 0.2304 REMARK 3 S31: 0.3167 S32: 0.0976 S33: -0.2241 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN 'D' ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.5382 9.4060 -20.1357 REMARK 3 T TENSOR REMARK 3 T11: 0.2914 T22: 0.2929 REMARK 3 T33: 0.2067 T12: 0.0401 REMARK 3 T13: 0.0583 T23: 0.0716 REMARK 3 L TENSOR REMARK 3 L11: 9.3633 L22: 3.2555 REMARK 3 L33: 9.7822 L12: -1.9615 REMARK 3 L13: 7.1788 L23: -1.9889 REMARK 3 S TENSOR REMARK 3 S11: -0.0666 S12: -0.3465 S13: -0.2559 REMARK 3 S21: -0.0425 S22: 0.0558 S23: -0.0841 REMARK 3 S31: 0.0445 S32: 0.1614 S33: 0.0371 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 6R4X 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_1292101011. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-NOV-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 : PETRA III, EMBL C/O DESY REMARK 200 BEAMLINE : P13 (MX1) 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 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33603 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.831 REMARK 200 RESOLUTION RANGE LOW (A) : 60.210 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.5900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.83 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 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 (%): 42.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2 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 1 MICROL PRECIPITANT SOLUTION CONTAINING: REMARK 280 100 MM TRIS PH 7.5, 2.25 M AMMONIUM PHOSPHATE. RESERVOIR REMARK 280 SOLUTION: 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 21.46650 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: 1890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -49.0 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: 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: 8910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -49.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 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 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 MET A 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 B 593 O HOH B 595 2.00 REMARK 500 OE2 GLU A 104 O HOH A 401 2.07 REMARK 500 OD1 ASN B 175 O HOH B 401 2.11 REMARK 500 OD1 ASN A 129 O HOH A 402 2.18 REMARK 500 NZ LYS A 203 O HOH A 403 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 525 O HOH A 551 1655 2.11 REMARK 500 O HOH A 485 O HOH A 533 2555 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 A 178 -60.84 -128.65 REMARK 500 PHE B 178 -59.03 -125.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 142 NE2 REMARK 620 2 HIS A 146 NE2 101.3 REMARK 620 3 GLU A 185 OE1 96.8 85.3 REMARK 620 4 PRO D 122 O 97.1 141.0 126.4 REMARK 620 N 1 2 3 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 92.7 REMARK 620 3 GLU B 185 OE1 91.2 76.4 REMARK 620 4 PRO C 122 O 116.9 137.4 128.7 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide ACE C 118 and GLU C REMARK 800 119 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide VAL C 124 and LPD C REMARK 800 125 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide ACE D 118 and GLU D REMARK 800 119 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide VAL D 124 and LPD D REMARK 800 125 DBREF 6R4X A 27 220 UNP Q183R7 PPEP1_PEPD6 27 220 DBREF 6R4X B 27 220 UNP Q183R7 PPEP1_PEPD6 27 220 DBREF 6R4X C 118 125 PDB 6R4X 6R4X 118 125 DBREF 6R4X D 118 125 PDB 6R4X 6R4X 118 125 SEQADV 6R4X GLY A 23 UNP Q183R7 EXPRESSION TAG SEQADV 6R4X SER A 24 UNP Q183R7 EXPRESSION TAG SEQADV 6R4X HIS A 25 UNP Q183R7 EXPRESSION TAG SEQADV 6R4X MET A 26 UNP Q183R7 EXPRESSION TAG SEQADV 6R4X ALA A 143 UNP Q183R7 GLU 143 CONFLICT SEQADV 6R4X PHE A 178 UNP Q183R7 TYR 178 CONFLICT SEQADV 6R4X GLY B 23 UNP Q183R7 EXPRESSION TAG SEQADV 6R4X SER B 24 UNP Q183R7 EXPRESSION TAG SEQADV 6R4X HIS B 25 UNP Q183R7 EXPRESSION TAG SEQADV 6R4X MET B 26 UNP Q183R7 EXPRESSION TAG SEQADV 6R4X ALA B 143 UNP Q183R7 GLU 143 CONFLICT SEQADV 6R4X PHE B 178 UNP Q183R7 TYR 178 CONFLICT 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 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 C 8 ACE GLU VAL ASN PRO ALA VAL LPD SEQRES 1 D 8 ACE GLU VAL ASN PRO ALA VAL LPD HET ACE C 118 6 HET LPD C 125 17 HET ACE D 118 6 HET LPD D 125 17 HET ZN A 301 1 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 2(ZN 2+) FORMUL 7 HOH *386(H2 O) HELIX 1 AA1 ASP A 27 GLN A 40 1 14 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 VAL A 152 1 15 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 LYS A 220 1 13 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 VAL B 152 1 15 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 TYR B 182 ASN B 197 1 16 HELIX 21 AC3 ASN B 197 CYS B 208 1 12 HELIX 22 AC4 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 D 120 PRO D 122 -1 O ASN D 121 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 C 120 PRO C 122 -1 O ASN C 121 N GLY B 117 LINK C ACE C 118 N GLU C 119 1555 1555 1.33 LINK C VAL C 124 N LPD C 125 1555 1555 1.34 LINK C ACE D 118 N GLU D 119 1555 1555 1.33 LINK C VAL D 124 N LPD D 125 1555 1555 1.33 LINK NE2 HIS A 142 ZN ZN A 301 1555 1555 2.07 LINK NE2 HIS A 146 ZN ZN A 301 1555 1555 2.19 LINK OE1 GLU A 185 ZN ZN A 301 1555 1555 1.95 LINK ZN ZN A 301 O PRO D 122 1555 1555 2.39 LINK NE2 HIS B 142 ZN ZN B 301 1555 1555 2.09 LINK NE2 HIS B 146 ZN ZN B 301 1555 1555 2.37 LINK OE1 GLU B 185 ZN ZN B 301 1555 1555 1.98 LINK ZN ZN B 301 O PRO C 122 1555 1555 2.42 SITE 1 AC1 4 HIS A 142 HIS A 146 GLU A 185 PRO D 122 SITE 1 AC2 4 HIS B 142 HIS B 146 GLU B 185 PRO C 122 SITE 1 AC3 6 GLY B 118 SER B 119 HIS B 150 HOH B 477 SITE 2 AC3 6 VAL C 120 ASN C 121 SITE 1 AC4 13 GLU A 104 GLY A 105 GLY B 102 TRP B 103 SITE 2 AC4 13 HIS B 134 ASP B 135 ALA B 136 HIS B 142 SITE 3 AC4 13 ASN B 175 PHE B 178 HOH B 401 HOH B 487 SITE 4 AC4 13 ALA C 123 SITE 1 AC5 9 GLY A 118 SER A 119 HIS A 150 ASP A 155 SITE 2 AC5 9 LYS A 158 GLN A 198 HOH A 422 VAL D 120 SITE 3 AC5 9 ASN D 121 SITE 1 AC6 11 GLY A 102 TRP A 103 HIS A 134 ASP A 135 SITE 2 AC6 11 ALA A 136 HIS A 142 PHE A 178 HOH A 406 SITE 3 AC6 11 ALA D 123 HOH D 203 HOH D 204 CRYST1 37.237 42.933 121.227 90.00 96.64 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 0.026855 0.000000 0.003128 0.00000 SCALE2 0.000000 0.023292 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008305 0.00000