HEADER HYDROLASE 30-JUN-14 4QR8 TITLE CRYSTAL STRUCTURE OF E COLI PEPQ COMPND MOL_ID: 1; COMPND 2 MOLECULE: XAA-PRO DIPEPTIDASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: PEPQ; COMPND 5 SYNONYM: X-PRO DIPEPTIDASE, IMIDODIPEPTIDASE, PROLINE DIPEPTIDASE, COMPND 6 PROLIDASE; COMPND 7 EC: 3.4.13.9; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: PEPQ, B3847, JW3823; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PEPQ, PROTEASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR L.PINGWEI REVDAT 3 28-FEB-24 4QR8 1 REMARK LINK REVDAT 2 22-NOV-17 4QR8 1 REMARK REVDAT 1 25-FEB-15 4QR8 0 JRNL AUTH J.WEAVER,T.WATTS,P.LI,H.S.RYE JRNL TITL STRUCTURAL BASIS OF SUBSTRATE SELECTIVITY OF E. COLI JRNL TITL 2 PROLIDASE. JRNL REF PLOS ONE V. 9 11531 2014 JRNL REFN ESSN 1932-6203 JRNL PMID 25354344 JRNL DOI 10.1371/JOURNAL.PONE.0111531 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.45 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 59597 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.350 REMARK 3 FREE R VALUE TEST SET COUNT : 1995 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 40.4579 - 4.8151 0.98 4428 153 0.1584 0.1811 REMARK 3 2 4.8151 - 3.8228 0.99 4287 148 0.1292 0.1678 REMARK 3 3 3.8228 - 3.3398 0.99 4238 147 0.1421 0.1807 REMARK 3 4 3.3398 - 3.0346 0.98 4184 145 0.1622 0.1979 REMARK 3 5 3.0346 - 2.8171 0.98 4166 145 0.1759 0.2120 REMARK 3 6 2.8171 - 2.6511 0.97 4111 143 0.1810 0.2218 REMARK 3 7 2.6511 - 2.5183 0.97 4126 143 0.1840 0.2505 REMARK 3 8 2.5183 - 2.4087 0.98 4107 142 0.1814 0.2690 REMARK 3 9 2.4087 - 2.3160 0.97 4101 142 0.1851 0.2137 REMARK 3 10 2.3160 - 2.2361 0.95 4009 137 0.2414 0.2762 REMARK 3 11 2.2361 - 2.1662 0.96 4014 138 0.2206 0.2338 REMARK 3 12 2.1662 - 2.1043 0.96 4078 142 0.2182 0.2425 REMARK 3 13 2.1043 - 2.0489 0.94 3934 137 0.2413 0.2767 REMARK 3 14 2.0489 - 1.9989 0.91 3819 133 0.2723 0.3159 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.670 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 7246 REMARK 3 ANGLE : 0.802 9862 REMARK 3 CHIRALITY : 0.059 1066 REMARK 3 PLANARITY : 0.003 1284 REMARK 3 DIHEDRAL : 11.363 2634 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 3 THROUGH 83 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.3246 1.9695 11.0573 REMARK 3 T TENSOR REMARK 3 T11: 0.0973 T22: 0.1723 REMARK 3 T33: 0.0548 T12: -0.0094 REMARK 3 T13: -0.0212 T23: -0.0065 REMARK 3 L TENSOR REMARK 3 L11: 0.2954 L22: 0.5759 REMARK 3 L33: 0.4784 L12: 0.1192 REMARK 3 L13: -0.2269 L23: -0.4510 REMARK 3 S TENSOR REMARK 3 S11: 0.0241 S12: -0.1030 S13: -0.0979 REMARK 3 S21: 0.0126 S22: -0.1279 S23: 0.0213 REMARK 3 S31: -0.0123 S32: 0.2031 S33: -0.2607 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 84 THROUGH 163 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.7765 -0.4674 12.4033 REMARK 3 T TENSOR REMARK 3 T11: 0.1357 T22: 0.1331 REMARK 3 T33: 0.1050 T12: -0.0113 REMARK 3 T13: -0.0028 T23: 0.0031 REMARK 3 L TENSOR REMARK 3 L11: 0.4485 L22: 0.3032 REMARK 3 L33: 0.2627 L12: 0.0453 REMARK 3 L13: -0.2167 L23: 0.0318 REMARK 3 S TENSOR REMARK 3 S11: 0.0038 S12: -0.0600 S13: -0.1280 REMARK 3 S21: 0.1280 S22: -0.0300 S23: 0.0214 REMARK 3 S31: -0.0041 S32: 0.1063 S33: 0.0033 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 164 THROUGH 268 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.4054 6.2269 -15.6623 REMARK 3 T TENSOR REMARK 3 T11: 0.1162 T22: 0.0847 REMARK 3 T33: 0.1066 T12: 0.0069 REMARK 3 T13: 0.0056 T23: 0.0009 REMARK 3 L TENSOR REMARK 3 L11: 0.4133 L22: 0.3661 REMARK 3 L33: 0.0510 L12: -0.0417 REMARK 3 L13: 0.0516 L23: -0.1691 REMARK 3 S TENSOR REMARK 3 S11: 0.0306 S12: -0.0637 S13: -0.0882 REMARK 3 S21: -0.1076 S22: -0.0111 S23: -0.0260 REMARK 3 S31: 0.0865 S32: 0.0353 S33: 0.0051 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 269 THROUGH 443 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.7596 25.9559 -12.6195 REMARK 3 T TENSOR REMARK 3 T11: 0.0580 T22: 0.0818 REMARK 3 T33: 0.0815 T12: 0.0021 REMARK 3 T13: -0.0172 T23: 0.0029 REMARK 3 L TENSOR REMARK 3 L11: 0.2026 L22: 0.8582 REMARK 3 L33: 0.2976 L12: 0.4441 REMARK 3 L13: -0.1957 L23: -0.2274 REMARK 3 S TENSOR REMARK 3 S11: -0.0198 S12: -0.0044 S13: 0.0361 REMARK 3 S21: -0.0116 S22: -0.0006 S23: 0.0572 REMARK 3 S31: -0.0126 S32: 0.0275 S33: -0.0006 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 3 THROUGH 88 ) REMARK 3 ORIGIN FOR THE GROUP (A): -38.7110 1.1559 -20.9852 REMARK 3 T TENSOR REMARK 3 T11: 0.0843 T22: 0.1297 REMARK 3 T33: 0.0907 T12: -0.0205 REMARK 3 T13: -0.0270 T23: 0.0080 REMARK 3 L TENSOR REMARK 3 L11: 0.3492 L22: 0.3060 REMARK 3 L33: 0.3662 L12: -0.0670 REMARK 3 L13: -0.1352 L23: -0.0965 REMARK 3 S TENSOR REMARK 3 S11: -0.0447 S12: 0.2151 S13: 0.1037 REMARK 3 S21: 0.0324 S22: -0.0039 S23: 0.0948 REMARK 3 S31: -0.0732 S32: 0.0788 S33: -0.0114 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 89 THROUGH 163 ) REMARK 3 ORIGIN FOR THE GROUP (A): -41.7292 3.2014 -19.5027 REMARK 3 T TENSOR REMARK 3 T11: 0.1113 T22: 0.1094 REMARK 3 T33: 0.1653 T12: -0.0129 REMARK 3 T13: -0.0160 T23: 0.0028 REMARK 3 L TENSOR REMARK 3 L11: 0.2266 L22: 0.1866 REMARK 3 L33: 0.3011 L12: 0.0272 REMARK 3 L13: 0.0541 L23: 0.1439 REMARK 3 S TENSOR REMARK 3 S11: -0.0299 S12: 0.0562 S13: 0.1031 REMARK 3 S21: 0.0165 S22: 0.0018 S23: 0.1042 REMARK 3 S31: -0.0359 S32: 0.0560 S33: -0.0002 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 164 THROUGH 235 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.8038 -15.3254 -17.3011 REMARK 3 T TENSOR REMARK 3 T11: 0.0713 T22: -0.0208 REMARK 3 T33: 0.1014 T12: 0.0039 REMARK 3 T13: 0.0364 T23: -0.0300 REMARK 3 L TENSOR REMARK 3 L11: 0.6064 L22: 0.7793 REMARK 3 L33: 0.4573 L12: -0.2665 REMARK 3 L13: 0.0998 L23: -0.2830 REMARK 3 S TENSOR REMARK 3 S11: -0.0576 S12: 0.5233 S13: 0.0064 REMARK 3 S21: 0.0307 S22: -0.1073 S23: -0.1936 REMARK 3 S31: -0.1539 S32: 0.1836 S33: -0.1825 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 236 THROUGH 443 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.1240 -30.4590 -12.1737 REMARK 3 T TENSOR REMARK 3 T11: 0.0823 T22: 0.0523 REMARK 3 T33: 0.0822 T12: 0.0146 REMARK 3 T13: 0.0010 T23: -0.0631 REMARK 3 L TENSOR REMARK 3 L11: 0.6236 L22: 0.5648 REMARK 3 L33: 0.2001 L12: 0.0702 REMARK 3 L13: 0.1041 L23: -0.2909 REMARK 3 S TENSOR REMARK 3 S11: 0.0164 S12: 0.0477 S13: -0.0731 REMARK 3 S21: -0.0212 S22: 0.0043 S23: -0.0400 REMARK 3 S31: 0.0524 S32: -0.0534 S33: 0.0034 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 4QR8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-JUL-14. REMARK 100 THE DEPOSITION ID IS D_1000086411. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 120 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : SI REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 59597 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.69500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS-TRIS, PH 6.5, 19% PEG MME REMARK 280 5000, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K 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 36.28450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 63.46800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 48.72000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 63.46800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.28450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 48.72000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34570 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -65.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 MET A 1 REMARK 465 GLU A 2 REMARK 465 MET B 1 REMARK 465 GLU B 2 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 1136 O HOH A 1168 1.87 REMARK 500 O HOH B 1238 O HOH B 1242 1.91 REMARK 500 O HOH A 1077 O HOH A 1078 1.92 REMARK 500 O HOH B 1157 O HOH B 1196 1.93 REMARK 500 O HOH A 1157 O HOH A 1224 1.95 REMARK 500 O HOH A 1186 O HOH A 1230 1.97 REMARK 500 O HOH A 945 O HOH A 1012 1.98 REMARK 500 O HOH B 1039 O HOH B 1230 1.99 REMARK 500 O HOH A 1124 O HOH A 1127 2.00 REMARK 500 O HOH A 806 O HOH A 1119 2.01 REMARK 500 O TYR B 88 O HOH B 788 2.03 REMARK 500 OE2 GLU B 320 O HOH B 950 2.03 REMARK 500 O HOH B 1186 O HOH B 1240 2.06 REMARK 500 O HOH B 964 O HOH B 1163 2.06 REMARK 500 O HOH B 939 O HOH B 975 2.08 REMARK 500 O LEU A 95 O HOH A 948 2.08 REMARK 500 O HOH A 823 O HOH A 920 2.09 REMARK 500 O HOH B 1143 O HOH B 1221 2.10 REMARK 500 O HOH B 920 O HOH B 967 2.10 REMARK 500 OE2 GLU B 222 O HOH B 1017 2.11 REMARK 500 OD2 ASP A 103 O HOH A 1064 2.11 REMARK 500 O HOH A 865 O HOH A 1028 2.11 REMARK 500 O HOH B 1105 O HOH B 1165 2.11 REMARK 500 OD2 ASP A 29 O HOH A 825 2.12 REMARK 500 O HOH A 1114 O HOH A 1150 2.12 REMARK 500 OE2 GLU B 105 O HOH B 917 2.13 REMARK 500 O HIS B 90 O HOH B 1111 2.13 REMARK 500 OE1 GLU B 325 O HOH B 1014 2.13 REMARK 500 OE1 GLU A 399 O HOH A 1155 2.13 REMARK 500 O HOH B 826 O HOH B 1100 2.14 REMARK 500 O HOH B 1100 O HOH B 1114 2.14 REMARK 500 O VAL A 92 O HOH A 1083 2.14 REMARK 500 O HOH B 1130 O HOH B 1134 2.14 REMARK 500 O HOH B 689 O HOH B 763 2.14 REMARK 500 O HOH B 1219 O HOH B 1250 2.15 REMARK 500 O HOH B 1182 O HOH B 1183 2.15 REMARK 500 O HOH A 1192 O HOH A 1194 2.15 REMARK 500 O PHE B 99 O HOH B 811 2.15 REMARK 500 O HOH B 1185 O HOH B 1212 2.16 REMARK 500 O HOH A 1183 O HOH A 1184 2.16 REMARK 500 O GLU A 399 O HOH A 1113 2.17 REMARK 500 O HOH B 711 O HOH B 1026 2.17 REMARK 500 O HOH A 700 O HOH A 1087 2.17 REMARK 500 O ASN A 40 O HOH A 1056 2.17 REMARK 500 O HOH B 1120 O HOH B 1142 2.17 REMARK 500 O HOH B 1088 O HOH B 1098 2.18 REMARK 500 ND2 ASN B 91 O HOH B 1054 2.18 REMARK 500 O HOH B 787 O HOH B 826 2.18 REMARK 500 NE2 GLN B 64 O HOH B 1174 2.19 REMARK 500 O HOH B 1161 O HOH B 1164 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 1126 O HOH B 1136 3454 1.89 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 PRO A 61 49.02 -77.93 REMARK 500 VAL A 75 -59.23 -124.80 REMARK 500 SER A 98 -174.84 -69.04 REMARK 500 ASN A 221 -124.40 51.28 REMARK 500 VAL B 75 -57.50 -122.75 REMARK 500 TYR B 88 13.35 -69.13 REMARK 500 HIS B 90 -161.54 42.00 REMARK 500 SER B 98 -168.93 -73.24 REMARK 500 ASN B 221 -125.98 55.33 REMARK 500 HIS B 228 71.56 -107.65 REMARK 500 PRO B 334 38.12 -82.43 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 MG A 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 246 OD2 REMARK 620 2 ASP A 246 OD1 53.6 REMARK 620 3 ASP A 257 OD1 125.4 72.6 REMARK 620 4 ASP A 257 OD2 164.0 120.6 48.6 REMARK 620 5 GLU A 423 OE1 108.1 95.1 83.0 86.7 REMARK 620 6 HOH A1174 O 81.7 83.1 83.7 82.8 166.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 257 OD2 REMARK 620 2 GLU A 384 OE2 159.0 REMARK 620 3 GLU A 423 OE2 77.4 82.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 246 OD2 REMARK 620 2 ASP B 246 OD1 51.1 REMARK 620 3 ASP B 257 OD1 117.3 66.6 REMARK 620 4 ASP B 257 OD2 163.2 115.4 49.0 REMARK 620 5 GLU B 423 OE1 101.1 91.1 84.7 88.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 257 OD2 REMARK 620 2 GLU B 384 OE2 156.8 REMARK 620 3 GLU B 423 OE2 76.4 83.2 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 502 DBREF 4QR8 A 1 443 UNP P21165 PEPQ_ECOLI 1 443 DBREF 4QR8 B 1 443 UNP P21165 PEPQ_ECOLI 1 443 SEQRES 1 A 443 MET GLU SER LEU ALA SER LEU TYR LYS ASN HIS ILE ALA SEQRES 2 A 443 THR LEU GLN GLU ARG THR ARG ASP ALA LEU ALA ARG PHE SEQRES 3 A 443 LYS LEU ASP ALA LEU LEU ILE HIS SER GLY GLU LEU PHE SEQRES 4 A 443 ASN VAL PHE LEU ASP ASP HIS PRO TYR PRO PHE LYS VAL SEQRES 5 A 443 ASN PRO GLN PHE LYS ALA TRP VAL PRO VAL THR GLN VAL SEQRES 6 A 443 PRO ASN CYS TRP LEU LEU VAL ASP GLY VAL ASN LYS PRO SEQRES 7 A 443 LYS LEU TRP PHE TYR LEU PRO VAL ASP TYR TRP HIS ASN SEQRES 8 A 443 VAL GLU PRO LEU PRO THR SER PHE TRP THR GLU ASP VAL SEQRES 9 A 443 GLU VAL ILE ALA LEU PRO LYS ALA ASP GLY ILE GLY SER SEQRES 10 A 443 LEU LEU PRO ALA ALA ARG GLY ASN ILE GLY TYR ILE GLY SEQRES 11 A 443 PRO VAL PRO GLU ARG ALA LEU GLN LEU GLY ILE GLU ALA SEQRES 12 A 443 SER ASN ILE ASN PRO LYS GLY VAL ILE ASP TYR LEU HIS SEQRES 13 A 443 TYR TYR ARG SER PHE LYS THR GLU TYR GLU LEU ALA CYS SEQRES 14 A 443 MET ARG GLU ALA GLN LYS MET ALA VAL ASN GLY HIS ARG SEQRES 15 A 443 ALA ALA GLU GLU ALA PHE ARG SER GLY MET SER GLU PHE SEQRES 16 A 443 ASP ILE ASN ILE ALA TYR LEU THR ALA THR GLY HIS ARG SEQRES 17 A 443 ASP THR ASP VAL PRO TYR SER ASN ILE VAL ALA LEU ASN SEQRES 18 A 443 GLU HIS ALA ALA VAL LEU HIS TYR THR LYS LEU ASP HIS SEQRES 19 A 443 GLN ALA PRO GLU GLU MET ARG SER PHE LEU LEU ASP ALA SEQRES 20 A 443 GLY ALA GLU TYR ASN GLY TYR ALA ALA ASP LEU THR ARG SEQRES 21 A 443 THR TRP SER ALA LYS SER ASP ASN ASP TYR ALA GLN LEU SEQRES 22 A 443 VAL LYS ASP VAL ASN ASP GLU GLN LEU ALA LEU ILE ALA SEQRES 23 A 443 THR MET LYS ALA GLY VAL SER TYR VAL ASP TYR HIS ILE SEQRES 24 A 443 GLN PHE HIS GLN ARG ILE ALA LYS LEU LEU ARG LYS HIS SEQRES 25 A 443 GLN ILE ILE THR ASP MET SER GLU GLU ALA MET VAL GLU SEQRES 26 A 443 ASN ASP LEU THR GLY PRO PHE MET PRO HIS GLY ILE GLY SEQRES 27 A 443 HIS PRO LEU GLY LEU GLN VAL HIS ASP VAL ALA GLY PHE SEQRES 28 A 443 MET GLN ASP ASP SER GLY THR HIS LEU ALA ALA PRO ALA SEQRES 29 A 443 LYS TYR PRO TYR LEU ARG CYS THR ARG ILE LEU GLN PRO SEQRES 30 A 443 GLY MET VAL LEU THR ILE GLU PRO GLY ILE TYR PHE ILE SEQRES 31 A 443 GLU SER LEU LEU ALA PRO TRP ARG GLU GLY GLN PHE SER SEQRES 32 A 443 LYS HIS PHE ASN TRP GLN LYS ILE GLU ALA LEU LYS PRO SEQRES 33 A 443 PHE GLY GLY ILE ARG ILE GLU ASP ASN VAL VAL ILE HIS SEQRES 34 A 443 GLU ASN ASN VAL GLU ASN MET THR ARG ASP LEU LYS LEU SEQRES 35 A 443 ALA SEQRES 1 B 443 MET GLU SER LEU ALA SER LEU TYR LYS ASN HIS ILE ALA SEQRES 2 B 443 THR LEU GLN GLU ARG THR ARG ASP ALA LEU ALA ARG PHE SEQRES 3 B 443 LYS LEU ASP ALA LEU LEU ILE HIS SER GLY GLU LEU PHE SEQRES 4 B 443 ASN VAL PHE LEU ASP ASP HIS PRO TYR PRO PHE LYS VAL SEQRES 5 B 443 ASN PRO GLN PHE LYS ALA TRP VAL PRO VAL THR GLN VAL SEQRES 6 B 443 PRO ASN CYS TRP LEU LEU VAL ASP GLY VAL ASN LYS PRO SEQRES 7 B 443 LYS LEU TRP PHE TYR LEU PRO VAL ASP TYR TRP HIS ASN SEQRES 8 B 443 VAL GLU PRO LEU PRO THR SER PHE TRP THR GLU ASP VAL SEQRES 9 B 443 GLU VAL ILE ALA LEU PRO LYS ALA ASP GLY ILE GLY SER SEQRES 10 B 443 LEU LEU PRO ALA ALA ARG GLY ASN ILE GLY TYR ILE GLY SEQRES 11 B 443 PRO VAL PRO GLU ARG ALA LEU GLN LEU GLY ILE GLU ALA SEQRES 12 B 443 SER ASN ILE ASN PRO LYS GLY VAL ILE ASP TYR LEU HIS SEQRES 13 B 443 TYR TYR ARG SER PHE LYS THR GLU TYR GLU LEU ALA CYS SEQRES 14 B 443 MET ARG GLU ALA GLN LYS MET ALA VAL ASN GLY HIS ARG SEQRES 15 B 443 ALA ALA GLU GLU ALA PHE ARG SER GLY MET SER GLU PHE SEQRES 16 B 443 ASP ILE ASN ILE ALA TYR LEU THR ALA THR GLY HIS ARG SEQRES 17 B 443 ASP THR ASP VAL PRO TYR SER ASN ILE VAL ALA LEU ASN SEQRES 18 B 443 GLU HIS ALA ALA VAL LEU HIS TYR THR LYS LEU ASP HIS SEQRES 19 B 443 GLN ALA PRO GLU GLU MET ARG SER PHE LEU LEU ASP ALA SEQRES 20 B 443 GLY ALA GLU TYR ASN GLY TYR ALA ALA ASP LEU THR ARG SEQRES 21 B 443 THR TRP SER ALA LYS SER ASP ASN ASP TYR ALA GLN LEU SEQRES 22 B 443 VAL LYS ASP VAL ASN ASP GLU GLN LEU ALA LEU ILE ALA SEQRES 23 B 443 THR MET LYS ALA GLY VAL SER TYR VAL ASP TYR HIS ILE SEQRES 24 B 443 GLN PHE HIS GLN ARG ILE ALA LYS LEU LEU ARG LYS HIS SEQRES 25 B 443 GLN ILE ILE THR ASP MET SER GLU GLU ALA MET VAL GLU SEQRES 26 B 443 ASN ASP LEU THR GLY PRO PHE MET PRO HIS GLY ILE GLY SEQRES 27 B 443 HIS PRO LEU GLY LEU GLN VAL HIS ASP VAL ALA GLY PHE SEQRES 28 B 443 MET GLN ASP ASP SER GLY THR HIS LEU ALA ALA PRO ALA SEQRES 29 B 443 LYS TYR PRO TYR LEU ARG CYS THR ARG ILE LEU GLN PRO SEQRES 30 B 443 GLY MET VAL LEU THR ILE GLU PRO GLY ILE TYR PHE ILE SEQRES 31 B 443 GLU SER LEU LEU ALA PRO TRP ARG GLU GLY GLN PHE SER SEQRES 32 B 443 LYS HIS PHE ASN TRP GLN LYS ILE GLU ALA LEU LYS PRO SEQRES 33 B 443 PHE GLY GLY ILE ARG ILE GLU ASP ASN VAL VAL ILE HIS SEQRES 34 B 443 GLU ASN ASN VAL GLU ASN MET THR ARG ASP LEU LYS LEU SEQRES 35 B 443 ALA HET MG A 501 1 HET MG A 502 1 HET MG B 501 1 HET MG B 502 1 HETNAM MG MAGNESIUM ION FORMUL 3 MG 4(MG 2+) FORMUL 7 HOH *1314(H2 O) HELIX 1 1 SER A 3 LYS A 27 1 25 HELIX 2 2 ASN A 53 ALA A 58 1 6 HELIX 3 3 SER A 98 ASP A 103 5 6 HELIX 4 4 LYS A 111 ILE A 115 5 5 HELIX 5 5 VAL A 132 LEU A 139 1 8 HELIX 6 6 GLU A 142 ILE A 146 5 5 HELIX 7 7 PRO A 148 SER A 160 1 13 HELIX 8 8 THR A 163 SER A 190 1 28 HELIX 9 9 SER A 193 GLY A 206 1 14 HELIX 10 10 GLU A 222 VAL A 226 5 5 HELIX 11 11 ASN A 268 MET A 288 1 21 HELIX 12 12 SER A 293 HIS A 312 1 20 HELIX 13 13 SER A 319 ASN A 326 1 8 HELIX 14 14 THR A 329 MET A 333 5 5 HELIX 15 15 ILE A 390 GLY A 400 1 11 HELIX 16 16 PHE A 402 PHE A 406 5 5 HELIX 17 17 ASN A 407 LYS A 415 1 9 HELIX 18 18 MET A 436 LEU A 440 1 5 HELIX 19 19 LEU B 4 PHE B 26 1 23 HELIX 20 20 ASN B 53 ALA B 58 1 6 HELIX 21 21 LYS B 111 LEU B 118 5 8 HELIX 22 22 VAL B 132 LEU B 139 1 8 HELIX 23 23 GLU B 142 ILE B 146 5 5 HELIX 24 24 PRO B 148 SER B 160 1 13 HELIX 25 25 THR B 163 SER B 190 1 28 HELIX 26 26 SER B 193 GLY B 206 1 14 HELIX 27 27 GLU B 222 VAL B 226 5 5 HELIX 28 28 ASN B 268 MET B 288 1 21 HELIX 29 29 SER B 293 HIS B 312 1 20 HELIX 30 30 SER B 319 ASN B 326 1 8 HELIX 31 31 THR B 329 MET B 333 5 5 HELIX 32 32 ILE B 390 ALA B 395 1 6 HELIX 33 33 PRO B 396 GLY B 400 5 5 HELIX 34 34 PHE B 402 PHE B 406 5 5 HELIX 35 35 ASN B 407 LYS B 415 1 9 HELIX 36 36 MET B 436 LEU B 440 1 5 SHEET 1 A 5 GLU A 105 LEU A 109 0 SHEET 2 A 5 LYS A 79 TYR A 83 1 N LEU A 80 O GLU A 105 SHEET 3 A 5 TRP A 69 VAL A 72 -1 N TRP A 69 O TRP A 81 SHEET 4 A 5 ALA A 30 HIS A 34 -1 N ILE A 33 O LEU A 70 SHEET 5 A 5 ILE A 126 ILE A 129 1 O GLY A 127 N ALA A 30 SHEET 1 B 3 ILE A 217 LEU A 220 0 SHEET 2 B 3 SER A 242 TYR A 251 -1 O LEU A 244 N ALA A 219 SHEET 3 B 3 TYR A 254 SER A 263 -1 O ARG A 260 N LEU A 245 SHEET 1 C 3 VAL A 380 ILE A 383 0 SHEET 2 C 3 ASP A 424 ILE A 428 -1 O VAL A 426 N LEU A 381 SHEET 3 C 3 VAL A 433 ASN A 435 -1 O GLU A 434 N VAL A 427 SHEET 1 D 2 GLY A 386 TYR A 388 0 SHEET 2 D 2 GLY A 419 ARG A 421 -1 O ILE A 420 N ILE A 387 SHEET 1 E 5 GLU B 105 LEU B 109 0 SHEET 2 E 5 LYS B 79 TYR B 83 1 N LEU B 80 O GLU B 105 SHEET 3 E 5 TRP B 69 VAL B 72 -1 N LEU B 71 O LYS B 79 SHEET 4 E 5 ALA B 30 HIS B 34 -1 N LEU B 31 O VAL B 72 SHEET 5 E 5 ILE B 126 ILE B 129 1 O GLY B 127 N LEU B 32 SHEET 1 F 3 ILE B 217 LEU B 220 0 SHEET 2 F 3 SER B 242 TYR B 251 -1 O LEU B 244 N ALA B 219 SHEET 3 F 3 TYR B 254 SER B 263 -1 O ARG B 260 N LEU B 245 SHEET 1 G 3 VAL B 380 ILE B 383 0 SHEET 2 G 3 ASP B 424 ILE B 428 -1 O VAL B 426 N LEU B 381 SHEET 3 G 3 VAL B 433 ASN B 435 -1 O GLU B 434 N VAL B 427 SHEET 1 H 2 GLY B 386 TYR B 388 0 SHEET 2 H 2 GLY B 419 ARG B 421 -1 O ILE B 420 N ILE B 387 LINK OD2 ASP A 246 MG MG A 502 1555 1555 2.39 LINK OD1 ASP A 246 MG MG A 502 1555 1555 2.46 LINK OD2 ASP A 257 MG MG A 501 1555 1555 2.18 LINK OD1 ASP A 257 MG MG A 502 1555 1555 2.36 LINK OD2 ASP A 257 MG MG A 502 1555 1555 2.85 LINK OE2 GLU A 384 MG MG A 501 1555 1555 2.26 LINK OE2 GLU A 423 MG MG A 501 1555 1555 2.34 LINK OE1 GLU A 423 MG MG A 502 1555 1555 2.30 LINK MG MG A 502 O HOH A1174 1555 1555 2.34 LINK OD2 ASP B 246 MG MG B 502 1555 1555 2.41 LINK OD1 ASP B 246 MG MG B 502 1555 1555 2.65 LINK OD2 ASP B 257 MG MG B 501 1555 1555 2.13 LINK OD1 ASP B 257 MG MG B 502 1555 1555 2.46 LINK OD2 ASP B 257 MG MG B 502 1555 1555 2.77 LINK OE2 GLU B 384 MG MG B 501 1555 1555 2.34 LINK OE2 GLU B 423 MG MG B 501 1555 1555 2.45 LINK OE1 GLU B 423 MG MG B 502 1555 1555 2.53 SITE 1 AC1 5 ASP A 257 HIS A 339 GLU A 384 GLU A 423 SITE 2 AC1 5 MG A 502 SITE 1 AC2 6 ASP A 246 ASP A 257 THR A 259 GLU A 423 SITE 2 AC2 6 MG A 501 HOH A1174 SITE 1 AC3 5 ASP B 257 HIS B 339 GLU B 384 GLU B 423 SITE 2 AC3 5 MG B 502 SITE 1 AC4 4 ASP B 246 ASP B 257 GLU B 423 MG B 501 CRYST1 72.569 97.440 126.936 90.00 90.00 90.00 P 21 21 21 8 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 0.013780 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010263 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007878 0.00000