HEADER HYDROLASE/HYDROLASE INHIBITOR 03-JAN-13 4IMQ TITLE STRUCTURAL BASIS OF SUBSTRATE SPECIFICITY AND PROTEASE INHIBITION IN TITLE 2 NORWALK VIRUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3C-LIKE PROTEASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: NORWALK VIRUS PROTEASE (UNP RESIDUES 1101-1281); COMPND 5 SYNONYM: GENOME POLYPROTEIN; COMPND 6 EC: 3.4.22.66; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: PEPTIDE INHIBITOR, SYC8; COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOROVIRUS HU/1968/US; SOURCE 3 ORGANISM_COMMON: HU/NV/NV/1968/US; SOURCE 4 ORGANISM_TAXID: 524364; SOURCE 5 STRAIN: GI/HUMAN/UNITED STATES/NORWALK/1968; SOURCE 6 GENE: ORF1; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 12 ORGANISM_TAXID: 32630 KEYWDS PROTEASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.V.V.PRASAD,Z.MUHAXHIRI,L.DENG,S.SHANKER,B.SANKARAN,M.K.ESTES, AUTHOR 2 T.PALZKILL,Y.SONG REVDAT 4 15-NOV-23 4IMQ 1 LINK ATOM REVDAT 3 20-SEP-23 4IMQ 1 REMARK SEQADV LINK REVDAT 2 10-APR-13 4IMQ 1 JRNL REVDAT 1 20-FEB-13 4IMQ 0 JRNL AUTH Z.MUHAXHIRI,L.DENG,S.SHANKER,B.SANKARAN,M.K.ESTES, JRNL AUTH 2 T.PALZKILL,Y.SONG,B.V.PRASAD JRNL TITL STRUCTURAL BASIS OF SUBSTRATE SPECIFICITY AND PROTEASE JRNL TITL 2 INHIBITION IN NORWALK VIRUS. JRNL REF J.VIROL. V. 87 4281 2013 JRNL REFN ISSN 0022-538X JRNL PMID 23365454 JRNL DOI 10.1128/JVI.02869-12 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7_650) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.59 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 36578 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.185 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1833 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 31.5949 - 3.5263 1.00 2901 148 0.1663 0.1840 REMARK 3 2 3.5263 - 2.7995 1.00 2739 153 0.1640 0.1679 REMARK 3 3 2.7995 - 2.4457 1.00 2695 146 0.1704 0.1898 REMARK 3 4 2.4457 - 2.2222 1.00 2670 147 0.1734 0.1838 REMARK 3 5 2.2222 - 2.0629 1.00 2653 147 0.1656 0.1915 REMARK 3 6 2.0629 - 1.9413 1.00 2669 134 0.1649 0.1792 REMARK 3 7 1.9413 - 1.8441 0.99 2617 139 0.1824 0.1915 REMARK 3 8 1.8441 - 1.7639 1.00 2644 149 0.1535 0.1601 REMARK 3 9 1.7639 - 1.6960 1.00 2642 135 0.1510 0.1774 REMARK 3 10 1.6960 - 1.6374 1.00 2643 139 0.1656 0.1903 REMARK 3 11 1.6374 - 1.5862 1.00 2658 120 0.1768 0.2099 REMARK 3 12 1.5862 - 1.5409 1.00 2646 132 0.2086 0.2193 REMARK 3 13 1.5409 - 1.5003 0.98 2568 144 0.2400 0.2653 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.95 REMARK 3 K_SOL : 0.34 REMARK 3 B_SOL : 37.77 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.460 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) : 0.42790 REMARK 3 B22 (A**2) : 0.42790 REMARK 3 B33 (A**2) : -0.85580 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.020 1416 REMARK 3 ANGLE : 1.639 1868 REMARK 3 CHIRALITY : 0.107 209 REMARK 3 PLANARITY : 0.010 240 REMARK 3 DIHEDRAL : 13.630 494 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 11 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ -1:31) REMARK 3 ORIGIN FOR THE GROUP (A): -33.8865 -31.4511 -3.0380 REMARK 3 T TENSOR REMARK 3 T11: 0.0684 T22: 0.0628 REMARK 3 T33: 0.0575 T12: 0.0133 REMARK 3 T13: 0.0042 T23: 0.0071 REMARK 3 L TENSOR REMARK 3 L11: 0.7185 L22: 0.6495 REMARK 3 L33: 0.3735 L12: -0.0996 REMARK 3 L13: 0.3608 L23: -0.2447 REMARK 3 S TENSOR REMARK 3 S11: -0.0070 S12: 0.0021 S13: -0.0316 REMARK 3 S21: -0.0192 S22: 0.0283 S23: 0.0818 REMARK 3 S31: 0.0392 S32: -0.0668 S33: -0.0201 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 32:43) REMARK 3 ORIGIN FOR THE GROUP (A): -44.7909 -41.8220 -7.0530 REMARK 3 T TENSOR REMARK 3 T11: 0.1109 T22: 0.1641 REMARK 3 T33: 0.1964 T12: -0.0478 REMARK 3 T13: -0.0504 T23: 0.0141 REMARK 3 L TENSOR REMARK 3 L11: 0.8033 L22: 0.4014 REMARK 3 L33: 1.7584 L12: 0.1907 REMARK 3 L13: 0.9146 L23: 0.7373 REMARK 3 S TENSOR REMARK 3 S11: 0.0094 S12: -0.3083 S13: 0.0036 REMARK 3 S21: 0.0214 S22: -0.0407 S23: 0.3152 REMARK 3 S31: 0.2368 S32: -0.7223 S33: -0.0156 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 44:60) REMARK 3 ORIGIN FOR THE GROUP (A): -34.7141 -44.4494 -5.3478 REMARK 3 T TENSOR REMARK 3 T11: 0.1297 T22: 0.0897 REMARK 3 T33: 0.1088 T12: -0.0051 REMARK 3 T13: -0.0123 T23: -0.0064 REMARK 3 L TENSOR REMARK 3 L11: 0.8237 L22: 0.3986 REMARK 3 L33: 0.5942 L12: 0.1326 REMARK 3 L13: 0.3952 L23: 0.2831 REMARK 3 S TENSOR REMARK 3 S11: 0.0142 S12: 0.0022 S13: -0.1669 REMARK 3 S21: -0.0613 S22: 0.0557 S23: -0.0928 REMARK 3 S31: 0.0955 S32: 0.0343 S33: -0.0750 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 61:70) REMARK 3 ORIGIN FOR THE GROUP (A): -32.8871 -33.6190 -15.2452 REMARK 3 T TENSOR REMARK 3 T11: 0.1584 T22: 0.1244 REMARK 3 T33: 0.0821 T12: -0.0094 REMARK 3 T13: -0.0083 T23: -0.0046 REMARK 3 L TENSOR REMARK 3 L11: 1.0134 L22: 0.6447 REMARK 3 L33: 0.0617 L12: -0.0978 REMARK 3 L13: -0.0382 L23: 0.1312 REMARK 3 S TENSOR REMARK 3 S11: -0.1144 S12: 0.3141 S13: -0.0035 REMARK 3 S21: -0.3411 S22: 0.0737 S23: -0.0799 REMARK 3 S31: 0.1754 S32: 0.0192 S33: 0.0102 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 71:93) REMARK 3 ORIGIN FOR THE GROUP (A): -27.2075 -29.5744 4.0382 REMARK 3 T TENSOR REMARK 3 T11: 0.0938 T22: 0.0911 REMARK 3 T33: 0.0677 T12: 0.0162 REMARK 3 T13: -0.0006 T23: 0.0156 REMARK 3 L TENSOR REMARK 3 L11: 0.1955 L22: 0.8372 REMARK 3 L33: 0.1085 L12: -0.0016 REMARK 3 L13: 0.2117 L23: -0.1559 REMARK 3 S TENSOR REMARK 3 S11: -0.0084 S12: -0.0388 S13: -0.0708 REMARK 3 S21: 0.1029 S22: 0.0045 S23: -0.0225 REMARK 3 S31: -0.0343 S32: 0.0812 S33: 0.0031 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 94:111) REMARK 3 ORIGIN FOR THE GROUP (A): -27.8123 -34.8026 12.5958 REMARK 3 T TENSOR REMARK 3 T11: 0.1025 T22: 0.0764 REMARK 3 T33: 0.0662 T12: 0.0042 REMARK 3 T13: -0.0273 T23: 0.0192 REMARK 3 L TENSOR REMARK 3 L11: 0.1862 L22: 0.2510 REMARK 3 L33: 0.1744 L12: -0.2157 REMARK 3 L13: 0.0966 L23: -0.0181 REMARK 3 S TENSOR REMARK 3 S11: 0.0056 S12: -0.0288 S13: -0.0161 REMARK 3 S21: 0.2618 S22: -0.0685 S23: 0.0331 REMARK 3 S31: -0.1165 S32: -0.0315 S33: -0.0282 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 112:121) REMARK 3 ORIGIN FOR THE GROUP (A): -27.8166 -39.3169 12.7211 REMARK 3 T TENSOR REMARK 3 T11: 0.1016 T22: 0.1269 REMARK 3 T33: 0.1079 T12: -0.0085 REMARK 3 T13: -0.0158 T23: 0.0096 REMARK 3 L TENSOR REMARK 3 L11: 0.3306 L22: 1.2086 REMARK 3 L33: 0.8202 L12: -0.1267 REMARK 3 L13: 0.0435 L23: -0.0252 REMARK 3 S TENSOR REMARK 3 S11: -0.0721 S12: -0.1593 S13: -0.0727 REMARK 3 S21: 0.0459 S22: -0.0745 S23: 0.1962 REMARK 3 S31: -0.0607 S32: -0.1632 S33: 0.0128 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 122:149) REMARK 3 ORIGIN FOR THE GROUP (A): -27.9529 -28.8820 5.1080 REMARK 3 T TENSOR REMARK 3 T11: 0.0891 T22: 0.0820 REMARK 3 T33: 0.0868 T12: 0.0114 REMARK 3 T13: 0.0003 T23: 0.0114 REMARK 3 L TENSOR REMARK 3 L11: 0.5165 L22: 1.4682 REMARK 3 L33: 0.9495 L12: 0.1492 REMARK 3 L13: 0.2801 L23: -0.0691 REMARK 3 S TENSOR REMARK 3 S11: -0.0020 S12: 0.0204 S13: 0.0808 REMARK 3 S21: 0.0775 S22: 0.0353 S23: -0.1822 REMARK 3 S31: -0.0915 S32: 0.0575 S33: 0.0326 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 150:160) REMARK 3 ORIGIN FOR THE GROUP (A): -26.4795 -32.1471 3.1177 REMARK 3 T TENSOR REMARK 3 T11: 0.0739 T22: 0.0945 REMARK 3 T33: 0.0875 T12: 0.0064 REMARK 3 T13: -0.0059 T23: 0.0060 REMARK 3 L TENSOR REMARK 3 L11: 0.4621 L22: 1.1352 REMARK 3 L33: 0.2059 L12: -0.1586 REMARK 3 L13: 0.1105 L23: 0.3366 REMARK 3 S TENSOR REMARK 3 S11: 0.0124 S12: -0.0514 S13: 0.0373 REMARK 3 S21: 0.1168 S22: 0.0197 S23: -0.1793 REMARK 3 S31: 0.0239 S32: 0.1207 S33: -0.0260 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 161:170) REMARK 3 ORIGIN FOR THE GROUP (A): -30.8470 -33.1654 16.5512 REMARK 3 T TENSOR REMARK 3 T11: 0.1776 T22: 0.1906 REMARK 3 T33: 0.0881 T12: 0.0208 REMARK 3 T13: 0.0117 T23: -0.0207 REMARK 3 L TENSOR REMARK 3 L11: 1.4393 L22: 1.8597 REMARK 3 L33: 1.7354 L12: -1.3219 REMARK 3 L13: -1.5106 L23: 1.4263 REMARK 3 S TENSOR REMARK 3 S11: 0.0512 S12: -0.3053 S13: 0.1222 REMARK 3 S21: 0.4144 S22: -0.0092 S23: 0.0584 REMARK 3 S31: 0.0915 S32: -0.4622 S33: 0.0532 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 171:181) REMARK 3 ORIGIN FOR THE GROUP (A): -19.0102 -46.1761 7.4055 REMARK 3 T TENSOR REMARK 3 T11: 0.2193 T22: 0.3457 REMARK 3 T33: 0.2757 T12: 0.0211 REMARK 3 T13: -0.0374 T23: 0.0718 REMARK 3 L TENSOR REMARK 3 L11: 3.1930 L22: 0.4575 REMARK 3 L33: 0.8719 L12: 0.6104 REMARK 3 L13: -1.4305 L23: 0.0052 REMARK 3 S TENSOR REMARK 3 S11: 0.2868 S12: -0.7089 S13: -0.8167 REMARK 3 S21: 0.2315 S22: -0.2444 S23: -0.1185 REMARK 3 S31: 0.1745 S32: 0.9189 S33: 0.0329 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 4IMQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JAN-13. REMARK 100 THE DEPOSITION ID IS D_1000076946. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAR-11 REMARK 200 TEMPERATURE (KELVIN) : 77 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97921 REMARK 200 MONOCHROMATOR : ROSENBAUM-ROCK HIGH-RESOLUTION REMARK 200 DOUBLE-CRYSTAL MONOCHROMATOR. REMARK 200 LN2 COOLED FIRST CRYSTAL, REMARK 200 SAGITTAL FOCUSING 2ND CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36665 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 15.90 REMARK 200 R MERGE (I) : 0.06900 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) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 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: PHASER REMARK 200 STARTING MODEL: 2FYQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.79 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1-0.3 M POTASSIUM, THIOCYANATE AND REMARK 280 25-30%, POLYETHYLENE GLYCOL, MONOMETHYL ETHER 2,000 , PH 7, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 34.23600 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 17.11800 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 25.67700 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 8.55900 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 42.79500 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 34.23600 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 17.11800 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 8.55900 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 25.67700 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 42.79500 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14150 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -47.0 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 350 BIOMT1 2 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 34.23600 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 464 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 493 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 523 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 REMARK 400 THE PEPTIDE INHIBITOR, SYC8 IS OLIGOPEPTIDE, A MEMBER OF INHIBITOR REMARK 400 CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: PEPTIDE INHIBITOR, SYC8 REMARK 400 CHAIN: B REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: NULL 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 THR A 123 REMARK 465 GLY A 124 REMARK 465 ALA A 125 REMARK 465 ASN A 126 REMARK 465 ALA A 127 REMARK 465 LYS A 128 REMARK 465 GLY A 129 REMARK 465 MET A 130 REMARK 465 ASP A 131 REMARK 465 LEU A 132 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 PHQ B 1 O2 C2 C3 C4 C5 C6 C7 REMARK 480 PHQ B 1 C8 REMARK 480 PHE B 3 CB CG CD1 CD2 CE1 CE2 CZ 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 501 O HOH A 531 1.82 REMARK 500 CD GLU A 42 NZ LYS A 62 1.85 REMARK 500 OE2 GLU A 42 NZ LYS A 62 1.88 REMARK 500 OE1 GLU A 175 O HOH A 525 1.97 REMARK 500 O HOH A 486 O HOH A 496 2.01 REMARK 500 O HOH A 520 O HOH A 537 2.02 REMARK 500 OE1 GLU A 42 NZ LYS A 62 2.04 REMARK 500 O HOH A 526 O HOH A 540 2.08 REMARK 500 O HOH A 507 O HOH A 512 2.08 REMARK 500 O HOH A 482 O HOH A 525 2.13 REMARK 500 O HOH A 371 O HOH A 424 2.18 REMARK 500 O HOH A 485 O HOH A 486 2.18 REMARK 500 N GLY A 133 O HOH A 490 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 455 O HOH A 455 10445 1.31 REMARK 500 O HOH A 427 O HOH A 434 12554 2.00 REMARK 500 OD2 ASP A 150 OD2 ASP A 150 7554 2.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 LYS A 62 CE LYS A 62 NZ -0.214 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 SER A 14 34.85 -95.40 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 NA A 202 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 134 OG1 REMARK 620 2 GLY A 164 O 142.2 REMARK 620 3 HOH A 503 O 89.4 106.3 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 SCN A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SCN A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN B OF PEPTIDE INHIBITOR REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4IN1 RELATED DB: PDB REMARK 900 RELATED ID: 4IMZ RELATED DB: PDB REMARK 900 RELATED ID: 4IN2 RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE UNBOUND FORM OF THE PEPTIDE INHIBITOR SYC8 HAD AN ALDEHYDE REMARK 999 GROUP THAT UNDERWENT TO REDUCTION UPON REACTION WITH CYS 139 DBREF 4IMQ A 1 181 UNP Q83883 POLG_NVN68 1101 1281 DBREF 4IMQ B 1 4 PDB 4IMQ 4IMQ 1 4 SEQADV 4IMQ GLY A -1 UNP Q83883 EXPRESSION TAG SEQADV 4IMQ SER A 0 UNP Q83883 EXPRESSION TAG SEQRES 1 A 183 GLY SER ALA PRO PRO THR LEU TRP SER ARG VAL THR LYS SEQRES 2 A 183 PHE GLY SER GLY TRP GLY PHE TRP VAL SER PRO THR VAL SEQRES 3 A 183 PHE ILE THR THR THR HIS VAL VAL PRO THR GLY VAL LYS SEQRES 4 A 183 GLU PHE PHE GLY GLU PRO LEU SER SER ILE ALA ILE HIS SEQRES 5 A 183 GLN ALA GLY GLU PHE THR GLN PHE ARG PHE SER LYS LYS SEQRES 6 A 183 MET ARG PRO ASP LEU THR GLY MET VAL LEU GLU GLU GLY SEQRES 7 A 183 CYS PRO GLU GLY THR VAL CYS SER VAL LEU ILE LYS ARG SEQRES 8 A 183 ASP SER GLY GLU LEU LEU PRO LEU ALA VAL ARG MET GLY SEQRES 9 A 183 ALA ILE ALA SER MET ARG ILE GLN GLY ARG LEU VAL HIS SEQRES 10 A 183 GLY GLN SER GLY MET LEU LEU THR GLY ALA ASN ALA LYS SEQRES 11 A 183 GLY MET ASP LEU GLY THR ILE PRO GLY ASP CYS GLY ALA SEQRES 12 A 183 PRO TYR VAL HIS LYS ARG GLY ASN ASP TRP VAL VAL CYS SEQRES 13 A 183 GLY VAL HIS ALA ALA ALA THR LYS SER GLY ASN THR VAL SEQRES 14 A 183 VAL CYS ALA VAL GLN ALA GLY GLU GLY GLU THR ALA LEU SEQRES 15 A 183 GLU SEQRES 1 B 4 PHQ LEU PHE 1HD HET PHQ B 1 10 HET 1HD B 4 9 HET SCN A 201 3 HET NA A 202 1 HET SCN A 203 3 HETNAM PHQ BENZYL CHLOROCARBONATE HETNAM 1HD N-[(2S)-2-AMINO-3-HYDROXYPROPYL]ACETAMIDE HETNAM SCN THIOCYANATE ION HETNAM NA SODIUM ION FORMUL 2 PHQ C8 H7 CL O2 FORMUL 2 1HD C5 H12 N2 O2 FORMUL 3 SCN 2(C N S 1-) FORMUL 4 NA NA 1+ FORMUL 6 HOH *243(H2 O) HELIX 1 1 PRO A 2 ARG A 8 1 7 HELIX 2 2 HIS A 30 VAL A 32 5 3 HELIX 3 3 ILE A 135 CYS A 139 5 5 SHEET 1 A 5 VAL A 9 PHE A 12 0 SHEET 2 A 5 GLY A 15 TRP A 19 -1 O GLY A 17 N THR A 10 SHEET 3 A 5 VAL A 24 THR A 28 -1 O ILE A 26 N PHE A 18 SHEET 4 A 5 PHE A 55 PHE A 60 -1 O PHE A 58 N PHE A 25 SHEET 5 A 5 ILE A 47 ALA A 52 -1 N HIS A 50 O GLN A 57 SHEET 1 B 2 GLU A 38 PHE A 39 0 SHEET 2 B 2 GLU A 42 PRO A 43 -1 O GLU A 42 N PHE A 39 SHEET 1 C 8 VAL A 72 LEU A 73 0 SHEET 2 C 8 ASP A 150 ALA A 160 1 O VAL A 153 N VAL A 72 SHEET 3 C 8 THR A 166 ALA A 170 -1 O VAL A 168 N ALA A 158 SHEET 4 C 8 ARG A 112 LEU A 121 -1 N GLY A 119 O VAL A 167 SHEET 5 C 8 LEU A 94 ILE A 109 -1 N GLY A 102 O SER A 118 SHEET 6 C 8 VAL A 82 LYS A 88 -1 N ILE A 87 O LEU A 95 SHEET 7 C 8 PRO A 142 ARG A 147 -1 O VAL A 144 N SER A 84 SHEET 8 C 8 ASP A 150 ALA A 160 -1 O ASP A 150 N ARG A 147 LINK SG CYS A 139 C 1HD B 4 1555 1555 1.80 LINK C1 PHQ B 1 N LEU B 2 1555 1555 1.34 LINK C PHE B 3 N 1HD B 4 1555 1555 1.29 LINK OG1 THR A 134 NA NA A 202 1555 1555 2.86 LINK O GLY A 164 NA NA A 202 1555 1555 2.78 LINK NA NA A 202 O HOH A 503 1555 1555 2.72 SITE 1 AC1 5 PRO A 2 THR A 4 LEU A 5 ARG A 8 SITE 2 AC1 5 HOH A 404 SITE 1 AC2 4 LEU A 121 THR A 134 GLY A 164 HOH A 503 SITE 1 AC3 4 HIS A 50 GLN A 172 ALA A 173 HOH A 390 SITE 1 AC4 12 HIS A 30 ILE A 109 GLN A 110 THR A 134 SITE 2 AC4 12 ILE A 135 PRO A 136 CYS A 139 HIS A 157 SITE 3 AC4 12 ALA A 158 ALA A 159 ALA A 160 GLU A 181 CRYST1 122.396 122.396 51.354 90.00 90.00 120.00 P 65 2 2 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.008170 0.004717 0.000000 0.00000 SCALE2 0.000000 0.009434 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019473 0.00000